Education and Experience


J.D. Candidate, Syracuse University College of Law. August 2016 - present.

Patent Technical Specialist, LeClairRyan. September 2015 - present.
       Registered Patent Agent.

Informatics Leader, Genomic Diversity Facility (formerly Institute for Genomic Diversity), Cornell University. July 2014 - September 2015.

Research Associate, Bioinformatics Facility (formerly Computational Biology Service Unit), Cornell University. August 2012 - July 2014.

Postdoctoral Researcher. Computational Biology Service Unit, Cornell University. March 2012 - August 2012.
       VitisGen: Accelerating Grape cultivar improvement via phenotyping centers and next generation markers. www.vitisgen.org
       Advisor: Qi Sun
Postdoctoral Researcher. University of Massachusetts, Amherst. 2011-2012.
       Genomic Structure of Weedy Rice
       Advisor: Ana L. Caicedo
PhD. Ecology, Evolution and Population Biology, Washington University in St. Louis. 2010.
       Genetic and Phenotypic Differentiation Between Winemaking and Wild Strains of Saccharomyces cerevisiae.
       Advisor: Justin Fay
M.S. Microbiology and Molecular Genetics, Michigan State University. 2004
       Evolutionary Genetics of pathogenic Escherichia species.
       Advisor: Thomas S. Whittam
B.S. Microbiology and Molecular Genetics, Michigan State University. 2004

Publications


All Roads Lead to Weediness: Patterns of Genomic Divergence Reveal Extensive Recurrent Weedy Rice Origins from South Asian Oryza Huang Z, Young ND, Reagon M, Hyma KE, Olsen KM, Jia Y, and Caicedo AL. (2017). Molecular Ecology 26(12):3151:3167.

Hybridization and adaptive evolution of diverse Saccharomyces species for cellulosic biofuel production. Paris D, Moriarty RV, Alexander WG, Baker E, Sylvester K, Sardi M, Langdon QK, Libkind D, Wang Q, Bai F, Leducq J, Charron G, Landry CR, Sampaiao JP, Goncalves P, Hyma KE, Fay JC, Sato TK, and Hittinger CT. (2017). Biotechnology for Biofuels 10(78):10.1186/s13069-017-0763-7.

Heterozygous Mapping Strategy (HetMappS) for High Resolution Genotyping-By-Sequencing Markers: A Case Study in Grapevine. Hyma KE*, Barba P*, Wang M, Londo JP, Acharya CB, Mitchell SE, Sun Q, Reisch B, Cadle-Davidson L. PLoS ONE 10(8): e0134880. doi:10.1371/journal.pone.0134880

Genome-environment associations in sorghum landraces predict adaptive traits. Lasky JR, Upadhyaya HD, Ramu P, Deshpande S, Hash CT. Bonnette J, Juenger TE, Hyma K, Acharya C, Mitchell SE, Buckler ES, Brenton Z, Kresovich S, Morris GP. (2015). Science Advances 1(6), e1400218. doi: 10.1126/sciadv.1400218.

Genotyping-by-sequencing (GBS) detects genetic structure and confirms behavioral QTL in tame and aggressive foxes (Vulpes vulpes). Johnson J, Wittgenstein H, Mitchell SE, Hyma KE, Temnykh SV, Kharlamova AV, Gulevich RG, Vladimorova AV, Fong HWF, Acland GM, Trut LN, Kukekova AV (2015). PLoS ONE 10(6): e0127013. doi: 10.1371/journal.pone.0127013.

Genotyping by sequencing for genomic prediction in a soybean breeding population. Jarquin D, Kocak K, Posada L, Hyma K, Jedlicka J, Graef G, Lorenz A. (2014). BMC Genomics. 15:740. doi: 10.0086/1471-2164-15-740.

The Impact of Herbicide-Resistant Rice (Oryza sativa L.) Technology on Phenotypic Diversity and Population Structure of US Weedy Rice. Burgos NR, Singh V, Tseng TM, Black H, Young ND, Huang Z, Hyma KE, Gealy DR, Caicedo AL. Plant Physiology (2014). doi: http://dx.doi.org/10.1104/pp.114.242719.

