Events under 'Seminar'

Title: The Arabidopsis methyl-binding protein MBD13 is a regulator of gene expression
Wim Reidt, Department of Forest Genetics and Plant Physiology, SLU
Place: KB3A9, KBC

Presentation of Master Thesis Title: Screening for mutants with delayed leaf senescence in Arabidopsis by Iftikhar Ahmad Place: KBF30, UPSC

Programme
Place: Lecture Hall N320, Naturvetarhuset

13.00 Introduction and Presentation of the new Electron Microscopy Platform

13.15 Dr. York-Dieter Stierhof, University of Tübingen, Germany, Improved cryosection immunolabelling and ultra-structure preservation of plant, insect and nematode tissues.

14.15 Dr Thomas Marlovits, IMBA, Vienna, Austria, Armed Bacteria: Reprogramming of the Type III Secretion System.

Place: KBC-huset, 5th floor, Chemistry 15.00 Refreshments and demo of EM facility (room B5-43-01 - B5-41-07)

Poster

Umeå Plant Science Centre and UPSC Berzelii Centre of Forest Biotechnology organises
09.00-14.30 in KB3A9, KBC
15.00-16.30 in KB3B3, KBC

Programme

Title: An International Consortium In Conifer Genomics. Why, How, Who and What?
by John MacKay, Laval University, Quebec City, Canada
Place: "Lilla hörsalen" KB3A9, KBC
Host: Pär Ingvarsson

Title: Active Oxygen Involvement in Developmental Processes in Populus. With Emphasis on HipI-Superoxide Dismutase
by Vaibhav Srivastava, Department of Forest Genetics and Plant Physiology, SLU
Place: P-O Bäckströms sal, SLU

Opponent: Prof. Birte Svensson, Department of Systems Biology, The Technical University of Denmark, Söltoft Plads, Building 224, DK-2800 Kgs. Lyngby, Denmark

Title: Induction of leaf senescence by low light
Bastiaan Brouwer, Department of Plant Physiology, Umeå university
Place: KB3A9, KBC

Degree thesis in Plant and Forest Biotechnology, 30 ECTS
Title: Comparative Genomics: Understanding Regulation of Hydrogenases in the Nitrogen-Fixing Frankia
by Chatchai Kosawang
Place: KBF30, UPSC

Title: Investigation of enzymes and substrates of the Arabidopsis SUMO conjugation system
Dr Rebecca Hermkes, Max-Planck Institut für Züchtungsfoschung, Köln, Germany
Place: KB4C10, KBC

Title: Functional Characterization of Putative Cellulose Biosynthesis Genes in Populus
David Öhman, Department of Forest Genetics and Plant Physiology, SLU
Place: KB3A9, KBC

Degree thesis in Plant Molecular Biology, 30 ECTS
Title: CLE/RLK Regulated Vascular Signalling Pathways in Plants
by Melis Kucukoglu
Place: KBF30, UPSC

Title: Metabolic Aspects of the Carbon Concentrating Mechanism in Chlamydomonas reinhardtii
by Linda Renberg, Department of Plant Physiology, Umeå university
Place: KB3A9 "Lilla hörsalen", KBC

Title: Modification of the Plant Retinoblastoma-Related Protein (RBR1) by SUMO: Structural and Functional Studies
Edward Businge
Place: KBF30, UPSC

Title: Gibberellin Signalling: From Models to Crops
by Dr Stephen G. Thomas, Plant Science Department, Rothamsted Research
Place: Lilla hörsalen KB3A9, KBC

Title: Integration of stress sensing and plant growth by cross talk between ER and brassinosteroid signalling
Professor Steven M Smith, ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia
Place: Lilla hörsalen KB3A9, KBC

Presentation of Degree thesis in Plant and Forest Biotechnology
Title: Diurnal dynamics in the levels of indole acetic acid
by Ilkka Sairanen
Place: KBF30, UPSC

Title: The role of Sucrose Synthase in Hybrid Aspen – Clues from an in-depth cell wall characterization of an RNAi construct
Lorenz Gerber, Department of Forest Genetics and Plant Physiology, SLU
Place: KB3A9, KBC

Title: Micropropagation, slow growth storage and cryopreservation of woody plant germplasm at the CNR-IVALSA Institute of Florence
Dr. Maurizio Lambardi, CNR, National Research Council of Italy, IVALSA/Istituto per la Valorizzazione del Legno e delle Specie Arboree, Sesto Fiorentino, Italy
Place: KBF30, UPSC

Title: Defensive pigmentation (coloration) in plants
Prof. Simcha Lev-Yadun, Dept of Biology, University of Haifa – Oranim, Tivon, Israel
Place: KB3A9, KBC

Title: Wood fibers in Arabidopsis
Prof. Simcha Lev-Yadun
Place: KB3A9, KBC

Title: Visualization of protein complex formation
by Dr Thorsten Seidel, Biochemistry and Physiology of Plants, Bielefeld University, Germany
Place: KBF30, UPSC

The candidates for the position as Assistant Professor in “Experimental Plant Biology” (at Dept. Forest Genetics and Plant Physiology, UPSC) will  present their research. Each presentation is  40 min + time for question.

The schedule is:

13:00 ? 13:50  Catherine Campbell (UPSC)
14:00 ? 14:50 Nathaniel Street (UPSC)
15:00 ? 16:00 Stephanie Robert (VIB, Gent)

Place: Lecture hall KBF31 (opposite our lecture hall KBF30)

Welcome

Title: Chloroplast - Nuclear Signalling: A tale of unexpected locations, phosphatases and gene regulation
by Prof. Barry Pogson, ARC Centre of Excellence in Plant Energy Biology, Australian National University, Canberra, Australia
Place: KB3A9, KBC

Prof. Conrad Mullineaux, School of Biological and Chemical Sciences, Queen Mary, University of London, UK.

Place: KB3A9

Title: Intercellular communication in filamentous cyanobacteria

Abstract:
Filamentous, heterocyst-forming cyanobacteria are multicellular prokaryotes in which different cell types must communicate and co-operate.  In particular, heterocysts and vegetative cells must exchange signals and metabolites.  We have used a technique involving fluorescent tracer dyes, confocal microscopy and Fluorescence Recovery after Photobleaching to demonstrate that there are channels allowing the rapid, non-selective of diffusion of small molecules from cell to cell in the filament.  These channels are probably the "microplasmodesmata":tiny protein structures observed long ago in electron micrographs that appear to link the cytoplasms of adjacent cells.  We have identified a protein known as FraG as the key component of the channels. The activity of the channels is strongly regulated, and this regulation sheds new light on the relationship between the different cells in the filament

Title: iUPSC database project: a UPSC marked place and contact interface under development

Presentation by Lottie Eriksson (UPSC, international officer) and Simon Birve (UPSC, web developer)

Place: UPSC lunchroom

Title: Information on insurance

E. Törngren (Kammarkollegiet), A. Konradsson and C. Jacobsson (Länsförsäkringar)

Place: UPSC's lunchroom

Title: X-ray Spectroscopy for Studying Photosynthetic Water-Splitting Reactions
by Dr. Junko Yano, Lawrence Berkeley National Laboratory, Berkeley, California, USA
Place: KB3A9, KBC

Title: EU grant opportunities

Presentation by Lars Wikman (External Relations, Umeå university) & Professor Petter Gustafsson (UPSC)

Place: UPSC lunchroom

Title: Microtubules and xylem vessel cell wall patterning
Edouard Pesquet, Department of Plant Physiology, Umeå university
Place: KB3A9, KBC

Title: Polarized Rac/Rop signaling underlying directional cell expansion
by Benedikt Kost, Department of Plant Biology and Forest Genetics, SLU, Uppsala
Place: KB3A9, KBC

Title: Metabolic engineering of tomato fruit flavor: A paradigm for quality improvement
Prof Harry Klee, University of Florida
Place: KB3A9, KBC

Title: New Insights into Ethylene Signalling and Wood Development
Opponent: Harry Klee
Place: Björken, SLU

Seminar is cancelled
Title: An Appetite for Destruction – The ATP-dependent Clp Protease in Cyanobacteria and Plant Chloroplasts
by Professor Adrian K. Clarke, Department of Plant and Environmental Sciences, University of Gothenburg
Place: KBF31, Fysiologihuset

Title: Characterisation of regulatory pathways for nuclear genes encoding mitochondrial proteins
Professor Jim Whelan, ARC Centre of Excellence in Plant Energy Biology, University of Western Australia
Place: KB4C10, UPSC

Title: Molecular insight into xyloglucan degradation and re-arrangement in plant cell walls
Dr. Harry Brummer, School of Biotechnology, Royal Institute of Technology (KTH), AlbaNova University Centre, 106 91 Stockholm, Sweden
Place: KB3B3, KBC

Title: Plant glycobiology : new data from microalgae study
by Dr. Muriel Bardor, Glyco-MEV, Université de Rouen, SCUEOR, Mont-Saint-Aignan Cedex, France
Place: KB3A9, KBC

Title: Targeting and function of CAH1 – characterization of a novel protein pathway to the plant cell
chloroplast
by Stefan Burén, Department of Plant Physiology, Umeå University
Place: KB3A9, KBC

Opponent: Dr Muriel Bardor, Université de Rouen, CNRS UMR 6037, SCUEOR, 76 821 Mont-Saint-Aignan Cedex, France

Title: Breeding for durable tolerance to Melampsora larici populina rust in poplar: lessons from collaborative research between molecular biologists, physiologists, geneticists, pathologists and breeders
by Catherine Bastien, INRA Orléans, FRANCE
Place: Aspen at SLU

Title: Systems Analysis of Circadian Signalling
Dr. Alex Webb, Department of Plant Sciences, University of Cambridge
Place: KB3A9, KBC

Abstract
The plant circadian clock regulates many aspects of plant growth and development and provides competitive advantage (Dodd et al. 2005). This is achieved in part by the circadian oscillator regulating the transcription of up to 30% of the Arabidopsis genome. Our research focuses on the circadian modulation of signalling networks. We use physiological, modelling, reverse genetic and bioinformatic tools to determine the role of oscillations of cytosolic free Ca2+ [Ca2+]cyt in the circadian signalling network. I will describe new evidence which suggests that circadian oscillations of [Ca2+]cyt driven by cyclic adenosine diphosphate ribose (cADPR) are sensed by calmodulin-like proteins to regulate circadian oscillator function (Dodd et al., 2007 and Gardner et al., in preparation). We have used linear systems modelling to describe the circadian regulation of [Ca2+]cyt and also 3503 circadian genes. Simulations within these models and testing of hypotheses generated by the models provide insight into the nature and function of the network connections in the circadian signalling pathway. Our data suggest that dual regulation of [Ca2+]cyt by both the circadian oscillator and light participates in circadian oscillator function, possibly as part of loop comprising ADPR cyclase, cADPR and Ca2+.  Our systems analyses identify that the circadian oscillator alone might not be sufficient for correct biological timing.

References
Dodd, A.N., Gardner, M.J., Hotta, C.T., Hubbard, K.E., Dalchau, N., Love, J., Assie, J.M., Robertson, F.C., Kyed Jakobsen, M., Gonçalves, J., Sanders D. and Webb A.A.R. (2007) A cADPR-based feedback loop modulates the Arabidopsis circadian clock. Science 318, 1789 -1792.

Dodd, A.N., Salathia, N., Hall, A., Kévei, E., Tóth, R., Nagy, F., Hibberd, J.M., Millar, A.J. and Webb, A.A.R. (2005) Plant circadian clocks improve growth, competitive advantage and survival. Science 309, 630 – 633.

Title: Calcium Manganese(III) Oxides (CaMn2O4·xH2O) as biomimetic oxygen-evolving catalysts
Philipp Kurz, University Kiel, Germany
Place: KB3A9, lilla hörsalen, KBC

Title: Autumn Senescence in Aspen
Lars Björkén, Department of Plant Physiology, Umeå University
Place: KB3A9, KBC

Title: Scots pine genetics and genomics
by Rosario Garcia Gil, Department of Forest Genetics and Plant Physiology, SLU
Place: Lecture Hall Aspen, SLU

It is well recognized that due to limited resources and climate change societies world wide need to move away from relying on fossil fuels for heating, electricity and mobility towards employing renewable energy resources.
At Umeå University several groups are working on different renewable energy related projects that range from improving biomass production on the gene to ecosystem levels, over biophysical studies of the mechanisms of energy relevant enzymes to studying artificial catalysts for watersplitting, H₂-production and devices for lightharvesting.
This workshop aims at raising the awareness about this research among graduate students, postdocs and all researchers at UmU, as well as within Sweden and abroad.
Four outstanding invited speakers from the USA, Germany, Finland and Stockholm will also bring new expertise to Umeå University.

Flyer.pdf

Title: Molecular Control of Activity-Dormancy Transitions in Populus
Fil mag Madeleine Englund, Forest Genetics and Plant Physiology, SLU
Place: Lecture Hall Björken, SLU, Umeå

Opponent: Docent Folke Sitbon, Institutionen för växtbiologi och skogsgenetik, SLU, Uppsala

Title: Gene expression profiling of potato tubers reveals key genes in glycoalkaloid biosynthesis
by Docent Folke Sitbon, Department of Plant Biology, SLU, Uppsala
Place: KB3A9, KBC

Title: Phenolic profiling of Populus spp.
by Sireesha Potluru
Place: KBF30, UPSC

Title: Biochemistry and mechanisms of extreme frost tolerance in boreal conifer needles
Prof. Richard Strimbeck, Institutt for biologi, Norges tekniske-naturvitenskapelige universitet, Trondheim, Norway
Place: KBF30, UPSC

Title: Autumn senescence in Populus tremula
by Erik Olofsson
Place: KBF30, UPSC

Title: Evolution and development of secondary growth in trees
Dr Andrew Groover, Institute of Forest Genetics, USDA Forest Service, CA, USA
Place: KB3B3, KBC

Title: Regulation of vascular cambium identity and activity
by Jeanette Nilsson, Department of Forest Genetics and Plant Physiology, SLU
Place: Lecture Hall Björken, SLU

Opponent: Dr Andrew Groover, Institute of Forest Genetics, USDA Forest Service, CA, USA.

Title: The remodelling of mitochondrial metabolism in response to thermal variation and the Spatio-temporal analysis of leaf proteins in plants by MALDI-imaging mass spectrometry
by Dr Nicolas Taylor, ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Perth, Australia
Place: KB3B3, KBC

Title: Integration of Arabidopsis and Poplar Model Systems to Elucidate Gene Function during Wood Formation
by Ellinor Edvardsson, Department of Forest Genetics and Plant Physiology, SLU
Place: Björken, SLU, Umeå

Opponent: Docent Ines Ezcurra, Skolan för Bioteknologi, Stockholm.

Title: Control of flowering time in sugar beet
by Pierre Pin, Department of Forest Genetics and Plant Physiology, SLU and Syngenta Seeds AB
Place: KB3A9, KBC

Title: Starch, sugar and starvation
Alison Smith, John Innes Centre, UK
Place: KB3B3, KBC

Title: Identification of downstream components in the receptor-like kinase SRF6 and SRF7 pathway
by Mir Amir Hossein Mahboubi
Place: KBF30, UPSC

Title: Aging and the regulated inheritance of protein damage in yeast
Prof. Thomas Nyström, Dept of Cell- and Molecular Biology, Göteborg university
Place: KB3A9, KBC

Title: The biosynthesis of plant cell wall polysacharides advances through forward genetic approaches
by Markus Pauly, University of California, Berkeley
Place: KB3A9, KBC

Title: Identification of signaling components in the response to excess light in Arabidopsis thaliana
by Louise Norén
Place: KBF30, UPSC

Title: Modification of plant cell wall sugar composition for biorefining and bioenergy
by Paul Dupree, Dept of Biochemistry, University of Cambridge
Place: KB3A9, KBC

Title: Analysis of trichome polarity in the kreuz und quer (kuq) mutant of Arabidopsis thaliana and characterization of antisera against the KUQ protein
by Lothr Kalmbach
Place: KB4C10, UPSC

Title: Screening tools to unravel transcription factors involved in lignification
by Lisa Sundin
Place: KBF30, UPSC

The biogenesis of multivesicular bodies in plants
Dr. Corrado Viotti, Heidelberg Institute for Plant Sciences, University of Heidelberg, Germany
Place: KB3A9, KBC

Shade avoidance and Natural Variation in Arabidopsis and Tomato
Julin Maloof, Department of Plant Biology, University of California, Davis
Place: KB3A9, KBC

 Further reading

Timing is everything: the plant circadian clock and its outputs
Stacey Harmer, Department of Plant Biology, University of California, Davis
Place: KB3A9, KBC

Further reading

Seminars by candidates for FoAss positions in
Tree genomics/bioinformatics
Place: KBF31, Fysiologihuset

Programme
14.00 Nathaniel Street, Umeå Plant Science Centre
Spaghetti: Tastes good if you don't mind the mess
15.00 Stacey Lee Thompson, California State University, Los Angeles
The comparative genomics of adaptation for forest trees
16.00 Andreas Sjödin, Swedish Defence Research Agency (FOI), Umeå
Seeing the unseen: Microbial forensics in the age of next generation sequencing

Characterization of mutants in the ACTIN-INTERACTING PROTEIN 1-2 (AIP1-2) gene of Arabidopsis thaliana and of AIP1-1 and AIP1-2 protein interactions
30 ECTS

Andrea Claes
Place: KBF30, UPSC

Title: Analysis of bud sed in white spruce
Janice Cooke, Edmonton, University of Alberta, Canada
Place: KB3B3, KBC

Live cell imaging reveals interaction and cooperation between actin filaments and microtubules in Arabidopsis.

