Mark Farman

mark.farman@uky.edu
Phone (859) 218-0728
Fax (859) 323-1961
Farman Lab

Department of Plant Pathology
225 Plant Science Building
Lexington KY 40546-0312

Professional Profile

Professor


Focus

Research

The Farman lab uses genomic approaches to study mechanisms of pathogenesis in the fungal phytopathogen,Magnaporthe oryzae. Areas of special interest include

  • Fungal genome evolution and dynamics
  • The roles of telomeres in pathogenic variation
  • Methods for high throughput fungal protein localization during host infection.

 

Teaching

  • PPA 600: Critical Methods in Plant-Microbe Interactions
  • PPA 500: Physiology of Plant Health and Disease (guest lecturer)
  • PPA 784: Special Problems in Plant Pathology

Education

  • Ph.D. in Molecular Biology, 1990, University of East Anglia, United Kingdom
  • B.S. in Biology, 1983, University of East Anglia, United Kingdom


Employment Highlights

  • Director of the University of Kentucky Advanced Genetic Technologies Center, 2012-present
  • Professor, University of Kentucky, 2009-present
  • Associate Professor, University of Kentucky, 2003-2009
  • Assistant Professor, University of Kentucky, 1997-2003
  • Postdoctoral Scholar, University of Wisconsin-Madison, 1990-1997


Awards, Recognition, Service

  • Basil O' Connor Starter Scholar, 1999


Recent Research Publications

2014 to present (see Lab pages for a more complete list)

