Biography

Dr. Jianxin Ma

Purdue University, USA


Email: [email protected]


Qualifications

2005 Postdoc., Purdue University, USA

1999 Ph.D., Plant Genetics & Breeding, Chinese Academy of Agricultural Sciences, China

1996 M.S., Plant Genetics & Breeding, Chinese Academy of Agricultural Sciences, China

1993 B.S., Crop Sciences, Laiyang Agricultural College, China


Publications (Selected)

  1. Clark, C.B., Zhang, D., Wang, W. and Ma, J., 2023. Identification and mapping of a recessive allele, dt3, specifying semideterminate stem growth habit in soybean. Theoretical and Applied Genetics, 136(12), p.258.
  2. Clark, C.B., Wang, W., Wang, Y., Fear, G.J., Wen, Z., Wang, D., Ren, B. and Ma, J., 2022. Identification and molecular mapping of a major quantitative trait locus underlying branch angle in soybean. Theoretical and Applied Genetics, pp.1-8.
  3. Zhuang, Y., Wang, X., Li, X., Hu, J., Fan, L., Jackson, S., Doyle, J., Zhang, X.S., Zhang, D*. and Ma, J*., 2022. Phylogenomics of the genus Glycine sheds light on polyploid evolution and life-strategy transition. Nature Plants, 8: 233-244.
  4. Clark, C.B., Wang, W., Wang, Y., Fear, G.J., Wen, Z., Wang, D., Ren, B. and Ma, J., 2021. Identification and molecular mapping of a major quantitative trait locus underlying branch angle in soybean. Theor. Appl. Genet. https://doi.org/10.1007/s00122-021-03995-9
  5. Wang, W., Chen, L., Fengler, K., Bolar, J., Llaca, V., Wang, X., Clark, C., Fleury, T., Myrvold, J. and Oneal, D., van Dyk, D., Hudson, A., Munkvold, J., Baumgarten, A., Thompson, J., Cai, G., Crasta, C., Aggarwal, R., and Ma, J.*, 2021. A giant chimeric NLR gene confers extreme broad-spectrum resistance to a plant pathogen. Nature Communications. 10.21203/rs.3.rs-654548/v1
  6. Chen, L., Wang, W., Ping, J, Fitzgerald, J.C., Cai, G., Clark, C.C., Aggarwal R., and Ma, J.* 2021. Identification and molecular mapping of Rps14, a gene conferring broad-spectrum resistance to Phytophthora sojae in soybean. Theor. Appl. Genet. https://doi.org/10.1007/s00122-021-03933-9
  7. Li, S., Wang, X., Xu, W., Liu, T., Cai, C., Chen, L., Clark, C.B. and Ma, J.*, 2021. Unidirectional movement of small RNAs from shoots to roots in interspecific heterografts. Nature Plants, 7(1): 50-59. doi: 10.1038/s41477-020-00829-2
  8. Zhao M, and Ma, J.* 2021. Transposable elements of Brassica, In: The Brassica Genomes, eds. Wang, X., and Liu S. Springer, Wiley-Blackwell, Taylor and Francis, pp77-90.
  9. Yang, Z., Zhang, H., Li, X., Shen, H., Gao, J., Hou, S., Zhang, B., Mayes, S., Bennett, M., Ma, J. and Wu, C., Sui, Y., Han, Y., and Wang, X.* 2020. A mini foxtail millet with an Arabidopsis-like life cycle as a C 4 model system. Nature Plants, 6: 1167-1178.
  10. Ren, B., Wang, X., Duan, J., and Ma, J.* 2019. Rhizobial tRNA-derived small RNAs are signal molecules regulating plant nodulation. Science, 10.1126/science.aav8907.