Girma G, Hyma K, Asiedu R, Mitchell S, Gedil M, Spillane C. (2014). Next-generation sequencing based genotyping, cytometry and phenotyping for understanding diversity and evolution of guinea yams. Theoretical and Applied Genetics (online early).

Ferreira Z, Hurle B, Andres A, Kretzchmar W, Mullikin J, Cherukuri P, Cruz P, Hyma K, Gondor M, Stone A, Tishkoff S, Swanson W, NISC Comparative Sequencing Program, Green E, Clark A, Seixas S. (2013). Sequence Diversity of Pan troglodytes Subspecies and the Impact of WFDC6 Selective Constraints in Reproductive Immunity. Genome Biology and Evolution. doi: 10.1093/gbe/evt198

Cromie GE*, Hyma KE*, Ludlow CL, Garmendia-Torres C, Gilbert T, May P, Huang AA, Dudley AM, Fay JC (2013). Genomic Sequence Diversity and Population Structure of Saccharomyces cerevisiae assessed by RAD-seq. G3. doi: 10.1534/g3.113.007492. *Equal authorship contribution.

Barba P, Cadle-Davidson L, Harriman J, Glaubitz J, Brooks S, Hyma KE, Reisch B. Grapevine powdery mildew resistance and susceptibility loci identified on a high-resolution SNP map. Theoretical and Applied Genetics. doi: 10.1007/s00122-013-2202-x.

Hyma KE, Fay JC (2013). Mixing of vineyard and oak-tree ecotypes of Saccharomyces cerevisiae in North American vineyards. Molecular Ecology. DOI:10.000/mec.12155

Hyma KE, Saerens SM, Verstrepen KJ, and Fay JC (2011). Divergence in wine characteristics produced by wild and domesticated strains of Saccharomyces cerevisiae. FEMS Yeast Research. DOI:10.111/j.1567-1364.2011.00746.x

Hyma KE, Caicedo AL. (2011) Shedding light on the evolution of plasticity in natural populations. Molecular Ecology. Vol 20(17) pp 3491-3493.

Hyma KE, Lacher DW, Nelson AM, Bumbaugh AC, Janda JM, Strockbine NA, Young VB, Whittam TS. (2005) Evolutionary genetics of a new pathogenic Escherichia species: Escherichia albertii and related Shigella boydii strains. Journal of Bacteriology. Vol 187(2) pp 619-28.

Qi, W., D. W. Lacher, A. C. Bumbaugh, K. E. Hyma, L. M. Ouellette, T. M. Large, C. L. Tarr, and T. S. Whittam. (2004) EcMLST: an online database for multilocus sequence typing of pathogenic Escherichia coli. pp. 520-521. In: Proceedings of the 2004 IEEE Computational Systems Bioinformatics Conference CSB2004. IEEE Computer Society Press. Los Alamitos, CA.

Presentations and Published Abstracts


HetMappS: Heterozygous Mapping Strategy for High Resolution Genotyping-by-Sequencing Markers. Hyma K, Barba P, Wang M, Londo J, Hare M, Acharya C, Mitchell S, Sun Q, Reisch B, Cadle-Davidson L. Allele Mining Workshop, PAG XXIII. San Diego, CA. 2015.

Fast and Robust Generation of High-Resolution Genetic Maps in Grapevine Interspecific Hybrid Half-Sib Families Using the HetMappS Pipeline and R/QTL. Barba P, Hyma K, Wang M, Londo J, Acharya C, Mitchell S, Sun Q, Reisch B, Cadle-Davidson L. Poster, PAG XXIII. San Diego, CA. 2015.

An Update on VitisGen: Recent Advances in Using DNA Marker Technologies in U.S. Grape Breeding Programs. Cadle-Davidson L, Reisch B, Sun Q, Schweitzer P, Sacks G, Londo J, Ledbetter C, Luby J, Hemstad P, Hegeman A, Teh S, Manns D, Barba P, Hyma K, Lillis J, Fresnedo J, Yang S, Takacs E. Grape Genome Initiative Workshop, PAG XXIII. San Diego, CA. 2015.