Staffan Persson, Max Planck Institute for Molecular Plant Physiology, Potsdam, Germany
Place: KB3A9, KBC

Title: Bioinformatics and microgenomics integration for discovering cell specific gene regulation in a complex plant genome
by Martina Strömvik, Department of Plant Science/McGill Centre for Bioinformatics, McGill University, Canada
Place: KB3A9, KBC

Title: Tools for massive biology at SciLifeLab
bu Joakim Lundeberg, Science for Life Laboratory (SciLifeLab),
Professor at School of Biotechnology, KTH, Stockholm and Platform manager for next-generation sequencing at SciLifeLab
Place: KB3B1 "Stora hörsalen", KBC

Title: What is image analysis and how can it help you? ­ applicationexamples from microscopy
Speaker: Ida-Maria Sintorn, Assistant Professor, Centre for Image Analysis,
Uppsala University & SLU
Place: KB3B3, KBC

Abstract: Digital image processing and analysis is a field in computer science dealing with images of two and more dimensions. The images can come from any source - from satellites to microscopes and everything in between.
At the Centre for Image Analysis (CBA), a joint entity between The Swedish University of Agricultural Sciences and Uppsala University, we work with theoretical development of image processing as such but also with the goal of developing better methods, algorithms and systems for applications
primarily within biomedicine and forestry.
In this presentation I will explain central concepts in the image analysis field and how it is used in various application areas. The application examples will mainly be with images from different kinds of microscopy and from past and current projects at CBA including: virus morphology analysis
and diagnostics in TEM images; analysis of spatial relationships of point-like fluorescent signals in 2D and 3D cell images; 3D analysis of paper and wood fibre based composite materials; quantification of wood fibre
quality in UV-light microscopy images. Hopefully this will relate to research at UPSC and inspire you all to think about and discuss how image analysis can be utilized in your own research.

Title: Control of Autumn Senescence in European Aspen

Lars Björkén, Department of Plant Physiology, Umeå University

Place: KB3A9, "Lilla hörsalen", KBC

Title: Metabolic Reprogramming by Sucrose Controlled bZIP Transcription Factors

Johannes Hanson, Molecular Plant Physiology, Utrecht University

Place: KB3A9, "Lilla hörsalen", KBC

Title: Wood-Biology Through Quantitative Proteomics

Joakim Bygdell, Department of Forest Genetics and Plant Physiology, SLU

Place: KB3A9, KBC

Title: Optimizing ethanol production by rot fungi

Marie Holmgren, Department of Plant Physiology, Umeå university

Place: KB3A9 "Lilla hörsalen", KBC

Title: RETINOBLASTOMA-RELATED protein: new roles for a key regulator of the cell cycle in Arabidopsis thaliana
Dr Lorenzo Borghi, Department of Biology, ETH Zürich
Place: KB3A9 "Lilla hörsalen", KBC

Title: KREUZ und QUER gene function during establishment of planar polarity in Arabidopsis
Stefano Pietra, Department of Plant Physiology, Umeå university
Place: KB3A9 "Lilla hörsalen", KBC

Title: Improvement of drought resistance in plants by targeted manipulation of traits associated with cellular tolerance and water relations
Lecturer: Dr. Nataraja Karaba N, Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bangalore, India
Place: KB3B3, KBC

Title: The endodermis - how do plants build a selective and protective barrier to the soil?
Dr. Nico Geldner, Department of Plant Molecular Biology, University of Lausanne, Switzerland
Place: KB3A9 "Lilla hörsalen", KBC

Title: Photoperiod adaptation along a latitudinal gradient in European aspen (Populus tremula).
Time & Place: 14:30 today in the fourth floor Coffee room, SLU.

Title: Development of GMO cultivars as an integrated part of contemporary plant breeding
Hans Svensk
Place: KB3A9 "Lilla hörsalen", KBC

Title: Dissecting sterol function during cytokinesis and clathrin-dependent endocytosis in Arabidopsis
by Marcia Frescatada-Rosa, Department of Plant Physiology, Umeå university
Place: KB3A9, KBC

Title: Epigenetic inheritance through DNA methylation

Professor Hiroshi Sano
Japan Society for the Promotion of Science, Stockholm office
Visiting Professor, Department of Botany, Stockholm University
Professor Emeritus, Nara Institute of Science and Technology (NAIST), Japan

Place:  KB3A9

Title: Epigenetic mechanisms establishing cell identity in plants
Lars Hennig, Swedish University of Agricultural Sciences, Uppsala BioCenter,
Department of Plant Biology and Forest Genetics, Uppsala, Sweden
Place: KB3A9 "Lilla hörsalen", KBC

Title: Identifying the calcium sources for plant available Ca.
Institute: Totalförsvarets Forskningsinstitut (FOI), Umeå.
Time & Place: 14:30 2nd March in the fourth floor coffee room, SLU building.

Title: Systems analysis of root gravitropism: new insights into an old hypothesis using a novel auxin reporter
Malcolm Bennett, BBSRC/EPSRC Centre for Plant Integrative Biology, University of Nottingham, UK
Place: KB3B1 "Stora hörsalen", KBC

Abstract
Gravity represents a critical environmental signal for land plants that profoundly influences their growth and development. Reorientation of Arabidopsis seedlings induces an asymmetric release of the growth regulator auxin from gravity-sensing columella cells at the root apex. The resulting lateral auxin gradient is hypothesised to drive a differential growth response termed root gravitropism; where cell expansion on the lower side of the elongation zone is reduced relative to the upper side, causing the root to bend downwards. Despite representing one of the oldest hypotheses in plant biology, key aspects of this model remain to be validated. For example, how rapidly does the lateral auxin gradient form? If auxin redistribution drives root bending, its gradient should form prior to organ curvature. How long does the lateral auxin gradient persist? Does it exist for the duration of a root gravitropic bending response or for a shorter period? What triggers auxin redistribution to return to equal levels? Finally, which root tissue(s) does auxin target to cause organ curvature?

A major problem in studying the redistribution of auxin in root tissues is the lack of tools to monitor hormone concentrations at high spatio-temporal resolution. We have employed a novel Aux/IAA-based reporter, DII-VENUS (developed by Teva Vernoux, ENS-Lyon), in conjunction with a mathematical model to quantify auxin redistribution following a gravity stimulus. Our multidisciplinary approach detected rapid auxin redistribution to cells on the lower side of the root apex minutes after a gravity stimulus and then a rapid loss of auxin asymmetry as bending roots reached an angle of 40°. Based on this high resolution spatio-temporal information we conclude that auxin functions as the gravitropic effector and a novel ‘tipping point’ mechanism operates to reverse the asymmetric auxin flow at the mid-point of root bending.

Title: Functional analysis of nuclear-encoded chloroplast proteins in Arabidopsis
Speaker: Dr Fumiyoshi Myouga, RIKEN Plant Science Center, Yokohama, Japan and Umeå Plant Science Centre
Place: KB3A9 "Lilla hörsalen", KBC

Title: BILS, Bioinformatics Infrastructure for Life Sciences
Bengt Persson, director for BILS, professor in Bioinformatics at Linköpings universitet & Karolinska institutet
Place: KB3A9 "Lilla hörsalen", KBC

Abstract:
Nu byggs en nationell infrastruktur i Sverige för att ge bioinformatikstöd till livsvetenskaperna. Syftet är att hjälpa svenska forskare med såväl generell support som specialiserade tjänster. Nätverket kommer när det är fullt utbyggt att ha noder och lokala kontaktpersoner på de sex stora universitetsorterna. Dessutom ska det knyta till sig ett antal specialister på till exempel storskaliga proteinstudier eller DNA-sekvensering. BILS uppgift är att koordinera och ge generell eller specialiserad bioinformatiksupport till forskargrupper. Nätverket ska dessutom ansvara för att biologiska data lagras långsiktigt. Det ska också tillhandahålla verktyg som databaser, program och bioinformatiska metoder. Forskare ska även kunna skicka in material och få hjälp att analysera data

Title: Creativity in research and innovation
Speaker: Prof. Gunnar Öquist, Department of Plant Physiology, Umeå university
Place: KB3A9 "Lilla hörsalen", KBC

Title: Wood formation in Arabidopsis and poplar: from transcriptomics to interactomics and functional genomics
Lecturer: Eric Beers, Virginia Tech, Blacksburg, VA
Place: KB3A9 "Lilla hörsalen", KBC

Title: Proteomic Applications in Medicine - Examples from Neurodegeneration, Sensory System and Cancer
Lecturer:   Dr. Thomas Schulenborg, University of Kaiserslautern, Germany
Group leader of the proteomic laboratory
Place: KB3A9 "Lilla hörsalen", KBC

Title: Mining the active proteome from plant-pathogen interactions
Lecturer: Renier van der Hoorn, Max Planck Institute for Plant Breeding Research, Plant Chemetics Group, Cologne, Germany
Place:KB3B3, KBC

Title: X-ray analysis on the architecture of primary and secondary cell walls
Lecturer: Dr. Markus Rüggeberg, Department of Biomaterials, Max Planck Institute of Colloids and Interfaces, Potsdam, Germany
Place: KB3A9 "Lilla hörsalen", KBC

Title: Vernalization: mechanism and natural variation
Lecturer: Caroline Dean, John Innes Centre, Norwich, UK
Place: KB3B1 "Stora hörsalen", KBC

Title: Cellulolytic yeasts for production of cellulosic ethanol – progress and challenges
Lecturer: W.H. (Emile) van Zyl, Department of Microbiology, University of Stellenbosch, South Africa
Place: KB3A9 "Lilla hörsalen", KBC

Title: Zeaxanthin in connection to photosynthesis and vision
Prof. Hans-Erik Åkerlund, Dept. of Biochemistry, Lund University
Place: KB3A9 "Lilla hörsalen", KBC

Abstract:
Oxidative stress is one the more important causes for damage of component of living cells. The combination of light, oxygen and red-ox carriers is particularly harmful and generates reactive oxygen species. This is the situation both in the photosynthetic system and in the retina of the eye. Although living systems have developed numerous systems to coop with this, damage may still occur, especially under stress conditions, leading to photoinhibition in plants and loss of vision humans. Zeaxanthin appears to have a central role for protection in these systems. The presentation will deal with regulatory aspects on the generation of zeaxanthin by the enzyme violaxanthin de-epoxidase, effects on membrane packing but also the application of this knowledge to improve the nutritional value of harvested vegetables.

Title: Regulation and evolution of growth patterns in a tree
Lecturer: Victor Busov, School of Forest Resources and Environmental Science, Michigan Technological University, USA
Place: KB3A9 "Lilla hörsalen", KBC

Title: Functional Characterisation of METACASPASE9 in Xylem Development
Benjamin Bollhöner, Department of Plant Physiology, Umeå university
Place: KB3A9 "Lilla hörsalen", KBC

Title: Starting your own company or working as a scientific consultant
Speakers: Johannes Dyring (SLU holding), Björn Ingemarsson (SLU holding) and Maria Olofsson (Uminova Innovation)
Place: KB3A9 "Lilla hörsalen", KBC

Title: How do plants coordinate the balance between cell proliferation and cell expansion?
Lecturer: Dr Takashi Ishida, Cell Function Research Unit, RIKEN Plant Science Center, Yokohama, Japan
Place: KB3B3, KBC

Seminar were cancelled

Seminar is cancelled due to some ash in the air
Title: Different levels of proteomics as illustrated by examples from plant studies
Lecturer: Prof Peter Roepstroff, Dept. of Biochemistry and Molecular biology, University of Southern Denmark
Place: KB3B1 "Stora hörsalen", KBC

Title: The role of redox couple H₂O/O₂ in biological solar energy exploitation
Speaker: Gernot Renger, Technische Universität, Berlin
Place: KB3A9 "Lilla hörsalen", KBC

Title: Chemo-eco-evo-devo perspectives on the biology of Populus
Lecturer: Prof. Richard L. Lindroth, University of Wisconsin-Madison, USA
Place: Lecture Hall Björken, SLU, Umeå

Title: Darwin had it right: phototropic auxin relocalization is conserved between dicots and monocots
Lecturer: Dr Angus Murphy, Department of Horticulture, Purdue University, USA
Place: KB3B3, KBC

Abstract: Plants depend on sunlight for photosynthesis and adjust their growth to optimize light capture. Phototropism, the reorientation of growth toward light, is one of the most important of these adaptive processes. Originally identified in grass coleoptiles by Charles and Francis Darwin, phototropism is initiated by light perceived at the shoot tip to generate a diffusible signal that influences differential elongation in the tissues below. Subsequent studies have shown that phototropism arises from increased growth on the shaded side of the stem, owing to an accumulation of the phytohormone auxin.
Research from the past two decades has identified and characterized the PHOTOTROPIN (PHOT) blue light receptors as the primary receptors that modulate phototropic curvatures in the model plant Arabidopsis. Downstream signalling effectors are assumed to act on auxin transport proteins from the PIN, AUX1/LAX, and ABCB families to control directional auxin movement.
However, somewhat surprisingly, it is still not clear how these receptor mechanisms actually control auxin movement in the shoot apex and what the exact path of auxin movement is in. We have established a system in Arabidopsis to study hypocotyl phototropism in the absence of developmental events associated with seedling photomorphogenesis and hook opening. Using this system, we have shown that auxin redistribution to epidermal sites of action occurs at the hypocotyl apex in dicots as is the case in monocots, not out of the vascular cylinder in the hypocotyl elongation zone as has been assumed for the past decade.
Within this region, we identified the auxin efflux transporter ATP-BINDING CASSETTE B19 (ABCB19) as the first substrate target for the photoreceptor kinase PHOTOTROPIN1(PHOT1). In vivo and in vitro analyses showed that phosphorylation of ABCB19 by PHOT1 inhibits ABCB19 efflux activity and increases auxin levels in the cotyledonary node to halt vertical growth and prime lateral fluxes that are subsequently channeled to the elongation zone by PIN3. These results demonstrate that the proximity of light perception and differential phototropic growth is conserved in angiosperms, but also demonstrated that no single or viable double or triple mutant in known auxin transporters bends phototropically. As no new non-bending mutant has been identified in the many screens for phototropism mutants over the past decade, either a missing component of the process that mediates auxin redirection is essential for viability, or the full complement of transporters that function in lateral auxin redistribution has not been discovered. In any case, the widely held perception that the mechanism underlying lateral redistribution of auxin in phototropism has been resolved is not supported by substantive data.

Title: Analysis of somatic mutations in three populations of Scots pine (Pinus sylvestris)
by Master student Jani Basha Mohammad
Place: KBF30, UPSC

Title: Cold sensing and signaling in Arabidopsis thaliana
Paulina Stachula, Department of Plant Physiology, Umeå University
Place: KB3A9 "Lilla hörsalen", KBC

Title: Expanding the JAZ protein interaction network
Lecturer: Laurens Pauwel, VIB Department of Plant Systems Biology, Ghent University, Belgium
Place: KB3A9 "Lilla hörsalen", KBC

Title: Structural insights into the mechanism of G protein coupled receptor activation
Speaker: Brian Kobilka, Molecular and Cellular Physiology and Medicine, Beckman Center, Stanford University, CA, U.S.A.
Place: KB3A9 "Lilla hörsalen", KBC

Research Overview
Research in my lab is directed at understanding the structural basis for the functional properties of G protein coupled receptors (GPCRs),which constitute the largest family of membrane proteins in the human genome. GPCRs conduct the majority of transmembrane responses to hormones and neurotransmitters, and mediate the senses of sight, smell and taste. The beta 2 adrenoceptor (beta2AR) is a prototypical Family A GPCR that mediates physiologic responses to adrenaline and noradrenaline. It regulates the activity of several distinctsignaling pathways through both G protein dependent and G protein independent mechanisms. Like many GPCRs that respond to hormones and neurotransmitters, the beta2AR exhibits modest basal activity in the absence of an agonist. This activity can be modulated by a spectrum of synthetic ligands ranging from inverse agonists, which suppress basal activity, to full agonists. We have obtainedthree-dimensional structures of the beta2AR in inactive and active conformations; and we have used fluorescence spectroscopy and NMR spectroscopy to study the dynamic properties of the receptor, and to map ligand-specificconformational changes. I will discuss what we these studies have taught usabout the structural basis of beta2AR function.

The Company ConfometRX
Structure-based drug discovery for G Protein Coupled Receptors

G protein coupled receptors (GPCRs) represent the largest family of membrane proteins in the human genome, and the largest class of targets for drug discovery. Clinical indications for GPCRs include cardiovascular, pulmonary, metabolic and psychiatric disorders, as well as inflammation, cancer and HIV infection.

ConfometRx is developing a platform of structure-based drug discovery technologies to facilitate lead identification and lead optimization for G protein coupled receptors.

This platform includes:
• biophysical technologies for characterizing ligand-induced structural changes in GPCRs
• the generation of GPCR-specific, functional antibodies for target validation, therapeutics and protein crystallography
• the production of pure, functional GPCRs for high-resolution structure determination by crystallographythe economical and efficient labeling of GPCRs with 13C and 15N for NMR spectroscopy studies to characterize receptor-ligand interactions

Publications: Xao, X.J., Vélez Ruiz, G., Whorton, M.R., Rasmussen, S.G.F., DeVree, B.T., Deupi, X.,Sunahara, R.K., and Kobilka, B.K.,The effect of ligand efficacy on the formation and stability of a GPCR-G protein complex. Proc Natl Acad Sci U S A, 2009. 106(23): p. 9501-9506. Fung, J.J., Deupi, X., Pardo, L., Yao, X.J., Velez-Ruiz, G.A., DeVree, B.,Sunahara, R.K., and Kobilka, B.K.,Ligand regulated oligomerization of beta2-adrenoceptors in a model lipid bilayer.EMBO Journal, 2009. 28(21): p. 3315-28.

Rosenbaum, D.M., Rasmussen, S.G., Kobilka, B.K.The structure and function of G-protein-coupled receptors.Nature, 2009. 459(7245): 356-363.