  • Inoue Y, Vy TTP, Yashida K, Asano H, Mitsuoka C, Asuke S, Anh VL, Cumagun CJR, Chuma I, Terauchi R, Kato K, Mitchell T, Valent B, Farman M, Tosa Y. (2017) Evolution of the wheat blast fungus through functional losses in a host specificity determinant, Science 357:80-83.
  • Jang C, Wang R, Wells J, Leon F, Farman M, Hammond J, Goodin M. (accepted for publication) Genome sequence variation in the constricta strain dramatically alters the protein interaction and localization map of Potato Yellow Dwarf virus. J. Gen. Virol.
  • Elshahawi SI, Cao H, Shaaban KA, Ponomareva LV, Subramanian T, Farman ML, Spielmann HP, Phillips GN Jr, Thorson JS, Singh S. (2017) Structure and specificity of a permissive bacterial C-prenyltransferase. Nature Chem. Biol. oi: 10.1038/nchembio.2285.
  • Buiate E, Xavier X, Moore N, Farman M, Schardl, C, Vaillancourt L (2017) A comparative genomic analysis of putative pathogenicity genes in the host-specific sibling species Colletotrichum graminicola and Colletotrichum sublineola. BMC Genomics 18: 67.
  • Farman M, Peterson G, Chen L, Valent B, Bachi P, Murdock L, Hershman D, Pedley K, Fernandes M, Bavaresco J. (2017) The Lolium pathotype of Magnaporthe oryzae recovered from a single blasted wheat plant in the United States. Plant Dis. http://dx.doi.org/10.1094/PDIS-05-16-0700-RE
  • Pieck M, Farman M, Peterson G, Stack J, Valent B, Pedley K (2017) Genomics-based marker discovery and diagnostic assay development for wheat blast. Plant Dis. 101: 103-109.
  • Florea S, Phillips T D, Panaccione D G, Farman M L, Schardl C L (2016) Chromosome-end knockoff strategy to reshape alkaloid profiles of a fungal endophyte. G3 6:2601-2610.
  • Okagaki L, Nunes C, Sailsbery J, Clay B, Brown D, John T, Oh Y, Young N, Fitzgerald M, Haas B, Zeng Q, Young S, Adiconis X, Fan L, Levin J, Mitchell T, Okubara P, Farman M, Kohn L, Birren B, Ma L-J, Dean R (2015) Genome sequences of three phytopathogenic species of the Magnaporthaceae family of fungi. G3 5:2539-2545.
  • Minton R L, Martinez Cruz M A, Farman M, Perez K E (2016) Two complete mitochondrial genomes from Praticolella mexicana Perez, 2011 (Polygyridae) and gene order evolution in Helicoidea (Mollusca, Gastropoda). ZooKeys 626: 137-154
  • Malaker P, Barma N, Tewari T, Collis W, Duveiller E, Singh P, Joshi A, Singh R, Braun H-J, Peterson G, Pedley K, Farman M, Valent B (2016) First report of wheat blast caused by Magnaporthe oryzae pathotype Triticum in Bangladesh. Plant Dis. 100: 2330.
  • Okagaki L, Nunes C· Sailsbery J, Clay B, Brown D, John T, Oh Y, Young N, Fitzgerald M, Haas B, Zeng Q, Young S, Adiconis X, Fan L, Levin J, Mitchell T, Okubara P, Farman M, Kohn L, Birren B, Ma L-J, Dean R (2015) Genome sequences of three phytopathogenic species of the Magnaporthaceae family of fungi. G3:Genes|Genomes|Genetics doi:10.1534/g3.115020057
  • Gong, X., Hurtado, O., Wang, B., Yi, M., Giraldo, M., Wu, C., Valent, B., Goodin, M., and Farman, M. 2014. pFPL vectors for high-throughput protein localization in fungi: detecting cytoplasmic accumulation of putative effector proteins. Molec Plant-Microbe Interact 28: 107-121.
  • Farman, M., Novikova, O.S., Starnes, J.H., and Thornbury, D.W. 2014. Subtelomere organization, evolution, and dynamics in the rice blast fungus Magnaporthe oryzae. Pages 71-99 in: Subtelomeres, E.J. Louis and M.M. Becker, eds. Springer-Verlag, Berlin, Heidelberg.
  • Nelson P, Estus S, Abner E, Parikh I, Malik M, Neltner J, Ighodaro E, Wang W-X, Wilfred B, Wang L-S, Kukull W, Nandakumar K, Farman, M, Poon W, Corrada M, Kawas C, Cribbs D, Bennett D, Schneider J, Larson E, Crane P, Valladares O, Schmidtt F, Kryscio R, Jicha G, Smith C, Scheff S, Sonnen J, Haines L, Pericak-Vance M, Mayeux R, Farrer L, Van Eldik L, Horbinski C, Green R, Gearing M, Poon L, Kramer P, Woltjer R, Montine T, Partch A, Rajic A, Richmire K, Mosell S, Alzheimer's Disease Genetic Consortium, Schellenberg G, and Fardo D (2014) ABCC9 gene polymorphism is associated with hippocampal sclerosis of aging pathology. Acta Neuropathol. 127: 825-843.
  • Schardl, C.L., Young, C.A., Pan, J., Florea, S., Takach, J.E., Panaccione, D.G., Farman, M.L., Webb, J.S., Jaromczyk, J., Charlton, N.D., Nagabhyru, P., Chen, L., Shi, C., and Leuchtmann, A. 2013a. Currencies of mutualisms: sources of alkaloid genes in vertically transmitted epichloae. Toxins 5:1064-1088.
  • Ramalho, T.O., Figueira, A.R., Sotero, A.J., Wang, R., Geraldino Duarte, P.S., Farman, M., and Goodin, M.M. 2014. Characterization of Coffee ringspot virus-Lavras: A model for an emerging threat to coffee production and quality. Virology 464-465:385-396.
  • Bec S, Ward, T., Farman, M., O'Donnell, K., Hershman, D., Van Sanford, D., and Vaillancourt, L. 2014. Characterization of Fusarium strains recovered from wheat with symptoms of head blight in Kentucky. Plant Disease. http://apsjournals.apsnet.org/doi/abs/10.1094/PDIS-06-14-0610-RE