katrien m. devos dept . of crop and soil sciences

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Katrien M. Devos Dept . of Crop and Soil Sciences Institute of Plant Breeding, Genetics and Genomics Dept . of Plant Biology 0.5 EFT Research 0.25 EFT Teaching Adjunct status Dept. of Genetics Institute of Bioinformatics. The Devos lab: 2009 - 2014. Post-docs: - PowerPoint PPT Presentation

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Katrien M. Devos

Dept. of Crop and Soil SciencesInstitute of Plant Breeding, Genetics and Genomics

Dept. of Plant Biology

0.5 EFT Research0.25 EFT Teaching

Adjunct statusDept. of GeneticsInstitute of Bioinformatics

The Devos lab: 2009 - 2014Post-docs:Xiangyang Xu (2006-2010)Xuewen Wang (2008 2012)Xiaomei Wu (2009 2011)Bochra Bahri (2009 2010)Stephan Schrder (2011 2013)Guillaume Daverdin (2011 2014)Currently 3 post-doc positions open

Visiting Scientists:Bochra Bahri (2010 current: several months each year) - TunisiaIgnatius Angarawai (2010: 3 months) NigeriaDipnarayan Saha (2013 2014: 8 months) India

Visiting Graduate Students:Anabelle Grimm (2012: 6 months) - GermanyDagnachew Lule (2013: 8 months) EthiopiaDavis Gimode (2014: 2.5 months) - Kenya

Graduate Students:MScSandra Odonkor (MSc: 2012 current) - IPBGG

PhDRajiv Parvathaneni (PhD: 2009- current) - IPBGGDoug Eudy (PhD: 2009 current) IPBGGAlex Johnson (PhD: 2013 current) Plant biologyChristian Schwoyer (PhD: 2013 current) GeneticsDebkanta Chakraborty (PhD: 2013 current) IOB

Technicians:Trudi ThomasThe Devos lab: 2009 - 2014Funding:Total funding to KMD Lab: 2.5 MFunding sources: NSF, USDA, DOE, BESC BioInnovate, ICRISAT

Pearl millet

SwitchgrassWheat

Foxtail millet

Seashore Paspalum

finger milletResearch Overview: 2009 - 2014Switchgrass for Bioenergy

LowlandUplandObjectives:Resource developmentTrait mappingBiomass yieldBiomass qualityCold toleranceColonization by AMF- Identification of the A and B genomes

Funding:USDA (2007 2011)BESC/DOE (2007 2017)DOE (2014 2017)Publications:Linkage Maps of Lowland and Upland Tetraploid Switchgrass Ecotypes (BioEnergy Research 2013)*Comparative relationships and chromosome evolution in switchgrass (Panicum virgatum) and its genomic model, foxtail millet (Setaria italica) (BioEnergy Research 2014)*Quantitative trait loci (QTL) underlying biomass yield and plant height in switchgrass (BioEnergy Research Under revision)Setaria: A Model for SwitchgrassObjectives:Sequencing of the Setaria genomeComparative analysis with switchgrassTrait mappingBiomass yieldBiomass qualityDomestication traitsFunding:USDA (2008 2013)JGI Community Sequencing ProgramPublications:Foxtail millet (Setaria italica): a sequence-driven grass model system (Plant Physiology 2009)Sequencing and analysis of a reference genome for the model plant Setaria (Nature Biotechnology 2012)*Genetic control and comparative genomic analysis of flowering time in Setaria (Poaceae) (G3 2013)

Setaria viridis: A Ubiquitous WeedObjectives:Population structure analysis of US and global S. viridis collectionEffects of herbicide resistance on linkage disequilibriumFunding:NSF (2010 2015)Publications:Population genetics of Setaria viridis, a new model system (Molecular Ecology Submitted)*

Aegilops tauschii A Model for WheatObjectives:Sequencing of the Ae. tauschii genomeUnderstanding the structure and evolution of large genomesGenome size is correlated with gene space Implications?What drives the formation of gene islands?Funding:NSF (2007 2010; 2013 - 2017)Publications:Gene space dynamics during the evolution of Aegilops tauschii, Brachypodium distachyon, Oryza sativa, and Sorghum bicolor genomes (Molecular Biology and Evolution 2011)*The insular organization of gene space in grass genomes and its evolution (PLoS One 2013)*

Ae. tauschii(DD)Wheat (AABBDD)Pearl millet Characterization of d2Objectives:Isolation of the d2 dwarfing geneCharacterization of ABCB1

Studying prevalence and mechanisms behind recurrent intron lossFunding:USDA (2008 2012)NSF-DDIG (2013 2014)Publications:Fine-mapping and identification of a candidate gene underlying the d2 dwarfing phenotype in pearl millet, Cenchrus americanus (L.) Morrone (G3 2013)*Recurrent loss of specific introns during angiosperm evolution (2014) PLoS Genetics (under revision)

Seashore paspalum Mapping salt toleranceObjectives:Germplasm characterizationMapping of salt toleranceEffects of salt on gene expression

Funding:NSF-GRFP to Doug Eudy (2010 - 2014)

Finger Millet Germplasm characterizationObjectives:Assist finger millet breeders/scientists in East Africa with research and trainingGenotype mainly East African finger millet collectionSequencing of the finger millet genome

Funding:BioInnovate (2013 - 2014)

Program Impact (2009 2014)Publications: 14Number of citations: 167Overall H-index: 39

Provided genetic and genomic tools for breeders and the scientific community (e.g. markers, genetic maps, genome sequences)

Contributed to the overall knowledge on the structure, function and evolution of genes and genomes

Trained graduate students and international scientist

Future GoalsMove from trait loci to genes underlying those traits and their functional characterizationExploit sequence/resequencing data to study natural variation and their phenotypic effectsMove beyond the genome to the mRNA and small RNA transcriptomes and their effect on phenotypesContinue to enhance our understanding on genome structure, function and evolution

Teaching2 credit hours per semesterEssential skills for graduate students (PBIO 8020) - FallGrant writing (PBIO 8840) Spring/uneven yearsGenetic mapping (PBGG 8871) Spring/even yearsGraduate seminar (PBIO 8820) Spring/even yearsTraining of graduate students

ServiceEditorial Board of 3 journalsChair-elect, Chair, Past-chair of C-7 division of CSSA (2009-2011)Program reviews (2)

DougGuillaumeDagneBochraTrudiSandraRajivStephanVictoria