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Scholarly Interest Report
         
H. Michael Kohn
Associate Professor
Associate Professor of Ecology and Evolutionary Biology
 
e-mail:hmkohn@rice.edu
 
  • M.S. Molecular Ecology & Conservation (1994) Ludwig-Maximilians-Universitat Munchen, Department of Biology, Munchen
  • Ph.D. Molecular Ecology , Molecular Population Genetics, Evolution (2000) University of California at Los Angeles, Department of Organismic Biology, Ecology & Evolution, Los Angeles
 
Primary Department
   Department of BioSciences
Picture
 
Department Affiliations
 
  • Department of BioSciences
  • Ecology and Evolutionary Biology
  • Institute of Biosciences and Bioengineering
  • Keck Center for Quantitative Biomedical Sciences
  • Ken Kennedy Institute for Information Technology
  • Systems, Synthetic, and Physical Biology
  • Wiess School of Natural Sciences
  •  
    Websites
     Michael Kohn Lab
     
    Research Areas
     Evolutionary biology, genomics, population genetics, conservation genetics, medical genetics
     

    The evolutionary dynamics of genes and genomes in populations and species

     

    2014Kohn


    Our lab employs molecular and bioinformatics tools to study the evolutionary dynamics of genes and genomes in populations and species. Some of our research projects have implications for conservation biology or medicine.  Much of our work is concerned with the evolutionary dynamics and medical effects of mutations in the vitamin K cycle genes, foremost vkorc1, in rats and mice that have developed a resistance to anticoagulant rodenticides such as warfarin.


    Pubmed Search for articles by MH Kohn

     
    Teaching Areas
     Evolutionary Genomics
     
    Selected Publications
     Abstracts
     

    Michael H. Kohn and Ching-Hua Shih. 2011. Applying speciation models to comparative primate genome data.  Am J Primatology 73:46.

     
     Refereed articles
     

    Liu, KJ, Steinberg, E, Yozzo, A, Song, Y, Kohn, MH, and L Nakhleh.  2015. Interspecific introgressive origin of genomic diversity in the house mouse. Proc. Nat. Acad. Sci., USA 112:196-201

     
     

    Ching-Hua Shih, Shuwei Li, Jason Park, Luay Nakleh, Michael H. Kohn. Genetic network interactions as predictors of linkage disequilbrium in the genome. (BMC GENOMICS)

     
     

    Liu KJ, Dai J, Truong K, Song Y, Kohn MH, and L Nakhleh. 2014. An HMM-Based Comparative Genomic Framework for Detecting Introgression in Eukaryotes. PLoS Comput Biol 10(6): e1003649. doi:10.1371/journal.pcbi.1003649

     
     

    Song Y, Lan Z, Kohn MH 2014. Mitochondrial DNA Phylogeography of the Norway Rat. PLoS ONE 9(2): e88425. doi:10.1371/journal.pone.0088425

     
     

    Endepols, S., Klemann, N., Song, Y., and  Kohn, HM.  2013. vkorc1-Variation in house mice during Warfarin and Difenacoum field trials.  Pest Management Science 69:409-413.  doi: 10.1002/ps.3306

     
     

    Ying Song, Stefan Endepols, Nicole Klemann, Dania Richter, Franz- Rainer Matuschka , Ching-Hua Shih, Michael Nachmann, Michael H. Kohn. 2011 Adaptive introgression of anticoagulant rodent poison resistance by hybridization between Old World mice.  Current Biology.  21:1296-1301

     
     

    Juan C Diaz, Ying Song, Anthony Moore$, Jeff N Borchert and Michael H Kohn. (2010) Analysis of vkorc1 polymorphisms in Norway rats using the roof rat as outgroup. BMC Genetics 11:43

     
     

    Julien Beuchat, Shuwei Li, Chikako Shindo, Michael H. Kohn, Christian S. Hardtke. (2010) A hyperactive quantitative trait locus allele of Arabidopsis BRX contributes to natural variation in root growth vigor. The Proceedings of the National Academy of Sciences, U.S.A. 107: (18) 8475-8480.