Bokoch, M.P., Zou, Y., Rasmussen, S.G.F., Liu, C.W., Nygaard, R.,Rosenbaum, D.M., Fung, J.J., Choi, H.J., Thian, F.S., Kobilka, T.S., Puglisi, J.D.,Weis, W.I., Pardo, L., Prosser, R.S., Mueller, L., Kobilka, B.K. Ligand-specific regulation of the extracellular surface of a G proteincoupled receptor. Nature, 2010. 463:p.108-112.

Title: Determinants of sugar-specific gene expression in plants
Sabine Kunz, Department of Plant Physiology, Umeå University
Place: KB3A9 "Lilla hörsalen", KBC

Title: Probing molecular mechanisms regulating trafficking of auxin influx carriers
Lecturer: Ranjan Swarup, University of Nottingham, United Kingdom
Place: KB3A9 "Lilla hörsalen", KBC

Title: Communication, decisions and commitment guiding stomatal development
Dominique Bergmann, Stanford University, USA
Place: KB3A9 "Lilla hörsalen", KBC

Title: Role of echidna in trafficking at the trans-Golgi network in differential growth of the apical hook in Arabidopsis
Kristoffer Jonsson
Place: KBF30, UPSC
Supervisor: Rishi Bhalerao

Title: Quo vadis plastids: chloroplast biogenesis in Arabidopsis
Speaker: Veronica Albrecht, Research School of Biology, The Australian National University
Place: KB4C10

Title: Dissecting the Endomembrane Network via Chemical Genomics
Lecturer: Natasha Raikhel, University of California Riverside, USA
Place: KB3A9 "Lilla hörsalen", KBC

Abstract:
Although it is known that proteins are delivered to and recycled from the
plasma membrane (PM) via endosomes, the nature of the compartments and
pathways responsible for cargo and vesicle sorting and cellular signaling is
poorly understood. Such highly dynamic processes are not easily approached
genetically. To define and dissect specific recycling pathways, rapid-acting
chemical affecters of proteins involved in vesicle trafficking, especially
through endosomes, would be invaluable. Thus, we identified chemicals
affecting essential steps in PM/endosome trafficking by utilizing the
intensely localized PM transport at the tips of germinating tobacco pollen
tubes. We screened diverse chemical libraries for those that interfered with
pollen germination and tip growth. We found that many also had effects in
Arabidopsis roots for which there are several well-characterized marker
proteins that cycle to and from the plasma membrane. Recent results from our
screens will be discussed.

Seminar
Heather Knight, School of Biological and Biomedical Sciences, Durham University, UK.

Title: SFR6, a key regulator of plant freezing tolerance and much more.
Place:  KB3A9 kl 15.15
Host: Stefan Björklund - Dept. of Medical Biochemistry and Biophysics'

Title: Dissection of ACTIN and ACTIN-INTERACTING PROTEIN Interactions during Planar Polarity Formation in Arabidopsis
Christian Kiefer
Place: KB3A9 "Lilla Hörsalen", KBC
Supervisor: Markus Grebe

UPSC Postdocs: Career outside academia

Title:
Careers in scientific publishing

 

Speakers:

Holly Slater

Managing editor at New Phytologist

 

Irene Hames

Independent editorial consultant and former managing editor at The Plant Journal

 

Place: KBC, lilla hörsalen, KB3A9

Umeå Plant Science Centre UPSC
Seminar Series

Speaker:
Chris Junnian Liu
BGI-Europe

Title: Plant research and application with next-generation sequencing

Abstract:
Our goals of current scientific research in plant area are to develop approaches to improve molecular breeding and promote the study of plant research. A unique area that can provide the fundamental bases for achieving these objectives is through an understanding of the ever-evolving genetic makeup, which can be achieved through studies in genomics and computational biological research. The Plant research and application with next-generation sequencing presentation, to be held in UPSC, Nov 2,2011, will emphasize the latest advances in genomic technologies, bioinformatics developments, and their relevant biological findings, with a focus on what next-generation sequencing can bring for plant research.

It will provide the information on the newest of sequencing technologies, their development and discoveries, divided to several levels: De novo sequencing, Re-sequencing, Epigenetic level, RNA level, Protein level.

We believe the presentation will give you good methods to develop current research and provide the best opportunity for building lasting collaborations. We especially welcome your input and proposals.

Place: KB3B1 "Stora Hörsalen", KBC

Organizer: Torgeir R. Hvidsten (UPSC and CLiC)

UPSC Postdoc Careers outside academia seminar

Speakers:
Holly Slater
Managing editor at New Phytologist

Irene Hames
independent editorial consultant and former managing editor at The Plant Journal

Title:
"Getting your research published”
Part I: General strategies, insights and ethics (Irene Hames)
Part II: Insights from New Phytologist (Holly Slater)

Place: Björken, SLU

Speaker: 
William W. Adams III
Department of Ecology & Evolutionary Biology
University of Colorado 

Title:
Phloem loading, leaf architecture, and photosynthetic capacity

Host: Stefan Jansson

Location: KB3A9, Lilla hörsalen

Title: Paleogenomics in Plants
Lecturer: Dr. Jérôme Salse, INRA Center in Clermont-Ferrand of the Genetics Diversity Ecophysiology of Cereals research unit.
Place: KB3A9 "Lilla hörsalen", KBC

The seminar has been cancelled! 

Cutting Edge Seminar

Speaker:
Claudia Köhler, SLU Uppala

Title:  Epigenetic control of seed development and plant speciation 



Place: Lilla Hörsalen, KBC

SEMINAR

Title: 
"Large-scale analysis of transcript and metabolite levels of winter wheat exposed to ozone in field conditions"

Speaker:
Matthieu Bagard
Faculté des Sciences et Technologie, Université Paris EST Créteil
 

 

 
Time: Thursday, 23 February at 15:00
Place: KBF 30, UPSC
Welcome
Per Gardeström

This Seminar is cancelled!

NEW Seminar! Thursday, 1 March 11.00, Lilla hörsalen, KBC
Department of Chemistry
Speaker
John P. Moore
Institute for Wine Biotechnology, Faculty of AgriSciences
Stellenbosch University
South Africa

Title:
Overexpression of the grapevine PGIP1 in tobacco leaves results in an altered arabinoxyloglucan composition in the absence of fungal infection

Host: Johan Trygg

UPSC Seminar Series 2012
Speaker:
Matthias Holmlund


Title:
Arginine production in Cyanobacteria

Place KB3A9, Lilla hörsalen

UPSC Seminar

Martin Andresen
Max Planck Institute for Biophysical Chemistry, Department of NanoBiophotonics
Göttingen, Germany

Title:
Reversibly switchable fluorescent proteins: mechanism, development and applications

Place: Lilla Hörsalen, KBC KB3A9

UPSC Seminar Series 2012
Speaker:
Delphine Gendre


Place KB3A9, Lilla hörsalen

The career outsida academia seminar

Thomas Kraft

is cancelled!!!

UPSC Seminar Career outside academia Seminar

Marie Tenning
European Patent Attorney

Place:  Lilla hörsalen KB3A9, KBC

More information about Marie Tenning:
Marie Tenning
 
Patent Attorney, Office Manager Lund, European Patent Attorney Employed since 2007
Education: Ph.D. Biotechnology, Linguistics
Competence: Biotechnics, molecular biology, immunology, plant physiology, GMO, foodstuff, pharmaceutical and naturopathic preparations.
Earlier experience: Karolinska Institutet 1984-1987, Lund University 1987-1991, Novartis Seeds (Landskrona and Tolouse) 1991-1997, Danisco biotechnology 1997-1999, Albihns Malmö 1999-2003, Ström & Gulliksson 2004-2007.
Membership: SPOF, AIPPI

UPSC Seminar Series 2012
Speaker:
Kenneth Keefover-Ring

Title: Phenolic Glycoside Diversity in European Aspen

Place KB3A9, Lilla hörsalen

UPSC Seminar
Speaker
Maria Israelsson Nordström
Title: Red light-induced stomatal opening in Arabidopsis thaliana


Place: Lilla hörsalen

UPSC Seminar

Yogesh Mishra

Title:
"Are Plants Cultivated in Growth Chamber Actually the Same as Plants Grown in Field? "

Place: Lilla hörsalen

Seminar at UPSC
Place: KBF 30

Title:

"Symplasmic communication in plant growth and development including zygotic embryogenesis"

Ewa Kurczynska
University of Silesia, Poland


Welcome!
Ulrika Egertsdotter

UPSC Seminar

Speaker
Bo Zhang

Title: Dual Function of Arabidopsis PIRIN2 in Tracheary Element Ligninfication and Pathogen Resistance


Place: Lilla hörsalen

Ecology and Environemental Science Seminar

Speaker:
Céline Hauzy 
Université Pierre et Marie Curie

Title:
Evolution of quantitative defenses, qualitative defenses and
specialization in plant-herbivore networks

Place:Lilla hörsalen 

UPSC  Cutting Edge Seminar

Speaker:
George Coupland
Max Planck Institute for Plant Breeding Research, Cologne, Germany

Title:
Mechanisms of seasonal flowering in annual and perennial Brassicaceae

Place: Stora Hörsalen, KBC
Host: Ove Nilsson, SLU

UPSC Seminar

Speaker:
Jehad Shaikali

Title:
The CRYPTOCHROME1-dependent response to excess light is mediated through the transcriptional activators ZML1 and 2 in Arabidopsis thaliana



Place: Lilla hörsalen, KBC

Host: Åsa Strand 

Friday, 11 May 10:30-12:00, N 450 Naturvetarhuset
UPSC Seminar Series "career outside academia" 

Speaker: Douglas Reeve
University of Toronto, Canada 

Title: Engineers leading change to build a better world: the case for leadership education in engineering schools
 ----------------
13:30 to 16:30, N 230 (it may last less than 3 hours) 2nd floor of Naturvetarhuset
Workshop for PhD-students and postdocs on

Title:
"Values/Vision/Mission and leadership styles". 

For registration to the workshop, contact Sacha Escamez by e-mail (This email address is being protected from spambots. You need JavaScript enabled to view it.) BEFORE Friday 5th of May. 

Only the first 40 applicants will be selected for the workshop.

UPSC Seminar
Title: CUNCTATOR, a novel player in flowering time regulation at the chromatin level in Arabidopsis
Speaker: Gergely Molnar
Place: Lilla hörsalen

This Seminar is cancelled!!!!
David Nelson
From Department of genetics, University of Georgia, Athens, USA
Place:  Lilla horsalen, 15.00

Title:
Smoke and mirrors: The curious connection between post-fire germination and shoot branching control
Abstract:
Karrikins are a class of butenolide compounds identified in smoke that have prominent roles in activating post-fire seed germination. Genetic studies performed in Arabidopsis thaliana demonstrated that the F-box protein MAX2 is required for karrikin responses. MAX2 is also necessary for responses to strigolactones, a class of plant hormones originally identified in host root exudates as highly potent germination stimulants of parasitic weeds. Strigolactones are also known to have roles in the control of shoot branching and recruitment of arbuscular mycorrhizal fungi - neither of which processes are influenced by karrikins. Two homologous proteins, KAI2 and D14, have now been shown to mediate strigolactone and karrikin-specific responses in Arabidopsis. Through genetic suppressor screens we are identifying additional components of the MAX2-dependent karrikin and strigolactone signaling pathways.

UPSC Seminar
Speaker
Sergeiy Miroshnichenko
Title:
MAP20: study of a microtubule-associated protein in xylem

Place: KB3B3

Seminar


Speaker:
David Hodge
Assistant Professor, Chemical Engineering and Materials Science, Biosystems and Agricultural Engineering
Michigan State University

Title
Understanding and Enhancing Alkaline and Oxidative Chemical Pretreatments for the Production of Cellulosic Biofuels through Improved Characterization

Host: Hannele Tuominen

Place: Seminar room KB3B3 at KBC

Abstract:

This seminar will present recent research on improving technologies for oxidative chemical pretreatments and alkaline fractionation of plant biomass. One theme underlying this research is how improved characterization of the chemical, structural, and physical changes to the plant cell wall and the spectrum of compounds solubilized from the cell wall can better inform technologies for plant cell wall deconstruction and conversion to renewable fuels and chemicals. The work presented on these technologies will span four areas that include: (1) characterizing how lignin properties (S/G ratio, p-hydroxycinnamic acid content, and total lignin content) and their alteration during alkaline hydrogen peroxide (AHP) pretreatment impacts enzymatic digestibility for grasses with diverse lignin phenotypes, (2) characterizing the impacts of pretreatment on the extractability/accessibility of the non-cellulosic polysaccharides in the cell walls of diverse plants using "glycome profiling" or screening a library of 156 monoclonal antibodies against polysaccharide epitopes, (3) identifying the spectrum of fermentation inhibitors generated by AHP pretreatment of grasses for high-sugar concentration fermentation by xylose-fermenting Saccharomyces cerevisiae strains and demonstration of improved xylose fermentation and hydrolysate tolerance through evolutionary engineering, and (4) quantifying the impact of AHP pretreatment on plant cell wall water swelling capacity and how the water-cell wall environment influences its susceptibility to enzymatic hydrolysis.

UPSC half-time Seminar

Speaker:
Melis Kucukoglu
Title:
Molecular Regulation of Vascular Cambium Identity and Activity

Place Lilla hörsalen

UPSC Half-Time Seminar
Speaker:
Malgorzata Pietrzykowska

Title: 
Is there a functional difference between Lhcb1 and Lhcb2?

Place Lilla hörsalen

UPSC Cutting Edge Seminar

Theodorus Meuwissen
Department of Animal and Aquacultural Sciences
The Norwegian University of Life Sciences (UMB), Ås, Norway  

Title:
Prediction of total genetic value using whole genome sequence data

Place: Stora hörsalen, KBC

Title: The SNP gets around: High-throughput studies of gene flow in North American poplars.
Place: KB3A9 "Lilla hörsalen", KBC
Time: Monday June 18 at 15.00

UPSC, Department of Plant Physiology

Speaker: Andreas Grönlund
new assoc. lector in biological modelling at the department

Title: Modeling intracellular regulation: Transcription factor kinetics

Abstract:
Basic physical constraints in how macromolecules are made and how fast they can find each other in the intracellular environment constrain the fidelity of cellular regulation. These two properties are recently studied experimentally as well as analytically. I will give a brief overview of how such processes can be characterized and modeled.

Place: KB3A9 Lilla hörsalen

Seminar
Salma Chaabouni


Place: Lilla hörsalen

Cutting Edge Seminar

Speaker:
Takashi Ueda
Tokyo University, Japan

Title: How plants acquired novel membrane trafficking pathways

Place: Lilla hörsalen, KB3A9, KBC

UPSC Cutting Edge Seminar
Speaker: Ueli Grossniklaus, Institute of Plant Biology, University of Zuerich
Title: Molecular Control of Fertilization and Interspecific Crossing Barriers
Place: Lilla hörsalen, KB3A9, KBC
Date: Monday, September 03, 2012 at 10:00

Medical Biochemistry and Biophysics Seminar Series

Speaker:
Örjan Carlborg
Dept. of Clinical Sciences, Division of Computational Genetics, SLU, Uppsala,

Title: Understanding the genetic architecture of complex traits

Host: Andrei Chabes, Medchem

Place: KB3A9, Lilla hörsalen


Abstract:

Understanding how genes contribute to the phenotypic variability observed in populations is a major challenge in biology. A common approach to dissect the genetics of complex traits is to measure the genotype of individuals in a population at a large number of loci across the genome and then evaluate whether the phenotypic mean differs between the individuals that carry particular combinations of genetic variants, alleles, at either individual loci (i.e. detection of additive, dominance and epigenetic effects of loci) or at multiple loci (i.e. to detect genetic interactions or epistasis). I will here give a brief introduction to this topic and illustrate the insights that can be gained into the genetics of complex traits using these approaches by using examples from our research in domestic animals. An alternative, and promising, strategy to identify genes involved in gene-by-gene or gene-by-environment interactions is to search for loci that causes a difference in variance (a variance heterogeneity) between genotypes. This talk will be concluded by presenting some recent work to develop theory and tools for genome-wide mapping of individual variance-controlling loci. Empirical findings from studies of data in Arabidopsis thaliana and Saccharomyces cerevisiae will be used to illustrate the contribution of such loci to the genetic architecture of complex traits and the implications of the findings on our understanding of the genetic regulation of complex trait variation.

Speaker:
Professor Tony Bacic
Univ. of Melbourne, Australia

Title: Grass cell walls: Investigating the molecular mechanism of (1,3;1,4)-?-D-glucan biosynthesis

Place:
KB3B3, KBC

UPSC Seminar

Speaker:
Jaime Barros-Rios


Title: Effects of divergent selection for diferulates on cell wall composition, biodegradability, and stem borers resistance in maize

Place: Lilla hörsalen, KBC, KB3A9

UPSC Seminar

Speaker:
Dr. Wilfred Vermerris
Department of Microbiology & Cell Science
University of Florida Genetics Institute
Gainesville, FL, USA

Title:

Modifying cell wall composition to enhance the production of biofuels and nanomaterials


Place:
Lilla hörsalen, KB3A9, KBC

Host: Hannele Tuominen

The production of fermentable sugars from lignocellulosic biomass is affected by the chemical composition of the cell wall. Lignin content and subunit composition appear to be of particular importance. We have generated and studied several different classes of cell wall mutants of maize and sorghum to define how variation in lignin composition impacts biomass conversion, to identify the underlying genes, and to explain the biochemical basis of enhanced conversion using fluorescently labeled cellulases. The success of the bio-economy also depends on economic and environmental sustainability. I will highlight how the waste stream of the biorefinery can be used to produce nanomaterials as high-value co-products that have the potential to offset the cost of biofuel production.