VitisGen on the Road: Mapping the Way to the Next Generation of Grapes. Yang S, Fresnedo J, Takacs E, Barba P, Hyma K, Lillis J, Acharya C, Fisher A, Cote L, Manns D, Ryona I, Gadoury D, Seem B, Sacks G, Mansfield AK, Ledbetter C, Luby J, Hemstad P, Fennel A, Hwang C, Walker A, Riaz S, Cousins P, Londo J, Buckler E, Mitchell S, Schweitzer P, Sun Q, Cadle-Davidson L, Reisch B. Poster, PAG XXIII. San Diego, CA. 2015.

Using next-generation sequencing for the genetic dissection of resistance to Phomopsis viticola in North American Vitis. Barba P, Hyma K, Luce S, Wilcox W, Cadle-Davidson L, Reisch BI. XI international conference on grapevine breeding and genetics. Beijing, China. 2014.

Application of Genotyping-by-Sequencing for mapping disease resistance in grapevine breeding families. L. Cadle-Davidson, P.Barba, Q. Sun, K. Hyma, E. Takacs, J. Lilils, C. Ledbetter, D. Ramming and B.I. Reisch. APS Meeting. Minneapolis, MN, USA. August 2014.

Evaluating wild Grapevine Germplasm with Genotyping-By-Sequencing Methods for Conservation, Preservation, Genetics and Breeding. Londo J, Hyma K. Allele Mining Workshop, PAG XXII. San Diego, CA. 2014.

Genomic Signatures of Climate and Soil Adaptation in a Widely-diffused Crop. Morris G, Lasky J, Ramu P, Hyma K. Oral Presentation. Population & Conservation Genomics Workshop, PAG XXII. San Diego, CA. 2014.

Genotyping By Sequencing (GBS) in Numerous Species: Lessons from the Bench. Acharya C, Mitchell S, Hyma K. Poster. PAG XXII. San Diego, CA. 2014.

Application of Genotyping-By-Sequencing in Crosses of Heterozygous Grapevines: Tools for Map Construction and Marker-Trait Association Testing. Barba P, Takacs E, Hyma K, Sun Q, Cadle-Davidson L. Poster. PAG XXII. San Diego, CA. 2014.

Development of High Density SNP-Based Linkage Map in Pearl Millet. Punnuri S, Wallace J, Liu L, Chee P, Hyma K, Mitchell S, Acharya C, Knoll J, Obeng E, Singh BP. American Society of Agronomy Annual Meeting. Tampa, Florida. November 2013.

GBS Usage Cases: Polyploidy and Asexuality. Katie Hyma. Musa breeding workshop. Invited presentation. Douala, Cameroon. October 2013.

Population genetics of native Vitis riparia and V. rupestris in sympatry and allopatry. Klein, Laura, Daniel pap, Laszlo Kovacs, Katie Hyma, Jason Londo and Allison Miller. Fifth conference of the Grape Research Coordination Network (GRCN), Davis, CA, July 11 2013; Third Annual Saint Louis Ecology, Evolution, and Conservation retreat, St. Louis, MO. September 28 2013; 60th Annual Systematics Symposium of the Missouri Botanical Garden, St. Louis, MO. October 12 2013.

Agricultural Biodiversity in the Post-Genomics Era. Hyma KE, Londo JP, Barba P, Reisch B, Cadle-Davison L, Sun Q, Acharya C, Mitchell S. BIT's 2nd Annual World Congress of Biodiversity, Ecology and Environment. Invited seminar. Nanjing, China, April 2013.

VitisGen: A Coordinated Effort in Grapevine and Genotyping, Phenotyping and Marker Assisted Breeding. Reisch B, Cadle-Davidson L, Takacs E, Hyma K, Sun Q, Barba P, Fennell A. Poster. 9th International Symposium on Grapevine Physiology and Biotechnology. Santiago, Chile. April 2013.