     
     

    Michael H Kohn (2010) Non-invasive genome sampling in chimpanzees.  Molecular Ecology 19: 5328–5331 (Invited perspective)

     
     

    Michael H. Kohn. (2010) VT study disassociates C4BP from protein S. Blood 115: 4623-4624. (invited perspective)

     
     

    Shuwei Li, Ching-Hua Shih and Michael H Kohn. (2010) Functional and evolutionary correlates of gene constellations in the Drosophila melanogaster genome that deviate from the stereotypical gene architecture. BMC Genomics 11:322

     
     

    Agnes Grandemange, Michael H. Kohn, Romain Lasseur, Christiane Longin-Sauvageon, Philippe Berny, Etienne Benoit. Consequences of the Y139F Vkorc1 mutation on resistance to AVKs - in vivo investigation in a 7th generation of congenic Y139F strain of rats. 2009.  Pharmacogenetics and Genomics. 19 (10):742-750.

     
     

    Laurie S. Stevison and Michael H. Kohn. 2009. Divergence population genetic analysis of hybridization between Rhesus and Cynomolgus Macaques. Molecular Ecology 18 (11): 2457-2475.

     
     

    Laurie S Stevison and Michael H Kohn. 2008.  Divergent genetic backgrounds in cynomolgus macaques (Macaca fascicularis) captive stocks. Journal Medical Primatology 37: 311 - 317

     
     

    Michael H Kohn, Joshua Shapiro and Chung-I Wu. 2008. Decoupled evolution of regulatory and coding regions of drosophila genes. Genes and Genetic Systems 83: 265-273.

     
     

    Michael H Kohn, Roger E Price, Hans-Joachim Pelz. 2008.  A Cardiovascular phenotype in the Vkorc1 mutant warfarin-resistant rat Artery Research 2: 138-147.

     
     

    Michael H. Kohn. 2008. Rapid sequence divergence rates in the 5 prime regulatory regions of young Drosophila melanogaster duplicate gene pairs. Genetics and Molecular Biology 31: 575-584.

     
     

    Ying Song, Nicole Vera, Michael H Kohn. 2008.  Vitamin K epoxide reductase (Vkorc1) haplotype variation in priority strains of the laboratory mouse. BMC Research Notes, 1:125

     
     Michael H. Kohn, Patricia J. Wittkopp. Annotating ebony on the fly. Molecular Ecology 14: 2831-2833.
     
     Michael H Kohn, Roger E Price, Hans-Joachim Pelz. Mineralization of the arota in the Vkorc1 mutant warfarin-resistant rat (In review Blood)
     
     Michael H. Kohn, William J. Murphy, Elaine A. Ostrander & Robert K. Wayne. Genomics and Conservation Genetics. Trends in Ecology & Evolution 21: 629-637.
     
     Naoki Osada*, Michael H. Kohn* & Chung-I Wu. Inference of cis-regulatory nucleotide polymorphism underlying gene expression differences between Drosophila melanogaster mating races. Molecular Biology & Evolution 23: 1585-1159. *authors contributed equally.
     
     

    M.H. Kohn, W.J. Murphy, E.A. Ostrander, and R.K. Wayne "Genomics and convervation genetics." Trends in Ecology and Evolution, 21 (11) (2006) : 629-637.

     
     

    Michael H Kohn*, Joshua Shapiro, Chung-I Wu. Decoupled evolution of regulatory and coding regions of drosophila genes. Genes, Genetic Systems 83: 265-273. 

     
     

    Michael H. Kohn, Shu Fang & Chung-I Wu "Inference of positive and negative selection on the 5' regulatory regions of Drosophila genes." Molecular Biology & Evolution, 21 (2004) : 374-383.