UPSC Seminar Series
Half-time Seminar

Speaker:
Mir Amir Mahboubi

Title: Carbon allocation and partitioning into cell wall polymers

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar Series


Speaker:
Concetta (Titti) Valerio

Title:Identification of an essential sucrose flux responsive protein in Arabidopsis

Place: Lilla hörsalen, KB3A9, KBC

Seminar

Speaker:
Jürgen Kleine-Vehn
Institute of Applied Genetics and Cell Biology (IAGZ), University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
www.dagz.boku.ac.at/agkleine-vehn.html?&L=1


Title:
Cellular mechanisms of auxin-dependent differential growth control

Place: Stora hörsalen, KBC

UPSC Cutting Edge Seminar

Speaker:
Phil Wigge
Sainsbury Laboratory, Cambridge University UK

Title: Ambient Temperature Sensing in Plants

Abstract:
How is temperature sensed? Eukaryotic cells respond within minutes to changes of a few degrees celsius, adjusting the expression of thousands of genes. The cell must therefore have a mechanism for sensing temperature and coordinating the transcriptome. Despite a few examples of thermosensors, e.g. in Listeria and neurons, the pathways by which temperature is sensed globally are not known.

To address this, we have carried out a genetic screen in Arabidopsis using a Luciferase reporter line for mutants that incorrectly sense non-stress temperature changes. This approach has enabled us to identify a novel temperature-sensing pathway that appears to be conserved among eukaryotes and accounts for the majority of the transcriptional changes in response to temperature change. We are now collaborating with other labs to more fully understand the molecular basis of temperature perception.

What is the underlying regulatory logic of the flora transition? While much is known of the genetic architecture of the floral transition, the dynamic properties of the floral switch are not clearly understood. To address this, we are collaborating with the Richard Morris group (JIC, Norwich) to model the regulatory architecture of the floral transition. This modelling has given insights into how the dynamics of flowering are regulated both spatially and temporally. Our model makes a number of testable, predictions about the dynamic regulation of the floral transition.

Place: Lilla hörsalen, KB3A9, KBC

Seminar

Stefania Giacomello
Applied Genomics Institute
Udine, Italy

Title:
De novo assembly and comparative genomics analysis in the Populus genus


Room: KBF 30

UPSC Seminar Series


Speaker:
Kathryn Robinson

Title: Natural variation in aspen and defence against herbivores

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar

Speaker:
Prof. Ryo Funada
Faculty of Agriculture, Tokyo University of
Agriculture and Technology, Fuchu-Tokyo, Japan

Title:
Cellular biology of wood formation in relation to environmental changes

Place: KB3A9 “Lilla hörsalen”, KBC

 

UPSC Seminar Series


Speaker:
Camila Cambui

Title: The importance of amino acids for plant nutrition

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar Series
Half-time Seminar

Speaker:
Edward Businge

Title: The regulation of embryo development in conifers

Place: Lilla hörsalen, KB3A9, KBC

Seminar

Speaker:
Martin Hagemann
Universität Rostock, Institut für Biowissenschaften, Abteilung Pflanzenphysiologie

Title
Evolutionary origin of photorespiration: Phylogenetic and biochemical studies of enzymes involved in the 2-phosphoglycolate metabolism

Place: Lilla hörsalen, KB3A9

Abtract:The photorespiratory pathway is essential for organisms performing oxygenic photosynthesis, cyanobacteria, algae and plants, in the present day O₂-containing atmosphere. The presence of a plant-like 2-phosphoglycolate cycle in cyanobacteria indicated that not only genes of oxygenic photosynthesis but also genes encoding photorespiratory enzymes were endosymbiotically conveyed from ancient cyanobacteria to eukaryotic oxygenic phototrophs. BlastP analyses with plant photorespiratory proteins identified several proteins in cyanobacteria and algae with surprisingly high sequence similarities. To verify that not only the sequence but also the biochemical activity of these enzymes is conserved, selected proteins from the cyanobacteria Synechocystis PCC 6803, Anabaena PCC 7120 and Cyanothece sp. PCC 7822, as well as from the algae Chlamydomonas reinhardtii and Cyanidioschyzon merolae were overexpressed in E. coli and biochemical analyzed. As examples, data will be presented on our recent analyses of glycolate oxidases and hydroxypyruvate reductase, which allowed to date the origin of photorespiration back to the protoalgae

UPSC Seminar Series
Seminar

Speaker:
Jakob Prestele

Title: Studies on cell death regulation in Arabidopsis and spruce

Place: Lilla hörsalen, KB3A9, KBC

Seminar
Speaker:
Markus Schmid
Max Planck Institute for Developmental Biology Tübingen, Germany

Title
Integration of Flowering Time Signals by FT

Place: Lilla hörsalen, KB3A9

Presentation of Master Thesis
Master in Plant and Forest Biotechnology

Speaker:
Arun Devadas

Title:
Characterization of fungal strains for bioethanol production and sugar utilization


Place: KB2C5

Supervisor: Anita Sellstedt

UPSC Seminar

Speaker:
Corrado Viotti
Plant Developmental Biology
University of Heidelberg

Title: Post-Golgi trafficking and biogenesis of the lytic vacuole in plants

Place Lilla hörsalen KBC, KB3A9

UPSC “Cutting Edge Seminars” 2012 presents
Speaker:
Rémy J. Petit
UMR Biodiversité Gènes et Communautés, INRA UMR 1202, Cestas Cedex, France

Title:
Next-generation studies of genetic differentiation and gene flow

Place: KB3A9, Lilla hörsalen, KBC

Host: Rosario Garcia Gil

More information:
www4.bordeaux-aquitaine.inra.fr/biogeco_eng/People/M-P/Petit-Remy

UPSC Seminar Series
Half-time Seminar

Speaker:
Pernilla Lindén

Title: Methods and Applications of Fluxomics

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar Series
Seminar

Speaker:
Krisztina Ötvös

Title: How Retinoblastoma protein regulates cell differentiation? A study case from planta

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar Series
Seminar

Speaker:
Anke Hueser

Title: tba

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar Series
Half time Seminar

Speaker:
Prashant Pawar

Title: Cell wall acetylation and its impact on wood properties

Place: Lilla hörsalen, KB3A9, KBC

UPSC Seminar Series
Seminar
The seminar is cancelled!

Speaker:
Olivier Keech

Title: tba

Place: Lilla hörsalen, KB3A9, KBC

Double Seminar

Speaker:
Yrjö Helariutta
Division of Plant Biology
Dept of Biosciences
University of Helsinki

I. Plant Vascular Biology 2013 and beyond

II. How to write a competitive application for FORMAS?"

Place Lilla Hörsalen, KB3A9, KBC

Host: Ove Nilsson

UPSC Cutting Edge Seminar

Speaker:
Ralph Bock, Professor and Director

Department of Organelle Biology, Biotechnology and Molecular Ecophysiology
Max Planck Institute for Molecular Plant Physiology
Potsdam-Golm, Germany

Title:
Genes gone wild: experimental genome evolution in plants

Place: Lilla hörsalen, KB3A9

Department of Plant Physiology
Seminar

Speaker:

Professor Ivan Kennedy
University of Sydney, Australia
Director of SUNFix Centre for Nitrogen fixation


Title:
Biological nitrogen fixation

Place: Lilla hörsalen, KB3A9

UPSC Seminar Series 2012
Half-time Seminar

Speaker:
Iftikhar Ahmad

Title: tba

Host: Siamsa Doyle

UPSC Seminar

Speaker:
Abel Rosado
University of Malaga, Spain

Title:
The Arabidopsis Synaptotagmins 1 and 3 maintain lipid homeostasis during
cold stress episodes

Room. Lilla hörsalen, KB3A9, KBC

Host: Stephanie Robert

Department of Chemistry 
Seminar

Speaker:
Helena Berglund

Title: Presentation of the Protein Science Facility at KI/SciLifeLab

Place: KBF 31 (close to the entrance hall att Physiology Builidng)

UPSC Seminar Series

Speaker:
Marta Derba-Maceluch
postdoc

Title:
Modification of xylan structure in aspen and Arabidopsis

Place: Lilla hörsalen, KB3A9

Younger UPSC PI” seminars
Monday 11/2 2013 12.30-17.00 in KB3A9

12.30 Maria Eriksson
The role of the circadian oscillator(s) and NFX1-like proteins in growth and stress response

13.00 Urs Fischer
Cambial function of STM and KNAT1

13.30 Ulrika Ganeteg
Nitrogen use efficiency and biomass production
– Importance of N remobilization in plants

14.00 Johannes Hanson
Sugar-dependent translational dynamics

14.30 Coffee

15.00 Maria Israelsson-Nordström
Red light-induced signaling in Arabidopsis thaliana guard cells

15.30 Totte Niitylä
Sugar signaling and carbon allocation to cell walls

16.00 Edouard Pesquet
Understanding the molecular mechanisms controlling the morphology of xylem vessels in higher plants

16.30 Stéphanie Robert
Unraveling signaling molecules and their targeted pathways controlling plant growth

UPSC Seminar

Speaker:
Henrik Hallingbäck

Title:
Population subdivision in breeding against an adverse genetic correlation

Room: Lilla hörsalen, KB3A9

UPSC Cutting Edge Seminar

Olivier Hamant
Biophysics and Development Team, Plant Development and Reproduction Laboratory, ENS de Lyon, University de Lyon, Lyon, France

"Mechanical feedbacks in plant morphogenesis"

Time: Monday 4 March 15:00
Place: KB3A9 "Lilla Hörsalen", KBC

Host: Rishi Bhalerao

KBC seminar/workshop, KBC/UCMR  Research Schools

Speaker
Christian Skotte
Regional Marketing Manager
Science Information International Ltd. (SIIL) Chemical Abstracts Service CAS, Europe

Title:
SciFinder - the choice for chemistry research
- Introduction to SciFinder

Background:
All scientists at Umeå University have access to SciFinder:
http://www.ub.umu.se/sok/tidskrifter/scifinder-web

This database allows you to explore the CAS databases containing literature from many scientific disciplines including biomedical sciences, chemistry, engineering, materials science, agricultural science.
In his lecture, Christian Skotte will give you an introduction on SciFinder, how to use it, and its possibilities. He will show you examples for how to find patents, molecules, structures, articles...

Workshop on SciFinder

This workshop, lead by Christian Skotte, will give you the possibility to work with SciFinder on your own Computer.
Registration is needed for this workshop. The number of participants is limited to 20 persons.

If you are interested to participate, then please send an Email to This email address is being protected from spambots. You need JavaScript enabled to view it. (please mark your Email "SciFinder") The workshop takes place in room KB3B3 and you need to bring your own computer/laptop.

Please register before 1 March (first come, first serve - hopefully one scientist in each KBC department will participate in the workshop...)

UPSC Seminar

Speaker:
Nicolas Delhomme

Title:
Spruce assemblies: expect the (un)expected

Place: Lilla hörsalen KB3A9, KBC

Host: Sabine Kunz, Delphine Gendre

UPSC seminar
Half-time Seminar

Speaker.
Henrik Serk

Title:
Understanding lignin biosynthesis and polymerization in Arabidopsis xylem vessels


Room: Lilla hörsalen, KB3A9

Host: Edouard Pesquet

UPSC Seminar

Speaker:
Petar Pujic
Centre National de la Recherche scientifique (CNRS)
UMR CNRS 5557, Ecologie Microbienne Lyon, France

Title:
Symbiosis between the bacterium Frankia and actinorhizal plants

Place. Lilla hörsalen KBC, KB3A9

UPSC Cutting Edge Seminar

Speaker:
Dolf Weijers
Laboratory of Biochemistry - Plant Development
Wageningen University, Wageningen, The Netherlands

Title:
Tissue and stem cell formation in the plant embryo

UPSC Seminar

Speaker:
Judith Felten, post-doc


Title: Modification of cell wall formation through ethylene signaling in the wood of hybrid aspen

Room: Lilla hörsalen, KB3A9

UPSC  Seminar

Speaker:
Siamsa Doyle, post-doc

Title:
Characterization of novel modulators of endomembrane trafficking


Room: Lilla hörsalen, KB3A9

UPSC Seminars 2013

Speaker:
Staffan Persson

Max Planck Institute of Molecular Plant Physiology
Potsdam-Golm, Germany

Title:

A Blue-print for cellulose synthesis in higher plants


Place: Lilla Hörsalen, KB3A9, KBC

Host: Björn Sundberg

UPSC Seminar

Speaker:
Christoph Peterhaensel
Department of Botany
Leibniz Universität Hannover, Germany


Title:
The chromatin code of gene regulation in maize and Arabidopsis

Host: Johannes Hanson
Room Lilla hörsalen, KB3A9

UPSC Half-time Seminar

Speaker:
Louise Norén

Title:
Elucidating chloroplast to nucleus signaling pathways


Room: Lilla hörsalen, KB3A9

Seminar

Speaker:
Carmen Weisskopf
Max-Planck Institute of Colloids and Interfaces, Potsdam

Title:
Mapping material properties in the wood of transgenic trees using Scanning Acoustic Microscopy (SAM)

UPSC - Seminar
Postdoc Seminar
Speaker:
Céline Davoine

Title:
tba


Room: Lilla hörsalen, KB3A9

UPSC Seminar:

Speaker:
Martijn van Zanten
Utrecht University

Title:
Chromatin organization dynamics during Arabidopsis development and in response to environmental change"

Host: Stephanie Robert
Place: Lilla hörsalen KB3A9

UPSC Half-time Seminar

Speaker:
Erik Olofsson

Title: tba

Room: Lilla hörsalen, KB3A9

UPSC Cutting Edge Seminar

Speaker:
Mark Estelle
Cell and Developmental Biology
University of California, San Diego

Title:
tba

Room: Lilla hörsalen, KB3A9

Cutting Edge Seminar
Title: C4 photosynthesis – new perspectives from comparative evolutionary transcriptomics

Andreas Weber
Plant Biochemistry
Heinrich-Heine-University of Düsseldorf, Germany

Room: Lilla hörsalen, KB3A9

Half-time Seminar

Speaker:
Sacha Escamez

Title:
Late xylem differentiation: Question of life and death?


Room: Lilla hörsalen, KB3A9

UPSC Seminar

Speaker:
Rachael Oakenfull
Durham University, UK

Title:
The role and regulation of transcription factors associated with freezing tolerance in blueberry

Host: Maria Eriksson
Place: New room: KB3A9 Lilla hörsalen

UPSC / UPRA Extra Seminar

Speaker:
Nicolas Rouhier
Université de Lorraine/INRA Interactions Arbres Microorganismes
VANDOEUVRE-Lès-NANCY, FRANCE

Title:
Roles of Nfu proteins for the assembly of iron-sulfur clusters in chloroplasts

Place: Lilla hörsalen, KB3A9, KBC

Hosts: Gunnar Wingsle/Göran Samuelsson

Cutting Edge Seminar
Olivier J. Ratcliffe
Mendel Biotechnology, Inc., Hayward, California, USA

"Novel technology to enhance tomorrow's harvest"


Place: CHANGE of ROOM!
KB3A9 "Lilla hörsalen", KBC

Host: Totte Niittylä

------------
Biography: Oliver is Senior Vice President of R&D at Mendel Biotechnology, Inc., a privately-held plant biotechnology company based in the San Francisco Bay Area (http://www.mendelbio.com/index.php). Oliver joined Mendel in 1999 and fulfilled a number of technical roles prior to being appointed as head of research in December 2005. He is a named inventor on more than 40 issued patents and published patent applications and has authored a range of scientific papers on topics including developmental biology, the control of flowering, and the regulation of environmental stress responses in plants. Oliver received a B.A. in Natural Sciences (Part II Genetics) from Cambridge and a Ph.D. in Biological Sciences from the John Innes Centre at the University of East Anglia in the UK. Oliver also holds an MBA from the Judge Business School at Cambridge University.

Seminar outline. Human demands on the planet's agricultural production systems create a long-term sustained need for new technology to improve crop productivity. Oliver will discuss the approaches that Mendel Biotechnology has taken in pursuit of this goal over the past 15 years. The talk will open with an overview of how the company, starting with an early focus on biotechnology traits for yield and stress tolerance based on transcription factors, has developed a leading knowledge base of the plant gene regulatory networks (PGRNs) that control important aspects of crop productivity. He will then explain how this understanding of transcriptional networks is being leveraged to develop unique tools that enable the discovery and development of new chemical and biological products that can be applied to boost multiple aspects of plant performance. Such products represent a brand-new emergent segment within the agrochemical industry, which offers both significant growth potential as well as the opportunity to markedly improve the productivity of a broad spectrum of crops.

Cutting Edge Seminar 2013

Speaker
Frederic Berger
Temasek Life Sciences Laboratory, Singapore


Title:
Beyond packaging : roles and functions of Histones variants in plants

Place: 
KB3A9, Lilla hörsalen KBC

Host: Laszlo Bako

For a detailed description of his research interests, please visit his homepage http://www.tll.org.sg/group-leaders/frederic-berger/. 