Resistance and susceptibility to powdery mildew: QTL discovery through next generation sequencing an interspecific cross of grapevine. Barba P, Cadle-Davidson L, Hyma K, Reisch B. Oral Presentation. 9th International Symposium on Grapevine Physiology and Biotechnology. Santiago, Chile. April 2013.

VitisGen: Accelerating Grape Cultivar Improvement. Hyma KE, Sun Q, Mitchell SE, Acharya C, Londo J, Cousins P, Fennell A, Hwang C, Lu J, Luby J, Ramming DW, Reisch B, Cadle-Davidson LE. Grape Genome Initiative Workshop, PAG XXI. San Diego, CA. 2013.

Genotyping by Sequencing Applications: Outcrossing Species and Diversity Studies. Hyma KE, Acharya C, Sun Q, Mitchell SE. Allele Mining Workshop, PAG XXI. San Diego, CA. 2013.

Sequencing and Assembly of the Salix purpurea L. Genome and Transcriptome to Improve Shrub Willow for Biomass Production. Gouker FE, Serepiglia MJ, Tang H, Town CD, Tuskan GA, Barry KW, Lindquist EA, Schmutz J, Rodgers-Melnick E, DiFazio S, Hyma KE, Elshire RJ, Mitchell SE, Buckler ES, Smart LB. Forest Tree Workshop, PAG XXI. San Diego, CA. 2013.

Vineyard genetics: from yeast to grapes. Hyma, KE. Invited seminar, Cornell University Plant Pathology and Plant Microbe Biology Seminar. Geneva, NY. 2012.

The impact of indigenous populations of Saccharomyces cerevisiae in U.S. wine production. Hyma, KE. Invited seminar, New York Wine Industry Workshop. Waterloo, NY. 2012.

Genomic Structure of Weedy Rice. Hyma, KE, Olsen K, Jia Y, and Caicedo AL. Plant and Animal Genome XX. San Diego, CA. 2012.

Population Genetic Differentiation between Wild and Domesticated Saccharomyces species. Hyma, KE and Fay, JC. Ecological Genomics Symposium. Kansas City, MO. 2010.

Population Genetics of Vineyard Associated Saccharomyces species. Hyma, KE. Washington University Genetics seminar. 2010.

Divergence in wine characteristics produced by 'wild' and 'domesticated' strains of S. cerevisiae. Hyma, KE. EMBO Conference Series on Experimental Approaches to Evolution and Ecology using yeast. Heidelberg, Germany. 2010.

Domesticated wine? Sensory differentiation of wines form 'wild' and 'domesticated' populations of S. cerevisiae, and the population genetics of vineyard yeasts. Hyma, KE. Invited seminar, Harvard University, 2010.

Flavor and aroma differences between wines fermented with "wild" and "domesticated" strains of Saccharomyces cerevisiae. Hyma, KE. Washington University Ecology, Evolution and Population Biology seminar. 2009.

Flavor and aroma differences between wines fermented with "wild" and "domesticated" strains of Saccharomyces cerevisiae. Washington University Genetics seminar. Hyma, KE. 2009.

Domestication of the budding yeast Saccharomyces cerevisiae for wine fermentation. Poster Presentation. Hyma KE, Huh J, and Fay, JC. Society for Molecular Biology and Evolution meeting. Iowa City, IA. 2009.

Variation in natural populations of Saccharomyes cerevisiae wine yeast. Hyma KE. Washington University Ecology, Evolution and Population Biology seminar. 2008.

Domestication of Saccharomyces cerevisiae? Hyma KE. Washington University Genetics seminar. 2008.

Domestication of Saccharomyces cerevisiae wine yeast? Hyma KE. Invited seminar. University of Arkansas, 2007.

Mutagenic motifs, recurrent mutation, and how they affect association studies. Maxwell, T.J., K.E. Hyma, A.R. Templeton. CREATE Pharmacogenetics Research Network Meeting, Washington University, St. Louis, MO. 2006.