     
     

    Michael H. Kohn*, Hans-Joachim Pelz, Robert K. Wayne. Locus-specific genetic differentiation at Rw among warfarin-resistant rat (Rattus norvegicus) populations. Genetics 164:1055-1070. 

     
     

    Jose Fedriani, Michael H. Kohn. Genotyping feces links individuals to their diet. Ecology Letters 4:477-483. 

     
     

    Michael H. Kohn*, Hans-Joachim Pelz, Robert K. Wayne. Natural selection mapping of the warfarin resistance gene. The Proceedings of the National Academy of Sciences, U.S.A. 97:7911-7915. 

     

     
     

    Michael H. Kohn*, Hans-Joachim Pelz. A gene-anchored map position of the rat warfarin resistance locus, Rw, and its orthologs in mouse and human. Blood 96:1996-1998.

     
     

    Michael H. Kohn*, Eric York, Denise Kamradt, Gary Haughts, Ray Sauvajot, Robert K. Wayne. Estimating population size by genotyping feces. The Proceedings of the Royal Society:Biological Sciences 266:657-665. 

     
     

    Michael H. Kohn*, Hans-Joachim Pelz. Genomic assignment of the warfarin resistance locus, Rw, in the rat. Mammalian Genome 10:696-698. 

     

     
     

    Elizabeth A. Hadly, Michael H. Kohn, Jennifer A. Leonard, Robert K. Wayne. A genetic record of population isolation in pocket gophers during Holocene climatic change. The Proceedings of the National Academy of Sciences, U.S.A. 95:6893-6895. 

     

     
     

    Malka A. J. Frantzen, Joan B. Silk, John W. H. Ferguson, Robert K. Wayne, Michael H. Kohn*. Empirical evaluation of preservation methods for DNA analysis of baboon feces. Molecular Ecology 7:1423-1428. 

     

     
     

    Michael H. Kohn*, Robert K. Wayne. Facts from feces revisited. Trends in Ecology & Evolution 6:223-227. 

     
     

    Michael Kohn, Felix Knauer, Alberto Stoffella, Wolfgang Schröder, Svante Pääbo. Conservation genetics of the European brown bear - a study using excremental PCR of nuclear and mitochondrial sequences. Molecular Ecology 4:95-103. 

     
     

    Matthias Höss, Michael Kohn, Felix Knauer, Wolfgang Schröder, Svante Pääbo. Excrement analysis by PCR. Nature 359:199. 

     
     Refereed conference papers
     

    Michael Kohn*, Felix Knauer. Phylogeography of brown bears in Europe and Excremental PCR - the new tool in the genetic analysis of animals in the wild. Ursus 10:315-321. 

     
     

    Felix Knauer, Michael Kohn, Horia Almasan, Wolfgang Schröder, Svante Pääbo. The bears in Romania – Genetic status and management implications. Proceedings of the Symposium ‘A coexistence of large predators and man’, 1994:1-7. 

     
    Presentations
     Invited Talks
     

    Presenter.  "Adaptive introgression of rodent poison resistance in Old World mice." Evolution 2009, University of Idaho, Moscow, Idaho. (June 12-16, 2009) With Ying Song, Stefan Endepols

     
     

    Presenter.  "Adaptive introgression of rodent poison resistance in Old World mice." Annual Meeting of the Society for Molecular Biology and Evolution, University of Iowa, Iowa City, Iowa. (June 3-7, 2009) With Ying Song; Stefan Endepols

     
     

    "Annotating the genome one phenotype at a time evolutionary and medical studies in Drosophila and rat." Mechanisms of adaptation, genetic differentiation, and speciation, Tutzing, Germany.

     
     

    "Detecting adaptive population genetic structure in rodents." Third International Conference on Rodent Biology & Management, Hanoi, Vietman. (28 August - 1 September, 2007)

     
     

    "Evolutionary Genomics - the mapping of genes involved in adaptation and disease." Rice Institute of Biosciences and Bioengineering annual Research Symposium, Rice University.