Publication list:


- Vu MT, Nakamura M, Calarco JP, Susaki D, Lim PQ, Kinoshita T, Higashiyama T, Martienssen RA, Berger F. (2013) RNA-directed DNA methylation regulates parental genomic imprinting at several loci in Arabidopsis. Development.
-   Calarco J, Borges F, Donoghue M, Van Ex F, Jullien P, Lopes T, Gardner R, Berger F, Feijó J, Becker J, Martienssen R.. (2012) Reprogramming of DNA Methylation in Pollen Guides Epigenetic Inheritance via Small RNA. Cell 151: 194-205.
-    Jullien PE Susaki D Yelagandula R Higashiyama T Berger F. (2012) DNA methylation dynamics during sexual reproduction in Arabidopsis thaliana. Current Biology 22: 10.1016/j.cub.2.
-    Wollmann H, Holec S, Alden K, Clarke ND, Jacques P-E, Berger F. (2012) Dynamic Deposition of Histone Variant H3.3 Accompanies Developmental Remodeling of the Arabidopsis Transcriptome. PLoS Genetics 8: e1002658.
-    Holec S, Berger F. (2012) Polycomb group complexes mediate developmental transitions in plants.. Plant Physiology 158: 35-42
-    Chen Z, Higgins JD, Tan JLH, Li J, Franklin FCH, Berger F. (2011) Retinoblastoma protein is essential for early meiotic events in Arabidopsis. The EMBO Journal 30: 744-755
-   Hamamura Y, Saito C, Awai C, Kurihara D, Miyawaki A, Nakagawa T, Kanaoka M, Sasaki N, Nakano A, Berger F, and Higashiyama T.. (2011) Live-Cell Imaging Reveals the Dynamics of Two Sperm Cells during Double Fertilization in Arabidopsis thaliana.. Current Biology 21: 497-502
-    Wollmann H and Berger F. (2011) Epigenetic reprogramming during plant reproduction and seed development. Current Opinion in Plant Biology 15: 63-69
-    Berger F and Twell D. (2011) The plant Germline.. Annual review Plant Biology 62: 461-484
-    Kawashima T and Berger F. (2011) Green love talks; cell–cell communication during double fertilization in flowering plants.. Annals of Botany 2011: doi: 10.1093/ao
-    Ingouff M, Rademacher S, Holec S, Šoljic L, Nie X, Readshaw A, Foo SH, Lahouze B, Sprunck S, Berger F. (2010) Zygotic Resetting of the HISTONE 3 Variant Repertoire Participates in Epigenetic Reprogramming in Arabidopsis. Current Biology 20: 2137-2143
-    Aw SJ, Hamamura Y, Chen Z, Schnittger A, Berger F. (2010) Sperm entry is sufficient to trigger division of the central cell but the paternal genome is required for endosperm development in Arabidopsis. Development 137: 2683-2690
-    Jullien PE, Berger F. (2010) DNA methylation reprogramming during plant sexual reproduction?. Trends in Genetics 26: 394–399

UPSC Seminar
Sebastian Bednarek
Department of Biochemistry, University of Wisconsin- Madison

Title:
Seeing Stars: Conserved and Plant-Specific Clathrin-Coated Vesicle Machinery in Cytokinesis and Cell Expansion

Room: KB4C10, KBC

Host: Rishikesh Bhalerao

Presentation of Master Thesis

Hanhan Xia
Department of Plant Physiology

"Influence of Lhcb3 and Lhcb5 on photosynthesis of plants lacking Lhcb1 and Lhcb2"


Place: KBF 30

Supervisor: Stefan Jansson

Career outside academia seminar series: 
Speaker:
Florin Paun
Business Development Deputy Director at ONERA

Title:
From Research to Business Development: challenges in how to create value

Host:
Daniel Pacurar

Room: KB3A9, lilla hörsalen
Resume: 
Dr. Florin Paun  is Business Developpement Deputy Director at ONERA since January 2005. He is in charge with the Technology Transfer and International Development, and defines programs and new partnership policies focusing on complementary knowledge, cross suporting offers, mutual intellectual property valuation, joint spin-off,… 
Previously, he was Senior Science and Technology Expert in materials and structures, Project Coordinator for Multifunctional Materials Program at ONERA, Technical Correspondant for ONERA – DARPA project on Design of High Temperature Acoustic Absorbent Materials and also teached for master degree in aerospace. 
In parallel Dr. Paun has extensive business development experience outside France, especially in emerging East-European markets. He had created his own Engineering and Development Company and he is an associated founder of a dynamic start-up in France.  
He obtained his PhD at ENSICA, Toulouse 1998. Previously, he has joined Ecole Polytechnique, ParisTech, after receiving a Master in Aerospace Engineering at the Aeronautic Faculty in Bucharest.
He has an Executive Certificate awarded by the MIT Sloan on”Management and Leadership”, 2007.

UPSC Seminar 

Speaker:
Anke Carius
post-doc

Title:
Control of photosynthetic membrane expression in the anoxygenic purple bacterium Rhodospirillum rubrum

Host: Göran Samuelsson

UPSC Seminar Series Fall 2013

Speaker
Thomas Stanislas
post-doc UPSC

Title: Lipid composition and endocytosis in plant cell polarity

Host: Markus Grebe

Place: Lilla hörsalen, KB3A9

Cutting Edge Seminar


Speaker:
Dario Grattapaglia
Plant Genetics Laboratory, EMBRAPA Genetic Resources and Biotechnology,
Department of Cell Biology, Universidade de Brasilia, and Genomic Sciences Program - Universidade Católica de Brasília, Brasília, Brazil

Title:
Genomic selection in forest trees

Host: Harry Wu

Room KB3A9 Lilla hörsalen, KBC

UPSC Half-time Seminar

Speaker:
Ogonna Obudulu

Title:

Combine profiling in poplar, a system biology approach 

 

Place: Lilla hörsalen KB3A9, KBC

Seminar at the Department of Chemistry

Speaker:
Ron Pace
Research School of Chemistry – Australian National University – Canberra ACT, Australia

Title: New results from computational chemistry and magnetic resonance spectroscopy on the oxygen evolving center in photosystem II- Implications for water oxidation chemistry.

Location: KB3B3

Host: Johannes Messinger

UPSC Seminars 2013 presents

Marie-Theres Hauser
Applied Genetics and Cell Biology
BOKU-University of Natural Resources and Life Sciences, Vienna, Austria

Title: tba

Place: KB3A9, Lilla hörsalen

Host: Markus Grebe

Cutting Edge Seminar

 

Speaker:

Alain Goossens

Title: tba

 

Host: Catherine Bellini

Seminar

Speaker
Pitter Huesgen
University of British Columbia, Vancouver Canada

Title:
Proteome TAILS - proteolysis and its functions revealed by positional proteomics

Host: Göran Samuelsson

Place Lilla hörsalen, KB3A9

UPSC Seminar Series Fall 2013

Speaker:
Hailing Mao
postdoc

Title: Mechanisms underlying PEN3 membrane trafficking and outer lateral polarity formation

Place: Lilla hörsalen, KB3A9

Host: Markus Grebe

UPSC Seminar Series Fall 2013

Speaker:
Nico Blanco
postdoc

Title:

...Retrograde Signalling Revisited...

Place: Lilla hörsalen, KB3A9

Host: Åsa Strand

UPSC Seminar Series Fall 2013

Speaker:
Azeez Abdul
postdoc

Title: tbc

Place: Lilla hörsalen, KB3A9

Host: Rishi Bhalerao

Career Outside Academia Semiar Series 2013

Speaker:
Prof. Anton Mangstl
Affiliation: German Jordanian University, Jordan
Former Director at FAO


Résumé:
Anton Mangstl has a Ph.D. in Crop Science and is a specialist in agronomy and information management. He is now the Vice-President of the German-Jordanian University. Prior to joining the German-Jordanian University, he was the Director of the Knowledge Exchange and Capacity Building Division for the Food and Agriculture Organization (FAO) of the UN since 1996. Dr. Mangstl has guided the transition of FAO's information services into the Internet age. He was the Director of the Central German Center for Agricultural Documentation, the Director of the Centre for Agricultural Documentation and Information (ZADI) Bonn, Germany, and the Deputy to the Head of the Working Group on Crop Production and Informatics, Center for Life and Food Sciences in Agriculture, Freising-Weihenstephan (Germany).


Room: Lilla hörsalen, KB3A9

UPSC Seminar Series Fall 2013
Half-time seminar
Speaker:
Vicky Guo
PhD

Title: tbc

Place: Lilla hörsalen, KB3A9

Host: Benedicte Albrectsen

UPSC Seminar (OBS time quarter past)

Moritz Nowack
VIB Department of Plant Systems Biology, Ghent University, Belgium

 
Titel:
Programmed Cell Death in plant (reproductive) development
 
Host:
Hannele Tuominen
 
Place :
KB3B1 Stora hörsalen

UPSC Seminar Series Fall 2013

Speaker:
Daniela Liebsch
post-doc

Title: Beyond meristem maintenance
Unexpected functions of SHOOT MERISTEMLESS and KNAT1 on differentiation of cambial derivatives in the Arabidopsis hypocotyl

Place: Lilla hörsalen, KB3A9

Host: Urs Fischer

UPSC Seminar Series Fall 2013
Half-time seminar by

Speaker:
Xu Jin


Title: Auxin transport during leaf abscission in Populus

Place: Lilla hörsalen, KB3A9

Host: Urs Fischer

Career Outside Academia Seminar

Victoria Sörensson
Mats Reinhold

Soft skills: how to recognize and advertise them (workshop)

Place: KB3A9 Lilla hörsalen
Host: Delphine Gendre

 

Seminar by Jack Saddler from Forest Products Biotechnology / Bioenergy, University of British Columbia, Vancouver, Canada

Title: The potential of biofuels and the need for a biorefinery approach (a forest products perspective)

Place and Time: Thursday, 28 Nov 15.15, Stora hörsalen KB3B1

Host: Leif Jönsson, Chemistry

UPSC Cutting Edge Seminar Series 2013

Speaker:
Eva Benkova
Institute of Science of Technology, Klosterneuburg, Austria

Host: Catherine Bellini

UPSC Seminar Series Fall 2013
Half-time Seminar
Speaker:
Franziska Bandau


Title: tbc

Place: Lilla hörsalen, KB3A9

Host: Benedikte Albrectsen

UPSC Seminar Series Fall 2013

Half-time seminar

Speaker:
Thomas Vain

Title: Chemical Genomics to Unravel Auxin Perception Controlling Arabidopsis Seedling Development”

Place: Lilla hörsalen, KB3A9

Host: Stephanie Robert

UPSC Cutting Edge Seminar

Speaker
Daniel Hofius
Department of Plant Physiology
SLU Uppsala

Title: Interplay of membrane trafficking and
autophagy during immunity-related cell death

Place: Stora hörsalen, KBC, KB3B1
Host: Stephanie Robert

UPSC Seminar Series 2014 CHANGE OF TIME!!!

Cutting Edge Seminar

Speaker:
Anthony Dodd
Royal Society Research Fellow
School of Biological Science, University of Bristol, UK

Title: Circadian regulation of chloroplasts


Host: Maria Eriksson

Place: Lilla hörsalen KBC, KB3A9

Abstract:
Circadian timekeeping improves plant performance. Understanding the cellular basis for the circadian optimization of plant function is important, because this could unlock additional agricultural productivity. There are circadian rhythms of photosynthesis and correct circadian regulation increases plant productivity, but it is not known how the circadian oscillator regulates the photosynthetic apparatus or the chloroplast genome. I will show that in Arabidopsis, a subset of chloroplast-encoded photosynthesis genes is controlled by a nuclear-encoded signalling protein. Our findings reveal one pathway by which the nuclear-encoded circadian oscillator controls rhythms of chloroplast gene expression. I will show that light and circadian signals are integrated to adjust chloroplast transcription. I will conclude that (i) during evolution, prokaryotic transcriptional regulators in chloroplasts were recruited by the eukaryotic circadian system in higher plants, and (ii) circadian timing information is communicated between organelles with distinct genetic systems.

Career outside academia seminar / event.

Topic:
Working as a high-school teacher after a life-science education

The seminar will inform about the possibilities for PhDs and post-docs to work as teachers in schools, the necessary administrative hurdles to take and the activities of e.g. Umeå University to smoothen this change from science to education.

For that we present 3 speakers with key competences:

Christina Ottander
Associate Professor in Science Education, PhD in Biology, Dep of science and mathematics education, Umeå University

Annika Kjellsson-Lind 
kanslichef för lärarhögskolan, PhD in Physics , Dep of science and mathematics education, Umeå University, high-school teacher in the past.

Nathalie Druar
PhD with Rishi, now NTI-school Umeå, Director for social science, history, religion.

I dare to say we again can offer the perfect combination of people to cover the topic!
Most welcome everybody!

Jakob Prestele

Speaker:
Deborah Goffner
Research director at CNRS Toulouse (France) based at Cheikh Anta Diop University, Dakar (Senegal) and Stockholm Resilience Centre (Sweden)

Title: Working as a a researcher in Africa: The Great Green Wall for the Sahara project
 

Place: Lilla Hörsalen
Host: Judith Felten

UPSC Seminar 2014

Speaker:
Arne Weiberg
Center for Plant Cell Biology,
UC Riverside, California, USA.

Title:
Fungal Small RNAs Suppress Plant Immunity by Hijacking Host RNAi Pathway.

Lilla hörsalen, KB3A9

Host: Stefan Jansson

UPSC Seminar Series 2014
Cutting Edge Seminar

Speaker:
Enrico Martinoia
University of Zurich Switzerland
Pohang University of Science and Technology, Pohang, Korea

Title: ABC transporters are major players in phytohormone transport

Place: Lilla hörsalen, KB3A9

Host: Urs Fischer

UPSC Seminar

Speaker:
Laurens Pauwels
VIB Ghent, Belgium

Title:
Dissecting the JAZ/TIFY protein interaction landscape

Host: Stephanie Robert
Room: Lilla hörsalen

UPSC Seminar Series 2014
Post-doc Seminar

Kerstin Richau
postdoc

Title:
Frankia & me:
An atypical relationship

Room KB3A9
Host AS

UPSC Seminar/CLiC/BILS seminar

Speaker:
John Marioni
EMBL-EBI/Wellcome Trust Sanger Institute/Single-Cell Genomics Centre (http://www.ebi.ac.uk/research/marioni

Title:
Computational challenges in single-cell transcriptomics – from immune cells to neurons

Room:
Lilla Hörsalen KB3A9

Abstract:

Recent technical developments, facilitated in large part by work at the Karolinska Institutet, have enabled the transcriptomes of hundreds of cells to be assayed in an unbiased manner. These approaches have enabled heterogeneity in gene expression levels across populations of cells to be characterized as well as facilitating the identification of new, and potentially physiologically relevant, sub-populations of cells.

However, to fully exploit such data and to answer these questions, it is necessary to develop robust computational methods that take account of both technical noise and underlying, potentially confounding, variables such as the cell cycle.

In this presentation I will begin by briefly describing how we used spike-ins to quantify technical noise in single-cell RNA-seq data, thus facilitating identification of genes with more variation in expression levels across cells than expected by chance. Subsequently, I will discuss a computational approach that uses latent variable models to account for potentially confounding factors such as the cell cycle before applying it to study the differentiation of Th2 cells. I will show that accounting for cell-to-cell correlations due to the cell cycle allows identification of otherwise obscured sub-populations of cells that correspond to different stages along the path to fully differentiated Th2 cells.

To conclude, I will discuss further applications of single-cell RNA-seq in the context of studying neuronal cell types, including olfactory neurons. I will also describe how we are studying heterogeneity in gene expression levels whilst taking into account the spatial location of cells from the tissue under study.

Welcome!

If you’re interested in meeting personally with John, contact Jeanette Tångrot and Nicolas Delhomme ( jeanette.tangrot at molbiol.umu.se and nicolas.delhomme at umu.se) as we have a few time slots available during the day.

UPSC Cutting Edge Seminar 2014

Speaker:
Karin Schumacher
Plant Developmental Biology
Faculty of Biosciences, Ruprecht - Karls- University Heidelberg
Germany

Title:
Vacuoles - Pumping up the plant volume

Place: lilla hörsalen KB3A9
Host: Markus Grebe

UPSC Seminars 2014

Seminar (CHANGE of TIME!)

Invited Speaker:
Daniel Van Damme
VIB Ghent

Title:
The TPLATE complex drives clathrin-mediated endocytosis in plants

Host Stephanie Robért

Room KB3A9

Careers Out of Academia Seminar

Speaker:
Johanna Puonti-Kaerlas
European Patent Office

"Working as a scientist at the European Patent Office"

Place: Naturvetarhuset, N230

Host: Delphine Gendre

Careers outsida Academia Seminar

Speaker:
Johanna Puonti-Kaerlas
European Patent Office

Title:
"Introduction to the Intellectual Property Rights"

Place: Lilla hörsalen, KB3A9
Host: Delphine Gendre

UPSC Seminar Series

Half-time Seminars

Syzmon Tylewicz

Title: Photoperiodic control of growth cessation and adaptive response involves tree homologs of bZIP transcription factors

Place: Lilla hörsalen, KB3A9
Host: RB

Cutting Edge Seminar

Speaker
Julia Bailey-Serres
University of California, Riverside

Title:
Waterproofing plants: Sensing, signaling and response mechanisms


Host Johannes Hanson

Room KB3A9

Abstract

The development of crops that can survive extreme weather conditions is imperative due to climate change and population growth. Improving plant yields when there is too little or two much water is especially important. Flooding stress, including soil waterlogging and partial to complete submergence, reduces oxygen availability for ATP production, triggering alterations in gene transcription, mRNA translation and energy metabolism. The plant-specific Group VII Ethylene Response Factor (ERF-VII) transcription factors have emerged as pivotal regulators of flooding and low oxygen responses in plants. In rice (Oryza sativa), ERF-VIIs SUB1A and SNORKEL1/2 enable survival or escape of submergence, respectively. In Arabidopsis thaliana, there are five ERF-VIIs, which are unstable under oxygen-replete conditions due to turnover via the N-end rule of targeted proteolysis. As oxygen levels fall, the ERF-VIIs are stabilized and direct the upregulation of genes associated with anaerobic metabolism. Along with transcriptional regulation in oxygen-deprived cells, there is significant post-transcriptional control. As an energy conserving mechanism, mRNA translation is largely repressed by the sequestration of approximately 90% of the cellular transcripts in large cytosolic granular complexes. We recently reported dynamics in the movement of ribosomes along mRNAs and RNA binding protein that binds many cellular mRNAs that are sequestered during hypoxia. This protein-mRNA association is rapidly reversed upon reoxygenation, allowing stored mRNAs to resume translation. Our efforts to understand low oxygen sensing, signaling and response mechanisms are motivated by the ecological and agronomic relevance of flooding biology in light of the challenges of the 21^st century.

