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ARS Home » Southeast Area » New Orleans, Louisiana » Southern Regional Research Center » Cotton Fiber Bioscience Research » People » Marina Naoumkina

Marina Naoumkina

Research Molecular Biologist



Cotton Fiber Bioscience Research Unit

USDA-ARS, Southern Regional Research Center

1100 Robert E. Lee Blvd

New Orleans, LA 70124-4305


link to Google Scholar


      Peer-Reviewed Journal Papers (28)


  1. Zabrodina, M., Khodoun, M., Naumkina, M.A., Khavkin, E. (2000) NBS and LRR homologies of genes of vertical resistance to fungi diseases of annual and perennial rye (Secale L). Doclady RASHN (in Russian), 3:16-18, 2000.
  2. Ivashuta, S., Naumkina, M.A., Gau, M., Uchiyama, K., Isobe, S., Mizukami, Y., Shimamoto, Y. Genotype-dependent transcriptional activation of novel repetitive elements during cold acclimation of alfalfa (Medicago sativa). The Plant Journal. 31(5):615-627, 2002.
  3. Suzuki, H., Reddy, S., Naoumkina, M.A., Aziz, N., May, G., Huhman, D., Sumner, L., Blount, J., Mendes, P., Dixon, R.A. Methyl jasmonate and yeast elicitor induce differential genetic and metabolic re-programming in cell suspension cultures of the model legume Medicago truncatula. Planta, 220:698-707, 2005.
  4. Dixon, R.A., Achnine, L., Deavours, B., Farag, M., Naoumkina, M., Sumner, L.W. Integrated transcript and metabolite profiling for gene discovery in plant natural product pathways. Journal of Biotechnology,118:S143-S143, 2005.
  5. Deavours, B.E., Liu, C.J., Naoumkina, M.A., Tang, Y., Farag, M.A., Sumner, L.W., Noel, J.P. and Dixon, R.A. Functional analysis of members of the isoflavone and isoflavanone O-methyltransferase enzyme families from the model legume Medicago truncatula. Plant Molecular Biology, 62(4-5):715-33, 2006.
  6. Modolo, L., Blount, J.W., Achnine, L., Naoumkina, M.A., Wang, X. and Dixon, R.A. A functional genomics approach to (iso)flavonoid glycosylation in the model legume Medicago truncatula. Plant Molecular Biology, 64, 499-518, 2007.
  7. Naoumkina M., Farag M.A., Sumner L.W., Tang Y., Liu C.J., Dixon R.A. Different mechanisms for phytoalexin induction by pathogen and wound signals in Medicago truncatula. Proceedings of the National Academy of Sciences USA, 104(46):17909-15, 2007.
  8. Naoumkina, M., Torres-Jerez, I., Allen, S., He, J., Zhao, P., Dixon, R.A. and May, G.D. Analysis of cDNA libraries from developing seeds of guar (Cyamopsis tetragonoloba (L.) Taub) BMC Plant Biology, 7(1):62, 2007.
  9. Naoumkina, M.A., He, XZ., and Dixon, R.A. Elicitor-induced transcription factors for metabolic reprogramming of secondary metabolism in Medicago truncatula. BMC Plant Biology, 8(1):132, 2008.
  10. Naoumkina, M., Vaghchhipawala, S., Tang, Y., Ben, Y., Powell, R. and Dixon, R.A. Metabolic and genetic perturbations accompany the modification of galactomannan in seeds of Medicago truncatula expressing mannan synthase from guar (Cyamopsis tetragonoloba). Plant Biotechnology Journal, 6(6):619-31, 2008.
  11. Naoumkina, M.A. and Dixon, R.A. Subcellular Localization of Flavonoid Natural Products - A Signaling Function? Plant Signaling & Behavior, 3(8):573-575, 2008.
  12. Farag, M.A., Deavours, B.E., De-Fatima, M.A., Naoumkina, M.A., Dixon, R.A., and Sumner, L.W. Integrated metabolite and transcript profiling identify a biosynthetic mechanism for hispidol in Medicago truncatula cell cultures. Plant Physiology, 151(3): 1096-1113, 2009.
  13. Naoumkina, M.A., Modolo L.V., Huhman, D., Urbanczyk-Wochniaka, E., Tang, Y., Sumner, L.W., and Dixon, R.A. Genomic and co-expression analyses predict genes involved in triterpene saponin biosynthesis in Medicago truncatula. Plant Cell, 22(3): 850-866, 2010.
  14. Naoumkina, M.A., Zhao, Q., Gallego-Giraldo, L., Dai, X., Zhao, P.X., Dixon, R.A. Genome-wide analysis of phenylpropanoid defence pathways. Molecular plant pathology, 11(6):829-46, 2010.
  15. Naoumkina, M., Dixon, R.A. Characterization of the mannan synthase promoter from guar (Cyamopsis tetragonoloba). Plant Cell Reports, 30(6):997-1006, 2011.