     
     

    "Genome analysis of hybridizing monkeys." Department of Biochemistry & Molecular Biology, Rice University, Annual Retreat Chain O'Lakes Resort.

     
     

    "Induced and genetic responses to warfarin in the Norway rat." 6th European Vertebrate Pest Management Conference, University of Reading, UK. (11-15 September 2007)

     
     Other
     

    Co-author.  "Vkorc1 polymorphisms in a bromadiolone resistant populaltion of house mice." 7th European Vertebrate Pest Management Conference, Lyon, France. (Sept. 8 - 11, 2009) With Stefan Endepols, Nicole Klehman

     
     

    "Genetic systems in the rat." Copenhagen, Denmark,

     
     Panelist
     

    "Expert panel on the future of evolutionary biology research and teaching in Germany." Volkswagen Stiftung, Hannover, Germany.

     
     Posters
     

    co-author.  "Analyses of a selective sweep in warfarin resistant rats.." Evolution Ottawa, 1st Joint Congress on Evolutionary Biology, Ottawa, Ontario, CANADA. (July 7, 2012) With Li, Shuwei; Lan, Zhenjiang; Song, Ying

     
     

    Adaptive introgression of anticoagulant rodent poison resistance between Old World mice. Ying Song, Stefan Endepols, Nicole Klemann, Dania Richter, Franz-Rainer Matuschka, Michael W. Nachman & Michael H. Kohn. The Evolution Annual Meeting 2011 - Norman, Oklahoma - June 17-21

     
     

    Adaptive introgression of anticoagulant rodent poison resistance between Old World mice. Ying Song, Stefan Endepols, Nicole Klemann, Dania Richter, Franz-Rainer Matuschka, Michael W. Nachman & Michael H. Kohn. The 13th Congress of the European Society for Evolutionary Biology taking place in Tübingen, Germany from August 20-25, 2011

     
     

    Detection of the signatures of hybridization between rhesus and cynomolgus macaques from analyses of their published genomic resources. Ching-Hua Shih and Michael H. Kohn. The 34rd Meeting of the American Society of Primatologists. September 16 - 19, 2011  Austin, Texas, USA.

     
     

    Co-author.  "Network Biology." Cold Spring Harbor Symposia on Network Biology, Cold Spring Harbor, NY. (March 18-20, 2009) With Ching-Hua Shih, Shuwei Li, Jason Park, Luay Nakleh

     
     Seminar Speaker
     

    Speaker.  "Adaptive Introgressive Hybridization with the Algerian Mouse (Mus spretus) Promoted the Evolution of Anticoagulant Rodenticide Resistance in European House Mice (M. musculus domesticus)." Washington University-St. Louis, St. Louis, MO. (March 30, 2011)

     
     

    Co-authored, presenter.  "Adaptive introgressive hybridization with the Algerian mouse (Mus spretus) promoted the evolution of anticoagulant rodenticide resistance in European house mice (M. musculus domesticus)." 8th European Vertebrate Pest Management Conference, Berlin, Germany. (Sept 26-30, 2011) With Ying Song, Stefan Endepols, Nicole Klemann, Dania Richter, Franz-Rainer Matuschka, Ching-Hua Shih, Michael W. Nachman

     
     

    UTMB Human Genetics Center, Human Genetics Seminar, University of Texas Health Science Center at Houston, School of Public Health (Monday, Oct 4, 2010)

     
     

    "A study of incipient speciation by genomic manipulation and expression profiling." Summer Symposia in Molecular Biology, Pennsylvania State University, University Park, PA.

     
     

    "Evolution of regulatory sequences in Drosophila." Department of Biochemistry & Molecular Biology, University of Houston, Houston TX.