Mustroph, A., Zanetti, M.E., Jang, C.J., Holtan, H.E., Repetti, P.P., Galbraith, D.W., Girke, T. and Bailey-Serres, J. (2009) Profiling the Arabidopsis translatome in discrete cell types resolves altered cell-specific priorities in response to hypoxia. Proceedings of the National Academy of Sciences, USA. 106(44):18843-18848.

Gibbs, D.J., Lee, S.C., Isa, N.M.,Gramuglia, S., Fukao, T., Bassel, G.W., Correia, C.S, Corbineau, F., Theodoulou, F.L., Bailey-Serres, J. and Holdsworth, M.J. (2011) Homeostatic response to hypoxia is regulated by the N-end rule pathway in plants. Nature 479(7373):415-418.

Fukao, T., Yeung, E. and Bailey-Serres, J. (2012) The submergence tolerance gene, SUB1A, delays leaf senescence under prolonged darkness through hormonal regulation in rice. Plant Physiology. 160:1795–1807.

Juntawong, P., Girke, T., Bazin, J. and Bailey-Serres, J. (2014) Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis Proceedings of the National Academy of Sciences, USA. 111(1):E203-12.

Sorenson, R. and Bailey-Serres, J. (2014) Selective mRNA sequestration by OLIGOURIDYLATE BINDING PROTEIN 1 contributes to translational control during hypoxia in Arabidopsis. Proceedings of the National Academy of Sciences, USA. 111(6):2373-2378.

Cutting Edge Steve McKeand

NOTE Change of Time and Lecture room!!!

KB3B1
Host: Harry Wu

UPSC Seminars 2014 NOTE  Change of TIME!
Half-time seminar

Daniel Decker

Title:
UDP-sugar-utilizing pyrophosphorylases in plants

Host: Leszek Kleczkowski

UPSC Seminars 2014

Half-time Seminar

Speaker:
Chen Zhi-qiang

Title:
Quantitative genetics of wood quality traits in Norway spruce

Speaker
Dr. Andrew J. Tanentzap
Dept. Of Plant Sciences, Cambridge University (http://www.plantsci.cam.ac.uk/research/andrewtanentzap)

Title:
Titel: ECOSYSTEM ECOLOGY NEEDS MORE EVOLUTION

Host: Maria Eriksson
Room: Lilla hörsalen, KB3A9

Abstract: Disturbances associated with global change are degrading natural ecosystems.  But policy-makers and managers need predictions of how ecosystem functioning and patterns of biodiversity might respond to disturbances in order to intervene.  My research group is addressing these needs by tackling problems around water security.  We are focusing on how alterations to vegetation associated with land-use change and water extraction are, respectively, reducing the productivity of food webs in boreal lakes and persistence of biodiversity hotspots in dryland landscapes.  We are finding that the local outcomes of global change may ultimately be driven by the evolutionary history of traits determining species' responses to disturbance and their competitive abilities. 

Older lineages that have had longer to diversify within niche space may lose their ecological advantages as disturbance intensifies.  We are now interested in testing these ideas over much larger macro-ecological scales and linking evolution in the expression of response traits to underlying genetic processes.

UPSC Seminars 2014

Half-time Seminar

Speaker:
Kristoffer Jonsson


Room: KB3B1

UPSC Seminar

Speaker:
Carl Douglas
University of British Columbia
Department of Botany

Title:
Genomic analysis of range-wide collections of Populus trichocarpa and P. balsamifera: connecting phenotype and genotype

Place: Lilla hörsalen KB3A9
Host Björn Sundberg

UPSC Seminars 2014

Post-doc Seminar

Speaker:
Marc Rühl

Title:
The role of EARLY BIRD in the circadian clock of Arabidopsis thaliana

Place: Lilla hörsalen KB3A9

Master Thesis Defence

Guillermo Bañares de Dios

Title:
Eluidating the role of CSK during early light response and chloroplast development

Supervisor: Åsa Strand
place: KB4C10 (lecture room)

UPSC Seminar Series 2014

Cutting Edge Seminar 

Speaker:
Tom Beeckman 
VIB, Department of Plant Systems Biology, University of Ghent, Belgiium

Title:
Root architecture steered by the root cap

Host: Stephanie Robért
Place: Lilla hörsalen, KB3A9

Title : TBA
Were: KB3A9 15.00

Title : Trends of Genomic Researches in Korea
Dr. Park will present an introduction to the activities of KFRI, overview a new Korean Forest Resources Genome Project (in which UPSC is a collaborator) and current work focusing on metabolome-assisted early selection for fast-growing traits in Pinus densiflora.
http://www.researchgate.net/profile/Eung_Jun_Park target

Place: Friday 26th at 14:00 in KB4C10

UPSC Cutting Edge Seminar

Title:
Jasmonates and biosynthesis of defines metabolites, can we break the multiple feedback loops?

Speaker:
Alain Goossens
VIB, Department of Plant Systems Biology, University of Ghent, Belgiium

Host: Catherine Bellini

Time and Place: Monday October 6th - 10:00-11:00.
Place: Lilla hörsalen, KB3A9

UPSC Seminars 2014 presents

Speaker:

Terkel Hansen
University of Tromsø
The Arctic University of Norway

My bioanalytic research in Tromsø
- present and future


Place: KB3A9, Lilla hörsalen, KBC

Hosts: Gunnar Wingsle / Thomas Moritz

Title: TBA
Where: KB3A9 15.00

UPSC Seminar

Speaker:
Kamel Hammani
CNRS-UPR2357
Institute de Biologie Moléculaire des Plantes
Strasbourg, France

Title:
Mode of action of PPR proteins in plant organellar gene expression

Place: KB3A9 Lilla hörsalen

Hosts: Åsa Strand and Olivier Keech

SLU Department of Wildlife, Fish, and Environmental Studies
Seminar

Seminar by Frank & Elin Götmark
University of Gothenburg


Title:
Why produce multiple woody stems? Hypotheses and models for the adaptive significance of the shrub growth form

Place: Lecture room Aspen, SLU

Host: Lars Edenius, SLU

-------------------

Abstract:
Trees are tall woody plants with a single self-supporting woody stem, branching well above ground level, while shrubs are shorter woody plants with multiple self-supporting woody stems, branching at ground level. Shrubs occur in as many plant families as trees, and may have evolved before trees. Shrubs occur in 9 of 11 global biomes according to one classification; in another classification of terrestrial global biomes, shrubs occur 13 of 14 biomes. Shrubs grow in forests, but are also common in many regions and habitats that lack trees. Thus, shrubs are more widespread than trees, and important for many ecosystem functions. Surprisingly, we have not found any detailed analysis of factors that may have selected for the shrub growth form. We will present nine hypothesis, two supported by models, to explain the adaptive significance of shrubs.

 

-----

Frank Götmark is a professor in Animal Ecology and Conservation Biology at Gothenburg University.

His research interests covers:

Ecology and conservation of forest ecosystems, temperate zones
Broadleaved forests and management for biodiversity and biofuel
Oak (Quercus spp.) ecology: regeneration and stand management
Nature reserve systems and conservation policy
Anti-predator adaptations and predation by birds of prey
The less known biodiversity: molluscs, insects, cryptogams (collaboration with other researchers)

For more information about Frank, see: http://bioenv.gu.se/english/staff/Gotmark_Frank/ee

Elin Götmark is a senior lecturer at the department of Mathematical Sciences at Gothenburg University, and her research focuses at complex analysis and partial differential equations.

Welcome!

Lars Edenius

UPSC Seminar:

Speaker:
Rossana Henriques
Career Track Fellow
Centre de Recerca en Agrigenòmica (CRAG)
Edifici CRAG, Campus UAB
Bellaterra (Cerdanyola del Vallés)
Barcelona

Title:
From genome dark matter to biological regulation: uncovering long non-coding RNA function in plants

Host
Laszlo Bako

Place Lilla hörsalen KB3A9

Title: TBA
Where: KB3A9 15.00

UPSC Seminar

Sepaker:
Claudio Stasolla
Dept. Plant Science, University of Manitoba, Winnipeg, Canada

Title:
In vitro plant embryogenesis: improving embryo yield

Place: KB3A9, Lilla hörsalen

Host: Ulrika Egertsdotter

Plant embryogenesis is an essential phase of the plant life cycle and formation of embryos can be stimulated in vitro through the careful selection of media components and environmental conditions. Work in my lab has recently been focussed on the function of plant hemoglobins (Hbs) during somatic embryogenesis in dicots and monocots.   First described in animals, Hbs have now been identified in a variety of organisms including plants where their major function is to scavenge cellular nitric oxide (NO). Suppression of the Arabidopsis class 2 Hb (Hb2) enhances the formation of somatic embryos through the NO-mediated suppression of the transcription factor MYC2. Repression of MYC2 increases IAA accumulation at the sites of embryogenic tissue formation, and favors the formation of Arabidopsis somatic embryos.   In maize the two Hbs: ZmHb1 and ZmHb2 regulate the cell survival/death decision that influences somatic embryogenesis through their cell-specific localization patterns. Suppression of either of the two ZmHbs is sufficient to induce PCD through a pathway initiated by elevated nitric oxide (NO) and zinc (Zn²⁺⁾ levels, and mediated by production of reactive oxygen species (ROS). The effect of the death program on the fate of the developing embryos is dependent upon the localization patterns of the two ZmHbs. During somatic embryogenesis, ZmHb2 transcripts are restricted to a few cells anchoring the embryos to the subtending embryogenic tissue, while ZmHb1 transcripts extend to several embryonic domains. Suppression of ZmHb2 induces PCD in the anchoring cells allowing the embryos to develop further, while suppression of ZmHb1 results in massive PCD leading to abortion. It is concluded that regulation of the expression of these ZmHbs has the capability to determine the developmental fate of the embryogenic tissue during somatic embryogenesis through their effect on PCD. These studies place Hbs as central regulators of in vitro embryogenesis

UPSC Seminar
Speaker:
Carole Dubreuil
Post-doc

Title:
Elucidating the mechanisms involved in chloroplast biogenesis by using an Arabidopsis cell culture system

Host Åsa Strand

UPSC Seminar Series 2014
Cutting Edge Seminar

Speaker:
Sabrina Sabatini
Università degli di Roma "La Sapienza"
Rome, Italy

Title: New insight in root meristem size determination and root zonation

Host: Karin Ljung
Place Lilla hörsalen KB3A9

Abstract:
Understanding the molecular mechanisms through which plant meristems are maintained is a central question in developmental biology. In the root of Arabidopsis thaliana, stem cells in the apical region of the meristem self-renew and produce daughter cells that differentiate in the distal meristem transition zone. To ensure root growth, the rate of cell differentiation must equal the rate of generation of new cells. Cell differentiation takes place in the transition zone that is localized in the distal part of the root meristem, but must be synchronized and balanced with division of the stem cells that are localized in the apical part of the meristem. We have previously shown that maintenance of the Arabidopsis root meristem size - and consequently root growth - is controlled by the interaction between two hormones at the meristem transition zone: cytokinins, which promote cell differentiation, and auxin, which promotes cell division.

New data will be presented on the molecular mechanism by which cytokinin induce cell differentiation influencing auxin distribution and, as a consequence, root zonation

UPSC Seminar

Wendy Heywood
University College London, UK

Title:
Targeted Proteomics: Translating Omics to the clinic

Room: N200, Naturvetarhuset
Host: Jonas Gullberg, Gunnar Wingsle,

She is invited to tell us about her recent progress using targeted proteomic methodology.
Everyone interested in this or general proteomics is welcomed.
Her research profile and publication list can be found here:https://iris.ucl.ac.uk/iris/browse/profile?upi=WEHEY77

UPSC Seminar Series 2014
Cutting Edge Seminar 

Speaker:
Jay J. Thelen
Department of Biochemistry, 
Christopher S. Bond Life Sciences Center
University of Missouri, Columbia, MO, USA

Title:
Phosphoproteomic analysis of seed maturation – from discovering phosphorylation sites to identifying kinase clients

Host: Vaughan Hurry

Place: Lilla hörsalen, KB3A9

Abstract

Although metabolic networks for storage reserve synthesis have been largely characterized in diverse plant seed we are only beginning to understand the complex regulatory processes involved in seed development. Protein phosphorylation is a major form of post-translational regulation in eukaryotes as evidenced by over 1000 protein kinases in the Arabidopsis proteome. To begin studying protein phosphorylation in developing seed we performed large-scale, mass spectrometry-based phosphoproteomic studies on seeds at five stages of development in soybean (Glycine max), rapeseed (Brassica napus), and Arabidopsis (Arabidopsis thaliana). Phosphopeptides were enriched from 0.5 mg total peptides using a combination of immobilized metal affinity and metal oxide affinity chromatography. Enriched phosphopeptides were analyzed by Orbitrap tandem mass spectrometry and spectra mined against cognate genome or cDNA databases in both forward and randomized orientations, the latter to calculate false discovery rate (FDR). We identified a total of 2001 phosphopeptides containing 1026 unambiguous phosphorylation sites from 956 proteins with an average FDR of 0.78% for the entire study (Meyer et al., 2012). The dataset was uploaded into the Plant Protein Phosphorylation Database (P3DB, www.p3db.org), including annotated spectra, for public accession. P3DB is a portal for all plant phosphorylation data and allows for homology-based querying of experimentally-determined phosphosites (Gao et al., 2009). Comparisons to other large-scale studies revealed that 652 of the phosphoproteins are novel to this study. The unique proteins fall into several Gene Ontology categories, some of which are overrepresented in our study as well as other large scale phosphoproteomic studies including metabolic process and RNA binding; while other categories are only overrepresented in our study like embryonic development. Leveraging large-scale phosphoproteomic datasets such as these, we developed a phosphorylation prediction tool called MUSite (http://musite.sourceforge.net/) that incorporates protein disorder as one of three features for prediction (Gao et al., 2010). The sensitivity and accuracy of this prediction algorithm is unmatched, and application to whole plant proteomes such as Arabidopsis TAIR10 indicates greater than 17,000 phosphorylation sites at the 99% confidence interval. Clearly, experimental and bioinformatic prediction of phosphorylation sites is rapidly becoming a facile task. However, confirmation and identification of cognate protein kinases responsible for these events remains challenging. I will also introduce a novel approach to address this problem called the Kinase Client or KiC Assay (Huang et al., 2009). Using this approach we have identified many kinase client relationships, including three different protein kinases responsible for over ten phosphorylation events on a single phosphoprotein.

Ahsan N, Huang Y, Tovar-Mendez A, Swatek KN, Zhang J, Miernyk JA, Xu D, Thelen JJ. (2013) A

Versatile Mass Spectrometry-Based Method to Both Identify Kinase Client-Relationships and Characterize Signaling Network Topology. J Proteome Res. 12:937-48

Meyer LJ, Gao J, Xu D, Thelen JJ (2012) Phosphoproteomic analysis of seed maturation in

Arabidopsis, rapeseed, and soybean. Plant Physiol. 159:517-28

Huang Y, Houston NL, Tovar-Mendez A, Stevenson SE, Miernyk JA, Randall DD, Thelen JJ (2010) A

quantitative mass spectrometry-based approach for identifying protein kinase –clients and quantifying kinase activity. Anal. Biochem. 402:69-76

Gao J, Agrawal GK, Thelen JJ, Xu D (2009) P3DB: A plant protein phosphorylation database. Nucl. Acids

Res. 37:D960-962

Gao J, Thelen JJ, Dunker AK, Xu D (2010) Musite: a tool for global prediction of general and kinase-

specific phosphorylation sites. Mol. Cell. Prot. 9:2586-25600

UPSC Seminar - postdoc seminar

Speaker:
Adeline Rigal

Title:
Unraveling transcriptional regulation of adventitious root formation with a small molecule

Host: Stéphanie Robert

Room: KB3A9, Lilla hörsalen

UPSC PhD Halftime Seminar

Speaker:
Zofia Stangl


Title:
Tree growth is affected by temperature and nutrient interactions

Host: Vaughan Hurry

Room: KB3A9, Lilla hörsalen

PhD Halftime Seminar
Forest Genetics and Plant Physiology, SLU/ The Swedish Defence Research Agency (FOI)

Speaker
Tomas Bergström

Title:
New insights in botulinum toxin analysis by mass spectrometry

Supervisor: Gunnar Wingsle

Room: Lilla hörsalen, KB3A9, KBC

UPSC Seminar

Speaker:
Alison Smith
John Innes Centre, Norwich, UK

Title:
The leaf at night

Room. Lilla Hörsalen, KB3A9
Host: Eduoard Pesquet

UPSC Seminar
Postdoc Seminar

Speaker:
Manuela Jurca

Title: The role of NFX-like proteins as circadian clock regulators

Host: Maria Eriksson
Place: NOTE! Stora hörsalen KB3B1

Title: TBA
Where: KB3A9 15.00

UPSC Seminar, Department of Forest Genetics and Plant Physiology


Speaker:
Robert Turgeon
Cornell University, USA

Title. Phloem loading in trees and herbs: Why is there more than one
mechanism?

Host: Totte Niittylä

Place: Stora hörsalen, KB3B1

UPSC Seminar 
Postdoc Seminar


Speaker 
Daniel Pacurar

Title: Digging for genes controlling adventitious root formation in Arabidopsis thaliana

Host: Catherine Bellini
Place Lilla hörsalen

UPSC Seminar
postdoc seminar

Speaker:
Anne Honsel

Title: Deciphering energy signaling in plants

Host: Johannes Hanson
Place: Lilla hörsalen KB3A9

UPSC Seminar Series

Speaker:
Judith Felten

Title:
Cell wall remodelling during ectomycorrhiza development



Host: Björn Sundberg
Place: Lilla hörsalen KB3A9

UPSC Seminar 2015
Speaker:
Dr. Beata Kmiec,
Department of Biochemistry and Biophysics
Stockholm University

Title: "Shredding the signal: targeting peptide degradation in mitochondria and chloroplasts.”

