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Department of Plant Pathology

Dr. Alina Akhunova

Dr. Alina Akhunova

Research Professor

Director-Integrated Genomics Facility

Kansas State University
4722 Throckmorton PSC
1712 Claflin Road
Manhattan, KS 66506

Ph: +1-785-532-1393
Fx: +1-785-532-5692


  • Postdoctoral Training, Plant Genomics, UC Davis, 2001-2004
  • Ph.D. Animal Physiology, StreetPetersburg State University, Russia, 1998
  • M.S. Animal Physiology, Bashkirian State University, Ufa, Russia, 1992


  • Schwartz AR, Potnis N, Timilsina S, Wilson M, Patane J, Martins J, Minsavage GV, Dahlbeck D, Akhunova A, Almeida N, Vallad GE, Barak JD, White FF, Miller SA, Ritchie D, Goss E, Bart RS, Setubal JC, Jones JB and Staskawicz BJ. Phylogenomics of Xanthomonas field strains infecting pepper and tomato reveals diversity in effector repertoires and identifies determinants of host specificity. Front. Microbiol. 2015, 6:535
  • Jordan KW, Wang S, Lun Y, Gardiner LJ, MacLachlan R, Hucl P, Wiebe K, Wong D, Forrest KL, Sharpe AG, Sidebottom CHD, Hall N, Toomajian C, Close T, Dubcovsky J, Akhunova A, Talbert L, Bansal UK, Bariana HS, Hayden MJ, Pozniak C, Jeddeloh JA, Hall A, Akhunov E. A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes. Genome Biology 2015, 16:48
  • Reddy SK, Liu S, Rudd JC, Xue Q, Payton P, Finlayson SA, Mahan J, Akhunova A, Holalu SV, Lu N. Physiology and transcriptomics of water-deficit stress responses in wheat cultivars TAM 111 and TAM 112. Journal of Plant Phys. 2014, 171:1289-1298
  • Henry IM, Nagalakshmi U, Lieberman MC, Ngo KJ, Krasileva KV, Vasquez-Gross H, Akhunova A, Akhunov E, Dubcovsky J, Tai TH, Comai L. Efficient genome-wide detection and cataloging of EMS-induced mutations using next-generation sequencing and exome capture. The Plant Cell 2014, 26:1382-1397
  • Wang S, Wong D, Forrest K, Allen A, Chao S, Huang BE, Maccaferri M, Salvi S, Milner SG, Cattivelli L, Mastrangelo AM, Whan A, Stephen S, Barker G, Wieseke R, Plieske J, IWGSC, Lillemo M, Mather D, Appels R, Dolferus R, Brown-Guedira G, Korol A, Akhunova AR, Feuillet C, Salse J, Morgante M, Pozniak C, Luo MC, Dvorak J, Morell M, Dubcovsky J, Ganal M, Tuberosa R, Lawley C, Mikoulitch I, Cavanagh C, Edwards KJ, Hayden M, Akhunov E. Characterization of polyploid wheat genomic diversity using a high-density 90 000 single nucleotide polymorphism array. Plant Biotechnol. J. 2014, 12:787-796
  • Reddy SK, Weng Y, Rudd JC, Akhunova A, Liu S. Transcriptomics of induced defense responses to greenbug aphid feeding in near isogenic wheat lines. Plant Science 2013, 212:26-36
  • Cavanagh CR, Chao S, Wang S, Huang BE, Stephen S, Kiani S, Forrest K, Saintenac C, Brown-Guedira GL, Akhunova A, See D, Bai G, Pumphrey M, Tomar L, Wong D, Kong S, Reynolds M, da Silva ML, Bockelman H, Talbert L, Anderson JA, Dreisigacker S, Baenziger S, Carter A, Korzun V, Morrell PL, Dubcovsky J, Morell MK, Sorrells ME, Hayden MJ, Akhunov E. Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars. Proc Natl Acad Sci USA 2013, 110:8057-8062