  16. Hinchliffe, D.J., Turley, R.B., Naoumkina, M., Kim, H.J., Tang, Y., Yeater, K.M., Li, P., Fang, D.D. A combined functional and structural genomics approach identified an EST-SSR marker with complete linkage to the Ligon lintless-2 genetic locus in cotton (Gossypium hirsutum). BMC Genomics, 12: 445, 2011.
  17. Young, N.D., Debellé, F., Oldroyd, G.E., Geurts, R., Cannon, S.B., Udvardi, M.K., Benedito, V.A., Mayer, K.F., Gouzy, J., Schoof, H., Van de Peer, Y., Proost, S., Cook, D.R., Meyers, B.C., Spannagl, M., Cheung, F., De Mita, S., Krishnakumar, V., Gundlach, H., Zhou, S., Mudge, J., Bharti, A.K., Murray, J.D., Naoumkina, M.A., Rosen, B., Silverstein, K.A., Tang, H., et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, 480(7378):520-5254, 2011.
  18. Naoumkina, M., Hinchliffe, D.J., Turley, R.B., Bland, J.M., Fang, D.D. Integrated metabolomics and genomics analysis provides new insights into the fiber elongation process in Ligon lintless-2 mutant cotton (Gossypium hirsutum L.). BMC Genomics, 14(1):155, 2013. §Corresponding author.
  19. Gilbert, M.K., Turley, R.B., Kim, H.J., Li, P., Thyssen, G., Tang, Y., Delhom, C.D., Naoumkina, M., Fang, D.D. Transcript profiling by microarray and marker analysis of the short cotton (Gossypium hirsutum ) fiber mutant Ligon lintless-1 (Li1). BMC Genomics,14(1): 403, 2013.
  20. Gilbert, M.K., Bland, J.M., Shockey, J.M., Cao, H., Hinchliffe, D.J., Fang, D.D., Naoumkina, M. Transcript profiling approach reveals an abscisic acid specific glycosyltransferase (UGT73C14) induced in developing fiber of Ligon lintless-2 mutant of cotton (Gossypium hirsutum L.). PLOS ONE | Volume 8 | Issue 9 | e75268, 2013. §Corresponding author.
  21. Naoumkina, M., Thyssen, G., Fang, D.D., Hinchliffe, D.J., Florane, C., Yeater, K.M., Page, J.T., and Udall, J.A. The Li2 Mutation Results in Reduced Subgenome Expression Bias in Elongating Fibers of Allotetraploid Cotton (Gossypium hirsutum L.). PLOS ONE | Volume 9 | Issue 3 | e90830, 2014. §Corresponding author.
  22. Gilbert, M.K., Kim, H.J., Tang, Y., Naoumkina, M., Fang, D.D. Comparative Transcriptome Analysis of Short Fiber Mutants Ligon-Lintless 1 And 2 Reveals Common Mechanisms Pertinent to Fiber Elongation in Cotton (Gossypium hirsutum). PLOS ONE; 18; 9(4):e95554, 2014.
  23. Thyssen, G.N., Song, X., Naoumkina, M., Kim, H.J., Fang, D.D. Independent replication of mitochondrial genes supports the transcriptional program in developing cotton (Gossypium hirsutum) fiber cells. Gene, 544 (1), 41-48, 2014.
  24. Thyssen, G.N., Fang, D.D., Turley, R.B., Florane, C., Li, P., Naoumkina, M. Next generation genetic mapping of the Ligon-lintless-2 (Li2) locus in upland cotton (Gossypium hirsutum L.).Theor Appl Genet. 127:2183–2192, 2014. §Corresponding author.
  25. Naoumkina, M., Thyssen, G.N., Fang, D.D. RNA-seq analysis of short fiber mutants Ligon-lintless-1 (Li1) and – 2 (Li2) revealed important role of aquaporins in cotton (Gossypium hirsutum L.) fiber elongation. BMC Plant Biology, 15:65, 2015. §Corresponding author.
  26. Thyssen, G.N., Fang, D.D., Turley, R.B., Florane, C., Li, P., Naoumkina, M. Mapping-by-sequencing of Ligon-lintless-1 (Li1) reveals a cluster of neighboring genes with correlated expression in developing fibers of Upland cotton (Gossypium hirsutum L.). Theor Appl Genet. 128: 1703-1712, 2015. §Corresponding author.
  27. Naoumkina M, Thyssen GN, Fang DD, Hinchliffe DJ, Florane CB, Jenkins JN. Small RNA sequencing and degradome analysis of developing fibers of short fiber mutants Ligon-lintles-1 (Li1) and -2 (Li2) revealed a role for miRNAs and their targets in cotton fiber elongation. BMC Genomics, 17:360. doi: 10.1186/s12864-016-2715-1, 2016. §Corresponding author.
  28. Hinchliffe DJ, Condon BD, Thyssen GN, Naoumkina M, Madison CA, Reynolds M, Delhom CD, Fang DD, Li P, McCarty J. The GhTT2_A07 gene is linked to the brown colour and natural flame retardancy phenotypes of Lc1 cotton (Gossypium hirsutum) fibres. Journal Experimental Botany, 67(18):5461-5471. 2016.


        Book Chapter (1)

  1. Dixon, R.A., Achnine, L., Deavours, B.E. and Naoumkina, M.A. Metabolomics and gene identification in plant natural product pathways. In: Biotechnology in Agriculture and Forestry, “Plant Metabolomics”, edited by K. Saito, R. A. Dixon and L. Willmitzer, Springer, pp 243-259, 2006 (Peer-Reviewed Book chapter).