Host: Per Gardeström

Room: KB3A9 Lilla hörsalen

NOTE TIME CHAMGE! 11.00 instead of 10.00!

Title: TBA
Where: KB3A9 15.00

UPSC Seminar

Speaker:
Peter Kindgren
Plant Energy Biology, ARC Centre of Excellence
The University of Western Australia

Title:
PPR proteins: an emerging tool to control defined RNA targets


Room: KBF30
Host : Åsa Strand

UPSC Seminars 2015
Half-time Seminar

Speaker:
Shashank Sane

Title: To Investigate pathways that regulate Bud Set and Bud Flush in Poplar

Host: Ove Nilsson

Room Lilla hörsalen, KB3A9

UPSC Seminar 2015

Speaker:
Siamsa Doyle, postdoc

Title: Identifying Compounds Regulating  Auxin Transport

Host: Stephanie Robert

Room: Lilla hörsalen, KB3A9

UPSC Seminar 2015
Half-time Seminar

Speaker:
Stefano Papazian

Title: Metabolomics of plant defense under multiple stress conditions

Host: Benedicte Albrectsen

Room: Lilla hörsalen KB3A9

UPSC Seminars 2015
Half-time Seminar

Speaker:
Barbara Terebieniec

Title: A Systems Genetics Approach to Understanding the Genetic Control of Leaf Shape Variation in SwAsp

Host: Nathanial Street

Room: Lilla hörsalen KB3A9

Title: TBA
Where: KB3A9 15.00

UPSC Seminar Series 2015

Cutting Edge Seminar

Speaker:
Miguel Blazguez
Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV), Valencia, Spain


Title: Oxygen as a positional signal during seedling development

Room: NOTE! Stora hörsalen KB3B1

Host: Hannele Tuominen

Department of Chemistry
Seminar

Speaker:
Jörg Nickelsen
Biozentrum der LMU München, AG Molekulare Pflanzenwissenschaften, Botanik, Munich Germany

Title:
Biogenesis and Biomedical Utilization of the Photosynthetic Apparatus

Host: Christiane Funk

Room: KB3A9, Lilla hörsalen KBC

Abstract:
Cyanobacteria, algae and plants can convert light energy to chemical energy using a very similar type of photosynthetic membrane system, named thylakoids. Current molecular analyses suggest that the initial steps of the biogenesis of the cyanobacterial energy conversion system, in particular photosystem (PS) II, progress in a membrane subfraction representing a biosynthetic center which is marked by the PS II assembly factor PratA. This factor binds and delivers manganese (Mn) to PS II and, consequently, is involved in the assembly of its oxygen evolving Mn₄CaO₅ cluster.
Also in chloroplasts of the eukaryotic alga Chlamydomonas reinhardtii, PSII biogenesis centres – so called translation (T) zones – have been described. We have recently identified the DLA2 factor which appears to target the chloroplast psbA mRNA to these T-zones. Interestingly, DLA2 represents the E2 subunit of the plastid pyruvate dehydrogenase enzyme suggesting a crosstalk between gene expression and carbon metabolism via this protein.
In an applied approach, the oxygen evolving activity of PSII is used to provide a constant source of oxygen supply to engineered mammalian skin tissues which usually suffer from hypoxia due to poor vascularization. In particular, our data suggest that bioartificial scaffolds can be loaded with the microalgae Chlamydomonas reinhardtii, showing high biocompatibility and photosynthetic activity in vitro. The results of this study represent a first step towards the establishment of engineered autotrophic tissues and suggest that the use of photosynthetic cells can overcome a broader spectrum of hypoxic stress conditions.

UPSC Seminars 2015
Half time Seminar

Speaker:
Unmut Rende

Title: Sucrose Cleavage During Wood Formation


Host Totte Niittylä
Room Lilla hörsalen, KB3A9

UPSC Seminar Series 2015
Cutting Edge Seminar 

Speaker:
Chrisanto Gutierrez

Title:
A chromatin perspective of cell cycle and genome replication during Arabidopsis organogenesis

Host: László Bakó

Room: Lilla hörsalen KB3A9


Abstract:

A chromatin perspective of cell cycle and genome replication during Arabidopsis organogenesis
Crisanto Gutierrez
Centro de Biologia Molecular Severo Ochoa (CSIC-UAM)
 
The cell cycle is defined by a series of complex events, finely coordinated through hormonal, developmental and environmental signals, which occur in a unidirectional manner and end up in producing two daughter cells. Accumulating evidence reveals that chromatin is not a static entity throughout the cell cycle. In fact, there are many changes. It is possible to correlate the occurrence of several of these chromatin-related events with specific processes necessary for cell cycle progression. Therefore, an emerging view is that chromatin dynamics must be considered as an intrinsic part of cell cycle regulation. In this talk, I will briefly review the results supporting a chromatin perspective of the cell cycle. Also I will focus on events related to genome replication and cell division control in the meristems linked to chromatin dynamics.

UPSC Seminars 2015


Speaker:
Delphine Gendre, postdoc

Title: Dissection of root hair formation – How ECH and YIP4 intervene

Host: Rishi Bhalerao

Room Lilla hörsalen, KB3A9

Seminar

Speaker:
Steven Penfield
John Innes Centre UK

Title Parenting for plants: a manual for the successful control of progeny seed behaviour for mothers


Host: Maria Eriksson
Place: Lilla hörsalen, KB3A9

Abstract:
 
In humans we understand that fitness is about more than just progeny yield, but also about parental optimisation of progeny behaviour. But what about plants where little is known about the influence of parents on progeny attributes beyond a shared genetic heritage? In this talk I will discuss how dynamic environmental signalling processes in the mother plant are used to generate trans-generational information flows that control offspring behaviour and permit coordination of plant life history by seasonal cues. I will show that seasonal detection pathways converging on Flowering Locus T play a key role in this process and in so doing reveal why flowering time control is important for plant fitness.

UPSC Seminar Series 2015

Speaker:
Janice Cooke

Department of Biological Sciences
University of Alberta, Edmonton, Canada

Title: Living on the edge: Responses of an evolutionarily co-evolved and a naïve
pine host in the face of mountain pine beetle range expansion


Host. Ulrika Ganeteg

Room: Lilla hörsalen, KB3A9

Abstract:
The current epidemic of mountain pine beetle (MPB) has impacted more than
28 million hectares of pine forests in western North America.  Lodgepole
pine, with a range overlapping that of MPB, has been the main species of
pine affected by the present outbreak.  From its historic range in British
Columbia, MPB has spread across the Rocky Mountains into northern Alberta.
In this novel habitat, lodgepole pine hybridizes with jack pine, a boreal
forest species.  We used species-distinguishing markers to refine this
hybrid zone, and demonstrate that MPB has undergone host range expansion
to pure jack pine.  We are testing the hypotheses that (1) host quality
differs between lodgepole and jack pine and (2) that abiotic stresses such
as water limitation affect these responses.  Lesion development following
inoculation with the MPB fungal associate Grosmannia clavigera was slower
in jack pine than lodgepole pine, with water deficit delaying lesion
development in both species.  G. clavigera inoculation significantly
increased levels of jasmonic acid in both species.  Microarray analyses
revealed that thousands of genes are invoked in the response of these pine
species to G. clavigera infection, that there are substantial differences
in responses of lodgepole and jack pine, and that water limitation alters
this transcriptional programme.

UPSC Seminar Series 2015

Speaker:
Quian Ma
postdoc

Title: Functional Characterization of a Novel F-Box Protein in Arabidopsis



Host: Stephanie Robert

Room: Lilla hörsalen, KB3A9

UPSC Seminars

Speaker: Lars Ostergaard
John Innes Centre
Head of the Department of Crop Genetics
Norwich Research Park,
Norwich, UK

Title: Symmetry Matters in Arabidopsis Gynoecium Development

Host: Urs Fischer

Place: Lilla hörsalen KB3A9

EMG Seminar
Speaker:
Xiao-Ru Wang

Title:
Optimization of genotyping-by-sequencing (GBS) strategies for population genomic research

Room: KB5C2
Contact: Mehdi Cherif

UPSC Seminars 2015
Cutting Edge Seminar

Speaker:
José Alonso
University of Pennsylvania and The Salk Institute for Biological Studies

Title:
The many layers of plant hormone interactions: from metabolic networks to translation regulation

Host: Karin Ljung

Room: NOTE! Stora hörsalen KB3B1

Abstract:
Fine-tuning of the growth and development programs with the changes in the environment is a process of critical importance for plants that, due to their sessile lifestyle, cannot escape adverse environmental conditions. Plant hormones play a key role in the integration of signals triggered by endogenous and exogenous stimuli. To dissect the involvement of plant hormones in signal integration, the interaction between ethylene and auxin in the regulation of a highly plastic phenotype, root elongation, was chosen as a model. Our initial studies have uncovered an unexpected role of ethylene in the precise spatiotemporal regulation of auxin biosynthesis. Current work using genome-wide ribosome footprinting is uncovering the molecular mechanisms linking this hormone perception to the activation of a novel gene-specific translational control mechanism. Characterization of one of the targets of this translational regulation indicates that the signaling molecule EIN2 and the nonsense-mediated decay proteins UPFs play a central role in this ethylene-induced translational response. Our findings represent a new mechanistic paradigm of gene-specific regulation of translation in response to a key growth regulator in plants.


https://genetics.sciences.ncsu.edu/index.php/people/jose-alonso

UPSC Seminar 2015

Cutting Edge Seminar 

Speaker:
Dan Szymanski
Agronomy, Purdue University, West Lafayette, I, USA


Title: Integration of cytoskeletal and cell wall systems during plant cell morphogenesis

Room: lilla hörsalen, KB3A9


Host: Stephanie Robert

UPSC Seminar Series 2015


Speaker:
Azim-Berdy Besya, postdoc

Title: tba

Host: Andreas Grönlund

Room: Lilla hörsalen KB3A9

UPSC Seminar

Speaker:
Guadalupe Dominguez

Title: Functional analysis of ASR1 transcription factor in Solanaceae

Host
Totte Niitylä

Place: Lilla hörsalen KB3A9

UPSC Seminar

Speaker:
John O'Neill
MRC Laboratory of Molecular Biology
Cambridge University, UK

Title: Metabolic Oscillations in Yeast and Circatidal Cycles in Eurydice pulchra share - Features Conserved among Circadian Rhythms

Host. Maria Eriksson

Place: Lilla hörsalen, KB3A9, KBC

Abstract:
Circadian rhythms allow organisms to temporally orchestrate their internal state to anticipate and/or resonate with the external environment. Although 24-hr periodicity is observed across aerobic eukaryotes, the central mechanism has been hard to dissect because few simple models exist, and known clock proteins are not conserved across phylogenetic kingdoms. In contrast, contributions to timekeeping made by a handful of post-translational mechanisms, such as phosphorylation of clock proteins by casein kinase 1, appear conserved among phyla. These kinases have many other essential cellular functions and are better conserved in their contribution to timekeeping than any of the clock proteins they phosphorylate. Temperature compensation and metabolic rhythms are other universal features of circadian timekeeping. Here, we use comparative chronobiology to distinguish fundamental clock mechanisms from species-specific adaptations and thereby identify features shared between the mammalian cellular clock, ultradian respiratory oscillations in budding yeast and circatidal rhythms in the crustacean Eurydice pulchra. Our data point to common mechanisms underlying all three biological rhythms and suggest two interpretations: either certain biochemical systems are simply permissive for cellular oscillations (with frequencies from hours to days) or this commonality arose via divergence from an ancestral cellular clock.

UPSC Seminar


Speaker:
John Baison
postdoc

Title:
Identification of disease resistance candidate genes in three Malus populations

Local: Lilla hörsalen KB3A9

Host: Totte Niittylä and Rosario Garcia Gil

UPSC-Seminar

Shinya Kajita
Graduate School of Bio-Applications and System Engineering, Tokyo University of Agriculture and Technology

Title of the seminar:
Genetic engineering of lignin using a bacterial gene

Host: Edouard Pesquet
Room: Lilla hörsalen KB3A9

Lignin is one of the major components of the plant cell wall. It is an aromatic polymer with different types of chemical linkage. The most abundant linkage unit in typical native dicot lignin is the ß-aryl ether (ß–O–4) unit, which accounts for over 50% of all units. The benzylic ß-positions of ß–O–4-units are usually hydroxy-substituted. The ß-keto-ß–O–4 units, with carbonyl groups at the benzylic positions, are also found in natural lignins at very low concentrations. These ß-keto ß–O–4 units can be cleaved under alkaline and/or oxidative conditions more easily and faster than the typical ß–O–4-units with benzylic hydroxyl groups. Thus, increasing the abundance of ß-keto-ß–O–4 units as opposed to the typical ß-hydroxy-ß–O–4 units in the lignin backbone can contribute to a reduction in the cost and energy required for chemical pulping and biomass pretreatment processes in cellulosic ethanol production.

Sphingobium sp. strain SYK-6 , a gram-negative bacterium, can utilize various monomeric and dimeric aromatic compounds that are intermediates in the lignin biosynthetic pathway, such as cinnamic acid, cinnamaldehyde, and ß–O–4 dimers. In our previous studies, we isolated and characterized a lot of genes from the bacterium, which were involved in the degradation of these compounds. One of the genes, ligD, encodes C? dehydrogenase, which catalyzes the first step in the cleavage of the ether bond of ß–O–4 dimers. This enzyme oxidizes the alcohol group at benzyl position of the dimers and oligomers to the carbonyl group. Thus, in the present study, we introduced ligD into the plant genome and attempted to generate transgenic plants whose lignin can be easy to remove from the holocellulose fraction. Recombinant LigD , and transgenic Arabidopsis plants with ligD and their lignins have been characterized by chemical, biochemical, and genetic methods.

Reference: Tsuji et al. Plant Biotech J, 13, 821-832 (2015).

Title: Exploring Loblolly Pine Genetic Diversity Using Genotyping-By-Sequencing: Initial Results
Ross Whetten
North Carolina State University, USA

Host: Harry Wu

Time & Place: 2015-10-02 14.00 Stora Hörsalen KBC

Speaker: Stefano Manzoni – Department of Physical Geography, Stockholm University
Title: Eco-hydrological optimality explains global patterns in plant hydraulic traits
Time & Place: Thursday 15th October 2015 14:00-15:00 Room KB3B3

Abstract: Plant hydraulic traits exhibit both trade-offs (e.g., xylem safety vs. efficiency) and coordination (e.g., correlation of liquid- and gas-phase conductances). While some of these patterns can be explained by physiological features at the conduit scale, here we present the hypothesis that trait coordination and trade-offs can emerge from eco-hydrological optimality criteria. In the short-term and in moist conditions, plants need to transport water fast to match the atmospheric evaporative demand, which causes a steep water potential gradient between leaves and soil. The larger this gradient, the higher the transpiration rate, until cavitation ensues and xylem hydraulic conductivity is decreased. Hence, there is a tradeoff between hydraulic efficiency and driving force, resulting in maximum transpiration rates at intermediate values of leaf water potential. Using a minimalist model of plant hydraulics, we show that maximum transpiration can be attained when saturated hydraulic conductivity and resistance to cavitation are inversely proportional (i.e., there is a xylem safety vs. efficiency trade-off), and that indeed maximum rates are reached across biomes. Plants also need to use soil water effectively when it becomes limiting. To do so, two strategies might be selected for: avoidance of hydraulic failure in dry periods and long-term maximization of transpiration rate (assumed as a proxy for plant fitness). Results show that both strategies require that stomatal closure is coordinated with loss of conductivity due to cavitation. Moreover, the optimal combinations of xylem and stomatal traits depend on both total rainfall and its distribution during the growing season. Drier conditions or intense rainfall events interspaced by prolonged dry spells favor plants with high resistance to cavitation and delayed stomatal closure as soils dry. In contrast, plants in mesic conditions benefit from cavitation prevention through earlier stomatal closure. The proposed eco-hydrological optimality criteria can be used as analytical tools to interpret variability in plant water use and predict trends in plant productivity and species composition under future climates.

Speaker: Simon Hawkins – Plant Fiber Team, UGSF, UMR CNRS 8576. University of Lille 1, France
Title: Organ-specific proteomics and targeted cell wall analyses in flax
Time & Place: Friday 16th October 2015 10:00-11:00 Room KB3B3

Abstract: Flax (Linum usitatissimum L.) is a fiber plant species that has been used since antiquity for the fabrication of textiles (linen), as well as for the production of oil (linseed). Flax is also an excellent model to study cell wall biology as the inner- and outer-stem tissues of this plant contain cells with highly contrasted wall compositions. Cells from the inner xylem core have heavily lignified secondary cell walls containing up to 31 % lignin whereas the thick secondary cell walls of the long bast fibers present in outer stem tissues are richer in cellulose and contain only 4 % lignin. The use of an organ-specific proteomics approach allowed us to identify 1,242 non-redundant proteins present in 3 different fractions (soluble, membrane and cell wall) from 4 different flax organs (inner-/outer-stems, leaves and roots). Subsequent analyses of these proteins, as well as of other published flax proteomics data, enabled us to identify 405 proteins potentially involved in cell wall metabolism in this species. A study of potential protein networks using STRING (http://string-db.org) underlined organ-/tissue-specific differences in protein networks potentially related to contrasted cell wall structure/metabolisms. Phylogenetic analyses of the flax cell wall proteins also allowed us to identify a marked paralogy in the XTH (Xyloglucan endotransglucosylase/hydrolase) IIIA family involved in cell wall remodeling events and potentially associated with the differentiation of flax bast fibers.