     
     

    "Genome analyses of hybridizing monkeys." Annual Meeting of the Society for Molecular Biology & Evolution, Halifax, Nova Scotia, Canada. (24-28 June 2007)

     
     

    "TBD." Spring Genetics seminar series for the Interdisciplinary Faculty of Genetics. Texas A&M, College Station, Texas, USA.,

     
     

    Tenth International Conference on Bear Research, Management. Fairbanks, Alaska, U.S.A. Coauthored, presenter: Phylogeography of brown bears in Europe and Excremental PCR - the new tool in the genetic analysis of animals in the wild

     
     Session Chair
     

    Invited presenter and Session Chair.  "Applying speciation models to comparative primate genome data. ." 34rd Meeting of the American Society of Primatologists, Austin, TX. (Sept 16-19, 2011) With Ching-Hua Shih

     
     

    "Introduction to keynote speaker." 6th European Vertebrate Pest Management Conference. University of Reading, UK. Authored & presenter:, University of Reading, UK. (11-15 September 2007)

     
     

    "Welcome and Introduction." 3rd International Conference on Rodent Biology & Management, Hanoi, Vietman. (28 August - 1 September, 2007)

     
    Supervised Theses & Dissertations
     Clea Scala, M.A. Polymorphism of microsatellites in coding regions of Dictyostelium discoideum. (2005) (Thesis Committee Member)

     Joseph Hinton, M.A. Red wolf (Canis rufus) home range, habitat use, and pup attendance during the pup rearing season. (2006) (Thesis Committee Member)

     Joseph Hinton, M.A. Red wolf (Canis rufus) home range, habitat use, and pup attendance during the pup rearing season. (2006) (Thesis Committee Member)

     Joseph Hinton, M.A. Red wolf (Canis rufus) home range, habitat use, and pup attendance during the pup rearing season. (2006) (Thesis Committee Member)

     Clea Scala, M.S. Microsatellite Evolution in Dictyostelium. (2006) (Thesis Committee Member)

     Jennifer Hilton, B.A. Enhancing the study of speciation in the bioinformatics era. (2007) (Thesis Director)

     Nicole P. Vera, B.S. Search for Association of Genetic Variation in the Vitamin K Cycle with Respect to Prothrombin Time and Bone Mineralization. (2007) (Thesis Director)

     Laurie S. Stevison, M.S. Multilocus test for nuclear introgression between Mucaca mulatta and N, fascicularus: Evidence for gene flow in macaques.. (2007) (Thesis Director)

     Owen Gilbert, PhD Kinship and the evolution of altruism in social amoebae and A model for the evolution on kin-limited interactions. (2011) (Thesis Committee Member)

     Sara Kalla, PhD Evolutionary genetics of dictyostelids: cryptic species, sociality and sex. (2011) (Thesis Committee Member)

     Hong-An Long, PhD tbd . (2012) (Thesis Committee Member)

     Troy Ruths, PhD Population Regulomics: Applying population genetics to the cis-regulome - Rice Computer Science. (2014) (Thesis Committee Member)

     Wendell Fleming, PhD Rice BCB. (2014) (Thesis Committee Member)

     Kimberly Vincent, M.S. The role of CCAT2 in miRNA expression and processing - Rice EEB. (2014) (Thesis Committee Member)

     Christopher Dibble, Ph.D. Intraspecific Variation in Metacommunities: Linking regional variation with local ecoevolutionary dynamics - Rice EEB. (2014) (Thesis Committee Member)

     Yun Yu, MS Rice Computer Science. (2014) (Thesis Committee Member)

     Angela Zhu, PhD Rice Computer Science. (2014) (Thesis Committee Member)

     Nicholas Price, PhD University of Houston. (2014) (Thesis Committee Member)

     Jie Lv, Ph.D. Evolution of Genome Organization in Animal and Yeast. (2015) (Thesis Committee Member)

     Jia-Xing Yue, Ph.D. Comparative Genomics of Cephalochordates. (2015) (Thesis Director)

     Jie Lv, PhD Functional constraints on genes shape long-­term conservaion of synteny in metazoan genomes. (2017) (Thesis Committee Member)

     Juan Diaz, PhD Analyses of independent evolution on alleles that confer resistance to anticoagulants in US population rodents. - Rice EEB. (2018) (Thesis Director)