Mutagenic motifs, recurrent mutation, infinite sites, and the sampling of SNPs in human association studies. Maxwell, T.J., K.E. Hyma, L.C. Shimmin, E. Boerwinkle, J.E. Hixson, A.R. Templeton. NIGMS Pharmacogenetics Research Network (PGRN) II steering committee meeting. St. Louis, MO. 2005.

Mutagenic motifs, recurrent mutation, infinite sites, and the sampling of SNPs in human association studies. Maxwell, T.J., K.E. Hyma, L.C. Shimmin, E. Boerwinkle, J.E. Hixson, A.R. Templeton. Poster. American Society of Human Genetics meeting. Salt Lake City, Utah. 2005.

Variation in the cytolethal distending toxin gene of Escherichia albertii and related Shigella boydii strains. Katie E. Hyma, David W. Lacher, Nancy Strockbine, Vincent B. Young, and Thomas S. Whittam. Poster Presentation. American Society for Microbiology 103rd General Meeting, Washington DC. 2004.

Multilocus Sequence Analysis Supports a New Pathogenic Lineage of Escherichia. Hyma KE, AC Bumbaugh, N Strockbine, JM Janda, and TS Whittam. Poster Presentation. American Society for Microbiology 103rd General Meeting, Washington DC. 2003.

Multilocus Sequence Analysis Supports a New Pathogenic Lineage of Escherichia. Hyma KE, AC Bumbaugh, N Strockbine, JM Janda, and TS Whittam. Poster Presentation. Michigan State University Undergraduate Research and Arts Forum. 2003.

Scholarships, Fellowships and Awards


National Science Foundation Rice: Research to Production short course at the International Rice Research Institute, Philippines. 3 weeks full funding. May 2011.

First place award, EMBO Conference Series on Experimental Approaches to Evolution and Ecology using Yeast. Heidelberg, Germany. 2010.

EMBL Advanced Training Centre Corporate Partnership Program Fellowship. 2010.

NIH Genome Analysis Training Fellowship, Washington University. 2005-2007

Microbial Research Unit Research Fellowship, Michigan State University. 2003 - 2004

American Society for Microbiology Undergraduate Research and Travel Fellowship. 2003 - 2004

Spartan Scholarship, Michigan State University. 2000 - 2004

First place award, University Undergraduate Research and Arts Forum, Michigan State University, April 2003

Gerhardt Scholarship for Travel to the American Society for Microbiology 103rd General Meeting, Michigan State University. May 2003

Teaching Experience


Genotyping by Sequencing Workshop Instruction:
      Cornell University, Ithaca, NY, Feb 2013- Sept 2015.
      North Carolina State University, March 2014.
      AgResearch, Palmerston North, New Zealand, February 2014.
      Deakin University, Geelong, Australia, February 2014.
      International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Nairobi, Kenya, August 2013.
      South China Sea Fisheries Research Institute (CAFS), Guangzhou, China, April 2013.
      VitisGen Annual Meeting. USDA-ARS, Geneva NY. 2012.

Linux for Biologists Workshop Assistance, Computational Biology Service Unit, Cornell University, Ithaca, NY. 2012 - present.

Project Design and Data Analysis Consulting. Computational Biology Service Unit, Cornell University, Ithaca, NY. 2012 - present.

Teaching Assistant, Washington University - Biological Conservation, Stan Braude

Teaching Assistant, Washington University- Evolution, Barbara Schaal

Teaching Assistant, Michigan State University - Introductory Microbiology Laboratory

Tutor, Michigan State University - Biology and Microbiology tutor for student athletes

Service Activities


Proposal Reviewer. NSF. 2013.

Manuscript Reviewer: Genetics, The Journal of Heredity, Molecular Evolution, Plos One.

Webmaster: EEPB paper of the month website (2007-2008). Fay Lab (2009-2010), Weedy Rice NSF project (2011), Vitisgen (2012).

Graduate student representative to search committee, Spencer T. Olin endowed faculty position, Washington University. 2010

Graduate student representative to Ecology, Evolution and Population Biology Program faculty steering committee, Washington University. 2005-2006

Mentor. Undergraduate research, Washington University. 2009

Volunteer, Young Scientist Program Teaching Team, Washington University. 2005-2007