Speaker: Ioanna Antoniadi
Title: Heterogeneous intra- and extra-cellular distribution and perception of cytokinins in Arabidopsis roots
Host: Karin Ljung

UPSC Seminar Series 2015

Speaker
Michael Karady
Postdoc

Title:
Organic electronic ionic pumps and plant hormone analysis


Place:
Lilla hörsalen, KB3A9

UPSC
Halftime - Seminar

Julia Haas

Title:
Abiotic stress and the role of the microbiome in Norway spruce establishment and growth

Place: Lilla hörsalen, KB3A9

UPSC Seminar Series
Post-doc Seminar


Speaker:
Nicolas Delhomme

Title:
The “de facto” UPSC Bioinformatics Facility formalisation and its ongoing research


Place: Lilla hörsalen, KB3A9

UPSC - Seminars

Speaker:
Christian S. Hardtke
University of Lausanne, Switzerland

Title:
Autocrine peptide signals, self-organization
and zombie cells: molecular switches in phloem formation


Host: Ove Nilsson
Place: Lilla hörsalen KB3A9

UPSC Seminar Series

Speaker:
Wei Wang

Title:
Characterization of SUGAR RESPONSIVE (SRV) gene family in Arabidopsis and a serendipitous discovery of an embryo lethal mutant jotunn (jot)

Place: Lilla Hörsalen KB3A9

UPSC Seminar Series 2015/2016
Cutting Edge Seminar

Michael Lynch
Department of Biology
Indiana University

Title: “Mutation, Drift, and the Origins of Cellular Features”


Host: Rosario García Gil

Place: Lilla hörsalen, KB3A9


Michael Lynch's website:
http://www.bio.indiana.edu/faculty/directory/profile.php?person=milynch

Wednesday 27th January 14.00-15.00
UPSC Seminar

Speaker:
Jim Whelan, Professor
ARC Centre of Excellence in Plant Energy Biology
La Trobe Co-Director, Centre for AgriBioscience
RFA Director: Securing Food, Water and the Environment
Department of Animal, Plant and Soil Science, School of Life Science La Trobe University , Victoria, 3086 , Australia

Title: Mitochondrial Signalling


Room: KB4C10

Host: Olivier Keech

UPSC - Seminar Series
Half-Time seminar

Speaker:
Christoffer Johnsson

Title: Understanding secondary xylem formation and creating tools for modifying it


Place Lilla hörsalen KB3A9
Host: Urs Fischer

UPSC Seminar Series
Halftime Seminar

Speaker:
Daria Chrobok

Title: Dissecting the metabolic role of mitochondria during leaf senescence in Arabidopsis thaliana

Host: Olivier Keech

UPSC Seminar Series
Cutting Edge Seminar

Speaker 
Seth Davis
Chair of Plant Biology
Department of Biology, University of York
Heslington, York, UK

Title: Plant circadian clocks: mechanisms and purposes

Host: Maria Eriksson

Place: Lilla hörsalen, KB3A9, KBC

Abstract:

Plant circadian clocks: mechanisms and purposes
Plant growth and stress resistance are coordinated outputs that respond to predictable environmental variation that results from the earth's rotation. An interplay exists between exogenous environmental sensing and endogenous responses. Plants use a circadian clock to time such processes such that homeostasis is achieved. This creates fitness and maximizes growth. The circadian clock itself is a multiple transcriptional-translational feedback system that provides temporal information to coordinate stress resistance and metabolic responses. In this talk I will overview clock mechanism and then highlight our current efforts to examine the metabolic, stress response and circadian systems as integrated processes. Their combined effects on growth and development will be explored in a dicot and a monocot, both in the lab and in the field.

UPSC Seminar Series - Cutting Edge Seminar

Speaker
Dave C. Nelson
Department of Genetics, University of Georgia, Athens
USA

Title: Smoke and hormone mirrors: karrikins and strigolactones control plant growth through homologous signaling mechanisms

Host: Stephanie Robert & Olivier Keech

Recent key publications:

(Full list at https://goo.gl/6b2tkK)

Conn CE, Bythell-Douglas R, Neumann D, Yoshida S, Whittington B, Westwood JH, Shirasu K, Bond CS, Dyer KA, Nelson DC. (2015) “Convergent evolution of strigolactone perception enabled host detection in parasitic plants.” Science, 349:540-43.

Soundappan I, Bennett T, Morffy N, Yueyang L, Stanga JP, Abbas A, Leyser O, Nelson DC. (2015) “SMAX1-LIKE/D53 family members enable distinct MAX2-dependent responses to strigolactones and karrikins in Arabidopsis.” Plant Cell, 27:3143-59.  

Morffy N, Faure L, Nelson DC. (2016) “Smoke and hormone mirrors: action and evolution of karrikin and strigolactone signaling.” Trends in Genetics, doi:10.1016/j.tig.2016.01.002 (available online 2/2/16)

Conn CE, Nelson DC. (2016) “Evidence that KARRIKIN-INSENSITIVE2 (KAI2) receptors may perceive an unknown signal that is not karrikin or strigolactone.” Frontiers in Plant Science, 6:1219.

UPSC Seminar Series
Half-time Seminar

Speaker:
Bernard Wessels

Title: Ethylene signalling and wood development in Populus



Host: Hannele Tuominen

NEW! UPSC Seminar

Speaker:
Andrew Groover
Department of Plant Biology
College of Biological Sciences, University of California, Davis, USA

Titel:
Genomic-enabled insights into growth and wood formation of Populus.

Host: Hannele Tuominen

Place: KB3A9

More about Andrew Groover
 

Cutting Edge Seminar

Speaker:
Claus Schwechheimer
Technische Universität München TUM, School of Life Sciences
Weihenstephan/Munich, Germany

Title: PIN-ning down the function of D6PK protein kinases in auxin transport

Host: Markus Schmid
Place Lilla hörsalen, KB3A9


Abstract:
The biosynthesis and proper distribution of the plant hormone auxin within the plant influences almost every aspect of plant growth and development. To the largest extent, differences in the morphology between plants are the results of differential auxin distribution and auxin actions at the level of individual plants cells. Whereas auxin transport from cell to cell and within a plant had for a long time been inferred solely based on the polar distribution of PIN auxin exporters, we have recently shown that PINs require activation by protein kinases, such as the D6 PROTEIN KINASE, to become active auxin transporters. I will describe the biochemistry of D6PK and mechanisms that are required for targeting D6PK to the plasma membrane and the PINs. I will also present data that challenge the current view of how PIN polarity is controlled by phosphorylation. Finally, I will highlight some other regulatory functions of D6PK that are independent of PIN-dependent auxin transport control.

Relevant References:
Arabidopsis D6PK is a lipid domain-dependent mediator of root epidermal planar polarity. Stanislas T et al.; Nature Plants 1, 15162 (2015)
Dynamic control of auxin transport-dependent growth by AGCVIII protein kinases. Barbosa IC and Schwechheimer C.; Curr Opin Plant Biol (2014) 22:108-15.
Auxin efflux by PIN-FORMED proteins is activated by two different protein kinases, D6 PROTEIN KINASE and PINOID. Zourelidou M et al. Elife (2014) 19;3.
D6 PROTEIN KINASE activates auxin transport-dependent growth and PIN-FORMED phosphorylation at the plasma membrane. Barbosa IC, Zourelidou M, Willige BC, Weller B, Schwechheimer C. Dev Cell (2014) 29(6):674-85.
D6PK AGCVIII kinases are required for auxin transport and phototropic hypocotyl bending in Arabidopsis. Willige BC et al. Plant Cell (2013) 25(5):1674-88
The polarly localized D6 PROTEIN KINASE is required for efficient auxin transport in Arabidopsis thaliana. Zourelidou M, Müller I, Willige BC, Nill C, Jikumaru Y, Li H, Schwechheimer C. Development. 2009 Feb;136(4):627-36.

In addition to the work on auxin transport that Claus will discuss about in his presentation, his lab has a long-staninding interest in the function of the COP9 signalosome and gibberellic acid (GA) signaling. More information can be found here: http://sysbiol.wzw.tum.de/index.php?id=2&L=1

UPSC Seminar Series
Postdoc seminar


Speaker
Raphael Decou
postdoc


Title:
Features and analysis of lignin accumulation, composition, distribution and regulation in A. thaliana




Place Lilla hörsalen, KB3A9
Host: Edouard Pesquet

UPSC Seminar
Postdoc Seminar

Speaker:
Thomas Dobrenel

Title: Deciphering the role of the TOR-SnRK1 axis on metabolism reprogramming in Arabidopsis



Host: Johannes Hansen

Place: Lilla Hörsalen, KB3A9

NOTE CHANGED DATE and TIME!

UPSC Cutting Edge Seminar

Speakers:
Maria Albani and Wim Soppe
Max Planck Institute for Plant Breeding Research
Cologne, Germany

Titles:
Maria Albani: Arabis alpina as a model system to study flowering and perennial traits

Wim Soppe: How do seeds wake up in time?

Host: Rishikesh Bhalerao

Place: KBC- Building KB3B1, Stora hörsalen

UPSC Seminar Series
Halftime-Seminar


Speaker:
Abdellah Lakehal

Title: Unraveling the molecular mechanism controlling adventitious root initiation and cell reprogramming in Arabidopsis hypocotyl


Place: Lilla hörsalen
Host: Catherine Belini

Speaker: Stefania Giacomello, SciLife Lab
Title: Spatially resolved global transcriptomics in plants
Time & Place:  Moday 18/4 2016, 15.15, KBF30, UPSC

UPSC Seminar Series
Postdoc Seminar


Speaker:
Pal Miskolczi

Title: Photoperiodic control of growth cessation and dormancy in hybrid aspen



Place: Lilla hörsalen, KB3A9

Host: Rishikesh Bhalerao

8.30	Arne Pommerening, professor i skoglig matematisk statistik
	Title: Can't see the wood for the trees? - The journey of mathematical forestry
9.00	Vaughan Hurry, professor i skogsträdens fysiologi
	Title: Life in a hothouse world
10.00	Karin Ljung, professor in plant physiology
	Title: Forskningen går under jorden – Vad kan ett ogräs lära oss om växters och träds rotutveckling?
10.30	David Parsons, professor i växtodlingslära
	Title: Agricultural Systems – Finding clarity in the complexity

 
For more information look here: Nya professor at SLU Umeå

Cutting edge seminar

Speaker:
Rainer Hedrich

Title: 
Carnivory - how to turn the sword around

Host: Catherine Bellini

Room: KB3A9 Lilla hörsalen

UPSC Extra Seminar

Speaker
Wolfgang Dröge-Laser
Department of Pharmaceutical Biology
Biozentrum Universität Würzburg

Title:
Low energy signalling in plants: the SnRK1- bZIP connection

Host: Johannes Hanson

UPSC Seminar

Speaker:
Fikret Isik
North Carolina State University, USA

Title:
Genomic selection in trees


Host: Harry X.Wu

Room: Stora hörsalen KB3B1, KBC

Speaker:
Paul C. Rogers

Director, Western Aspen Alliance
Department of Wildland Resources
Utah State University

http://www.western-aspen-alliance.org/

Title: North American Quaking Aspen: functional effects of elk, fire, and climate on long-term resilience

Host: Lars Edenius (VFM, SLU)
Contact: This email address is being protected from spambots. You need JavaScript enabled to view it.

Place: Skogis

NOTE CHANGED DAY: WEDNESDAY

UPSC Cutting Edge Seminar

Speaker:
Daniel Cosgrove
Department of Biology

The Pennsylvania State University, University Park, PA, USA

Title: Rethinking the architecture and mechanics of growing plant cell walls and mechanisms of cell wall loosening. Insights from biomechanics, atomic force microscopy and the actions of wall-loosening enzymes.



Host: Stephanie Robert

Place: Lilla Hörsalen, KB3A9

UPSC Seminar

Speaker:
Mikko Sillanpää
Helsinki University, Finland

Title:
An efficient genome-wide multilocus epistasis search

Room: Lilla hörsalen, KB3A9

Host: Rosario Garcia Gil


Abstract

High-throughput laboratory techniques are producing vast amount of genomic marker data – discrete predictors to association studies. Linear regression model is often considered to link study phenotypes and these marker measurements to each other. Number of predictors in multi-marker regression models can easily be much larger than number of observations. Therefore, one needs application of variable selection to find small subset of important predictors out of large number of candidates. Such models can occasionally include also all pairwise locus-by-locus (epistasis) interactions which increases dimensionality of the model very rapidly.

We consider variable selection problem of linear model containing large amount of predictors and all of their pairwise interactions in the model jointly. Our suggested approach (Kärkkäinen et al. 2015) use sure-independence-screening to first drop dimension of the problem by considering marginal importance of each interaction term within the huge loop. Subsequent estimation step then consider Bayesian variable selection approach (Extended Bayesian LASSO – Mutshinda and Sillanpää 2010). We also show that it is important to separate search of main and interaction effects in the algorithm to control number of false positives. Examples illustrates superior performance of our method over PLINK in terms of computation time and empirical power. Our successful examples consider even problem of originally of order of 280,000,000 interactions within a reasonable time frame.

REFERENCES

Mutshinda CM, Sillanpää MJ (2010) Extended Bayesian LASSO for multiple quantitative trait loci mapping and unobserved phenotype prediction. Genetics 186: 1067-1075.

Kärkkäinen HP, Li Z, Sillanpää MJ (2015) An efficient genome-wide multilocus epistasis search. Genetics 201: 865-870.

UPSC Seminar

Speaker:
Zander Myburg

Department of Genetics
Forestry and Agricultural Biotechnology Institute (FABI)
Genomics Research Institute
University of Pretoria
South-Africa

Title:
Systems genetics of cell wall biology in Eucalyptus: Fine-scale dissection of gene regulation during xylogenesis

Room: Lilla hörsalen, KB3A9

Host: Hannele Tuominen

UPSC Monday Seminar 2016

Speakers:

David Sundell (PhD student)
Supervisor: Nathaniel Street, Torgeir R Hvidsten

Federica Brunoni (Postdoc)
Supervisor: Karin Ljung, Catherine Bellini

Cutting Edge Seminar

Speaker: Jean-Pierre Jacquot

University of Lorraine, Nancy, France

Title: Redox regulation of chloroplast enzymes: molecular and evolutionary aspects

Host: Gunnar Wingsle and Göran Samuelsson

Room: KB3A9 Lilla hörsalen

UPSC Monday Seminar 2016

Speakers:

Bastian Schiffthaler (PhD student)
Supervisor: Nathaniel Street

John Baison (Postdoc)
Supervisor: Totte Niittylä

UPSC Monday Seminar 2016

Speakers:

Noemi Skorzinski  (PhD student)
Supervisor: Markus Schmid

Jihua Ding (Postdoc)
Supervisor: Ove Nilsson, Markus Grebe

Speaker: Peter Marhavy

Department of Plant Molecular Biology (DBMV)
University of Lausanne
Switzerland

Title:
Call for help - or - Short distance cell-to-cell communication in response to wound stress in Arabidopsis root.

Host: Karin Ljung
Place: KB3A9 Lilla hörsalen
Time: 22 september kl 10-11

UPSC Monday Seminar 2016

Speakers:

Haleh Hayatgheibi (PhD student)
Supervisor: Harry Wu

Hardy Hall (Postdoc)
Supervisor: Hannele Tuominen

Speaker: Daniel Kierzkowski

Max Planck Institute for Plant Breeding Research,
Department of Comparative Development and Genetics,
Cologne, Germany

Title: Understanding morphogenesis: control of organ growth at cellular level

Host: Karin Ljung
Place: KB3B1 Stora hörsalen
Time: 28 september kl 10.30-11.30

Speaker: Anne-Lise Routier-Kierzkowska

Max Planck Institute for Plant Breeding Research,
Department of Comparative Development and Genetics,
Cologne, Germany

Title: A new insight into plant mechanics from computational modelling and force measurements.

Host: Karin Ljung
Place: KB3B1 Stora hörsalen
Time: 28 september kl 14-15

UPSC Monday Seminar 2016

Speakers:

Umut Rende (PhD student)
Supervisor: Totte Niittylä

Suman Paul (Postdoc)
Supervisor: Göran Samuelsson

Cutting Edge Seminar

Speaker: Andrew Millar

Centre for Synthetic and Systems Biolgy, University of Edinburgh, Scotland, UK

Title: Biological timing, from rhythmic phosphoproteomics to predicting carbon biomass.

Host: Maria Eriksson and Johannes Hanson

Room: KB3A9 Lilla hörsalen

Speaker: Dominique Loqué

Director of Cell Wall Engineering at the Joint BioEnergy Institute, UC Berkeley, CA, USA

Title: Synthetic Biology and Bioengineering to Optimize Energy Crops

Host: Totte Niittylä

Room: KB3B1 Stora hörsalen

UPSC Monday Seminar 2016

Speakers:

Johanna Carlsson (PhD student)
Supervisor: Ulrika Egertsdotter

Hailiang Mao (Postdoc)
Supervisor: Markus Grebe, Ove Nilsson

UPSC Seminar

Speaker: Marek Mutwil

Max-Planck-Institut für Molekulare Pflanzenphysiologie Golm, Potsdam, Germany 

Title: Beyond genomics: studying evolution with gene networks.

Host: Totte Niittylä

Room: KB3A9 Lilla hörsalen

UPSC Monday Seminar 2016

Speakers:

Chanaka Mannapperuma (PhD student)
Supervisor: Nathaniel Street

Bo Zhang (Postdoc)
Supervisor: Ove Nilsson

UPSC Seminar

Honory doctor lecture by Norman Hüner
Department of Biology, Western University, Ontario, Canada

Honorary doctor at Umeå University

Title: Photosynthesis, cold acclimation and crop productivity

Host: Gunnar Öquist

Room: KB.E3.01 Lilla hörsalen (formerly KB3A9)

More information about Norman Hüner