  • Akhunov E, Sehgal S, Liang H, Wang S, Akhunova A, Kaur G, Li W, Forrest K, See D, Šimková H, Ma Y, Hayden M, Luo M, Faris J, Dolezel J, Gill B. Comparative analysis of syntenic genes in grass genomes reveals accelerated rates of gene structure and coding sequence evolution in polyploid wheat. Plant Physiol. 2013, 161:252-265
  • Akhunov E, Chao S, Saintenac C, Kiani S, See D, Brown-Guedira G, Sorrells M, Akhunova A, Dubcovsky J, Cavanagh C, Hayden M. High-throughput approaches to genome-wide analysis of genetic variation in polyploid wheat. Canadian J. of Plant Science 2012, 92:596-596.
  • Akhunov ED, Akhunova AR, Anderson OD, Anderson JA, Blake N, Clegg MT, Coleman-Derr D, Conley EJ, Crossman CC, Deal KR, Dubcovsky J, Gill BS, Gu YQ, Hadam J, Heo HY, Huo N, Lazo GR, Luo MC, Ma YQ, Matthews DE, McGuire PE, Morrell P, Qualset CO, Renfro J, Tabanao D, Talbert LE, Tian C, Toleno D, Warburton M, You FM, Zhang W, Dvorak J. Nucleotide diversity maps reveal variation in diversity among wheat genomes and chromosomes. BMC Genomics 2010, 11:702.
  • Akhunova AR, Matniyazov RT, Liang H, Akhunov ED. Homoeolog-specific transcriptional bias in allopolyploid wheat. BMC Genomics 2010, 11:505
  • Luo MC, Deal KR, Akhunov ED, Akhunova AR, Anderson OD, Anderson JA, Blake N, Clegg MT, Coleman-Derr D, Conley EJ, Crossman CC, Dubcovsky J, Gill BS, Gu YQ, Hadam J, Heo HY, Huo N, Lazo G, Ma Y, Matthews DE, McGuire PE, Morrell PL, Qualset CO, Renfro J, Tabanao D, Talbert LE, Tian C, Toleno DM, Warburton ML, You FM, Zhang W, Dvorak J. Genome Comparisons Reveal a Dominant Mechanism of Chromosome Number Reduction in Grasses and Accelerated Genome Evolution in Triticeae. Proc Natl Acad Sci USA 2009, 106:15780-15785
  • Akhunov ED, Akhunova AR, Dvorak J. Mechanisms and Rates of Birth and Death of Dispersed Duplicated Genes during the Evolution of a Multigene Family in Diploid and Tetraploid Wheats. Mol Biol Evol 2007, 24:539-550
  • Dvorak J, Akhunov ED, Akhunova AR, Deal KR, Luo MC. Molecular Characterization of a Diagnostic DNA Marker for Domesticated Tetraploid Wheat Provides Evidence for Gene Flow from Wild Tetraploid Wheat to Hexaploid Wheat. Mol Biol Evol 2006, 23:1386-1396
  • Akhunov ED, Akhunova AR, Dvorak J. BAC libraries of Triticum urartu, Aegilops speltoides and Ae.Tauschii, the diploid ancestors of polyploidy wheat. Theor. Appl. Genet. 2005, 111:1617-1622
  • Akhunov E D, Akhunova AR, Linkiewicz AM, Dubcovsky J, Hummel D, Lazo G, Chao S, Anderson OD, David J, Qi L, Echalier B, Gill BS, Miftahudin, Gustafson JP, La Rota CM, Sorrells ME, Zhang D, Nguyen HT, Kalavacharla V, Hossain K, Kianian SF, Peng J, Lapitan NLV, Wennerlind EJ, Nduati V, Anderson JA, Sidhu D, Gill KS, McGuire PE, Qualset CO, Dvorak J. Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates along chromosome arms. Proc Natl Acad Sci USA 2003, 100:10836-10841

Research Emphasis

Collaborate with scientists on design and execution of genomics experiments, identify emerging technologies and introduce them to the KSU genomics research community.


  • Gene Expression
  • Genomics
  • Molecular Biology

Staff & Students

  • Sarah Bastian - Research Assistant
  • Samantha Elledge - Research Assistant


  • PLPTH780 – Gene Expression Analysis Workshop. Summer.
  • PLPTH785 – Real-Time PCR Workshop. Summer.