     Jiaxing Yue, PhD Population Genomics of Amphioxus. (2018) (Thesis Committee Member)

     Sreyasi Biswas, PhD TBD. (2019) (Thesis Director)

     Eslam Eshahat, PhD Rice EEB. (2019) (Thesis Director)

     Jia-Xing Yue, PhD Functional Characterization of the Asymmetron lucayanum Genome. (Thesis Committee Member)

     Hsing-I Ho, PhD The protective effect of kin-recognition against cheaters and the evolution of polymorphism in kin-recognition genes. (Thesis Committee Member)

     Jie Lv, PhD Dosage sensitivity constrains gene movement between chromosomes during the evolution of metazoan. (Thesis Committee Member)

     Kimberly Vincent, PhD Population genomics of an invasive species Aedes albopictus. (Thesis Committee Member)

     Nikola Ristic, Rice Computer Science. (Thesis Committee Member)

    Awards, Prizes, & Fellowships
     Best Poster Award for „Detection of the signatures of hybridization between rhesus and cynomolgus macaques from analyses of their published genomic resources. Ching-Hua Shih and Michael H. Kohn.“ , The 34rd Meeting of the American Society of Primatologists

     Best Paper Award 2009 for "A cardiovascular phenotype in warfarin-resistant VKORC1 mutant rats", Artery Research (2009)

     Pew Scholars Program, (2007)

     Pew Scholars Program in Biomedical Sciences, Rice Nominee (Aug 2005)

    Positions Held
     Senior Research Fellow Center for Tropical Research, Center of the UCLA Institute of the Environment, Center for Tropical Research, a center of the UCLA Institute of the Environment. (2005 - 2005)

     Associate professor (with tenure), , Rice University, Department of Ecology & Evolutionary Biology, Houston, TX, U.S.A. (2012 - 2012)

     Assistant professor (adjunct), University of Texas, Graduate School of Biomedical Sciences, Houston, TX, U.S.A. (2011 - 2011)

     Institute of Biosciences & Bioengineering, IBB, Rice University, Houston, TX, U.S.A. (2005 - 2005)

     Ken Kennedy Institute for Information Technology (formerly CITI), Rice University, Houston, TX, U.S.A. (2010 - 2010)

     Training faculty for the Biomedical Discovery Training Program (BMDTP), Gulf Coast Consortia, Houston, TX, U.S.A. (2010 - 2010)

     Ken Kennedy Institute for Information Technology (formerly CITI), Rice University, Houston, TX, U.S.A. (2008 - 2008)

     Training faculty for the Biomedical Discovery Training Program (BMDTP), Gulf Coast Consortia, Houston, TX, U.S.A. (2011 - 2011)

     Assistant professor (adjunct), University of Texas, Graduate School of Biomedical Sciences, Houston, TX, U.S.A. (2010 - 2010)

     Research associate, Department Ecology, Evolution, University of Chicago, Chicago, IL, U.S.A. (2010 - 2010)

     Rice Systems and Synthetic Biology Group, Rice University, Houston, TX, U.S.A. (2010 - 2010)

     Ken Kennedy Institute for Information Technology (formerly CITI), Rice University, Houston, TX, U.S.A. (2008 - 2008)

     Training faculty for the Biomedical Discovery Training Program (BMDTP), Gulf Coast Consortia, Houston, TX, U.S.A. (2008 - 2008)

     Assistant professor (adjunct), University of Texas, Graduate School of Biomedical Sciences, Houston, TX, U.S.A. (2007 - 2007)

     Assistant professor (tenure track), Rice University, Department of Ecology, Evolutionary biology, Houston, TX, U.S.A. (2004 - 2004)

     Research associate, Department Ecology, Evolution, University of Chicago, Chicago, IL, U.S.A. (2001 - 2001)

     Ken Kennedy Institute for Information Technology (formerly CITI), Rice University, Houston, TX, U.S.A. (2011 - 2011)