katrien m. devos dept. of crop and soil sciences institute of plant breeding, genetics and genomics...
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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 Genetics
Institute 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 Schröder (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 Thomas
The Devos lab: 2009 - 2014
Funding:
Total funding to KMD Lab: 2.5 M
Funding sources: NSF, USDA, DOE, BESC
BioInnovate, ICRISAT
Pearl millet
Switchgrass
WheatFoxtail millet
Seashore Paspalum
finger millet
Research Overview: 2009 - 2014
Switchgrass for Bioenergy
Lowland
Upland
Objectives:- Resource development- Trait mapping
- Biomass yield- Biomass quality- Cold tolerance- Colonization 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 genome- Comparative analysis with
switchgrass- Trait mapping
- Biomass yield- Biomass quality- Domestication traits
Funding:- USDA (2008 – 2013)- JGI Community Sequencing Program
Publications:- 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 collection- Effects of herbicide resistance on
linkage disequilibrium
Funding:- NSF (2010 – 2015)
Publications:- Population genetics of Setaria viridis, a new model system
(Molecular Ecology – Submitted)*
Aegilops tauschii – A Model for Wheat
Objectives:- Sequencing of the Ae. tauschii
genome- Understanding the structure and
evolution of large genomes- Genome 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 d2
Objectives:- Isolation of the d2 dwarfing gene- Characterization of ABCB1
- Studying prevalence and mechanisms behind recurrent intron loss
Funding:- 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 tolerance
Objectives:- Germplasm characterization- Mapping of salt tolerance- Effects of salt on gene expression
Funding:- NSF-GRFP to Doug Eudy (2010 -
2014)
Finger Millet – Germplasm characterization
Objectives:- Assist finger millet
breeders/scientists in East Africa with research and training
- Genotype mainly East African finger millet collection
- Sequencing of the finger millet genome
Funding:- BioInnovate (2013 - 2014)
Program Impact (2009 – 2014)
- Publications: 14- Number of citations: 167- Overall 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 Goals
- Move from trait loci to genes underlying those traits and their functional characterization
- Exploit sequence/resequencing data to study natural variation and their phenotypic effects
- Move beyond the genome to the mRNA and small RNA transcriptomes and their effect on phenotypes
- Continue to enhance our understanding on genome structure, function and evolution
Teaching
- 2 credit hours per semester- Essential skills for graduate students (PBIO
8020) - Fall- Grant writing (PBIO 8840) – Spring/uneven years- Genetic mapping (PBGG 8871) – Spring/even
years- Graduate seminar (PBIO 8820) – Spring/even
years- Training of graduate students
Service- Editorial Board of 3 journals- Chair-elect, Chair, Past-chair of C-7 division of CSSA
(2009-2011)- Program reviews (2)
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