Events under 'Seminar'

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