Ksenia V Krasileva


Postdoctoral Researcher


  • PhD. Microbiology, Designated Emphasis in Computational Biology. University of California, Berkeley. 2011.
  • BS. Microbiology, Genetics and Plant Biology. Honors. University of California, Berkeley. 2005.


My research involves comparative genomics, plant cell biology and plant-microbe interactions. 

I received my PhD from Brian Staskawicz group at University of California, Berkeley where I studied the molecular mechanisms of plant-pathogen interactions. 

My interest in bioinformatics started from wonderful classes taught at Berkeley by inspirational faculty members and students. Under the guidance of Kimmen Sjolander I completed a designated emphasis in Genomics and Computational Biology as a part of my PhD. This motivated me to fully apply my computational skill during my postdoc.

In the Dubcovsky lab, I lead development of functional genomics tools for wheat. Specifically, I am focused on the tetraploid wheat species Triticum turgidum that provides us with pasta and couscous and serves as an important model for basic wheat research. With the help of gene capture technology and modern robotics, I am sequencing 1000 mutant wheat lines from a large TILLING collection that was developed by former graduate student Cristobal Uauy (currently a group leader at John Innes Center) and is maintained in the Dubcovsky lab by Francine Paraiso. On the bioinformatic side, I am leading group efforts to assemble a pipeline for processing exome capture data and identification of mutations in each line. This information is used for developing a reverse genomic database (indispensible contribution from Hans Vasquez-Gross) that will be publicly available to scientists and wheat breeders to identify and request lines with induced alleles of interest.

I am applying these genomic tools to continue my research on plant innate immunity. Specifically, I screened our mutagenized population for induced resistance/susceptibility to wheat pathogens. I am excited to understand the basis of increased resistance in plants and to develop robust and rapid methods of generating new phenotypic diversity in crop species.


12 publications (5 as first/co-first author)

Henry IM, Nagalakshmi U, Lieberman MC, Ngo KJ, Krasileva KV, Vasquez-Gross H, Alina Akunova A, Akhunov E, Dubcovsky J, Tai TH and Comai L “Efficient genome-wide detection and cataloging of EMS-induced mutations using exome capture and next-generation sequencingPlant Cell, 26:1382-1397 (2014)

Krasileva KV, Buffalo V, Bailey P, Pearce S, Ayling S, Tabbita F, Soria M, Wang S, Consortium I, Akhunov E, Uauy C, Dubcovsky J: “Separating homeologs by phasing in the tetraploid wheat transcriptome.Genome Biology, 14:R66. (2013)

Bart R, Cohn M, Kassen A, McCallum EJ, Shybut M, Petriello A, Krasileva K, Dahlbeck D, Medina C, Alicai T, Kumar L, Moreira LM, Neto JR, Verdier V, Santana MA, Kositcharoenkul N, Vanderschuren H, Gruissem W, Bernal A, Staskawicz BJ. “High-throughput genomic sequencing of cassava bacterial blight strains identifies conserved effectors to target for durable resistance.Proceeding of National Academy of Sciences U S A, 109(28):E1972-9. (2012)

Goritschnig S, Krasileva KV, Dahlbeck D, Staskawicz BJ. “Computational prediction and molecular characterization of an oomycete effector and the cognate Arabidopsis resistance gene.PLoS Genetics 8(2):e1002502. (2012)

Win J, Krasileva KV, Kamoun S, Shirasu K, Staskawicz BJ, Banfield MJ. “Sequence divergent RXLR effectors share a structural fold conserved across plant pathogenic oomycete species.PLoS Pathogens 8(1): e1002400. (2012)

Krasileva KV, Zheng C, Leonelli L, Goritschnig S, Dahlbeck D, Staskawicz BJ. “Global analysis of Arabidopsis / downy mildew interactions reveals prevalence of incomplete resistance and rapid evolution of pathogen recognition.PLoS One, 6: e28765. (2011)

Zhao B, Dahlbeck D, Krasileva KV, Fong RW, Staskawicz BJ. “Computational and Biochemical Analysis of the Xanthomonas Effector AvrBs2 and Its Role in the Modulation of Xanthomonas Type Three Effector Delivery.PLoS Pathogens. 12 :e1002408. (2011)

Chou S*, Krasileva KV*, Holton J, Steinbrenner A, Alber T, Staskawicz BJ. “Hyaloperonospora arabidopsidis ATR1 effector is a repeat protein with distributed recognition surfaces.Proceeding of National Academy of Sciences U S A. 108(32): 13323-8. (2011) *equal contribution

Potnis N*, Krasileva K*, Chow V, Almeida NF Jr, Patil PB, Ryan RP, Sharlach M, Behlau F, Dow JM, White FF, Preston JF, Vinatzer BA, Koebnik R, Setubal JC, Norman DJ, Staskawicz BJ, Jones JB. “Comparative Genomics Reveals Diversity among Xanthomonads Infecting Tomato and Pepper.BMC Genomics, 12(1): 146. (2011) *equal contribution

Krasileva KV, Dahlbeck D, Staskawicz BJ. “Activation of an Arabidopsis Resistance Protein Is Specified by the in Planta Association of Its Leucine-Rich Repeat Domain with Cognate Oomycete Effector.Plant Cell, 22:1-16. (2010)

Dulla GF, Krasileva KV, Lindow SE. “Interference of Quorum Sensing in Pseudomonas syringae by Bacterial Epiphytes that Limit Iron Availability.Environmental Microbiology, 12(6): 1762-74. (2010)

Win J, Morgan W, Bos J, Krasileva KV, Cano LM, Chaparro-Garcia A, Ammar L, Staskawicz BJ, Kamoun S. “Adaptive Evolution Has Targeted the C-terminal Domain of the RXLR Effectors of Plant Pathogenic Oomycetes.Plant Cell, 19: 2349-69. (2007)


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