  11. Zhang, D., Wang, X., Li, S., Wang, C., Gosney, M., Mickelbart, M., and Ma, J.* 2019. A post-domestication mutation Dt2 triggers systemic modification of divergent and convergent pathways modulating multiple agronomic traits in soybean. Mol. Plants. https://doi.org/10.1016/j.molp.2019.05.010
  12. Taylor, M.S., Tornqvist, C.E., Zhao, X., Grabowski, P., Doerge, R., Ma, J., Volenec, J., Evans, J., Ramstein, G., Sanciangco, M. and Buell, C.R., Casler, M.D., and Jiang, Y.*, 2018. Genome-Wide Association Study in Pseudo-F2 Populations of Switchgrass Identifies Genetic Loci Affecting Heading and Anthesis Dates. Front. Plant Sci. 9: 1250.
  13. Li, S., Ding, Y., Zhang, D., Wang, X., Tang, X., Dai, D., Jin, H., Lee, S.H., Cai, C. and Ma*, J. 2018. Parallel domestication with a broad mutational spectrum of determinate stem growth habit in leguminous crops. Plant Journal doi: 10.1111/tpj.14066.
  14. Zhang, D., Zhao, M., Li, S., Sun, L., Wang, W., Cai, C., Dierking, E.C. and Ma, J. 2017. Plasticity and innovation of regulatory mechanisms underlying seed oil content mediated by duplicated genes in the palaeopolyploid soybean. Plant J., 90, pp.1120-1133.
  15. Zhao, M, and Ma, J. 2017. Transposable elements. In: H.T. Nguyen and M.K. Bhattacharyya (eds.), The Soybean Genome, Springer International Publishing, pp171-181.
  16. Li, L., Lin, F., Wang, W., Ping, J., Fitzgerald, J.C., Zhao, M., Li, S., Sun, L., Cai, C., and Ma, J. 2016. Fine mapping and candidate gene analysis of two loci conferring resistance to Phytophthora sojae in soybean. Theor. Appl. Genet.129: 2379-2386.
  17. Sun, L., Miao, Z., Cai, C. Zhang, D., Zhao, M., Wu, Y., Zhang, X., Swarm., S.A., Zhou, L., Zhang, Z.J., Nelson, R.L., and Ma, J.* 2015. GmHs1-1, encoding a calcineurin-like protein, controls hard-seededness in soybean. Nat. Genet. 47: 939-943.
  18. Zhao, M., Meyers, B.C., Cai, C., Xu, W., and Ma, J. 2015. Evolutionary Patterns and Co-evolutionary Consequences of MIRNA Genes and MicroRNA Targets Triggered by Multiple Mechanisms of Genomic Duplications in Soybean. Plant Cell, 27: 546-562.
  19. Cai, C. Xiao, J., Zhao, C, and Ma, J. 2014. Sequence analysis of the coat protein gene of Chinese SMV strain SC7 and comparison with those of SMV strains from the US. Chn. J. Virology 30: 489-494.
  20. Tian Z, Zhao, M, She M, Du J, Cannon SB, Liu X, Xu X, Li M-W, Lam H-M, and Ma J (2012) Genome-wide characterization of non-reference transposons reveals evolutionary propensities of transposons in soybean. Plant Cell24: 4422-4436.
  21. Du J, Tian Z, Sui Y, Zhao M, Song Q, Cannon SB, Cregan P, and Ma J (2012) Pericentromeric effects shape the patterns of divergence, retention, and expression of duplicated genes in the palaeopolyploid soybean (Glycine max(L.). Plant Cell 24: 21-32.
  22. Zhuang X, Köllner T, Zhao N, Li G, Jiang Y, Zhu L, Ma J, Degenhardt J, Chen F  (2012) Dynamic evolution of herbivore-induced sesquiterpene biosynthesis in sorghum and related grass crops. Plant J. 69: 70-80.
  23. Li X, Zhu C, Lin Z, Wu Y, Zhang D, Ma J, Song W, Bai G, Muehlbauer G, Scanlon M, Zhang, M, and Yu J (2011) Conservative boundaries of chromosome size variation in Eukaryotes. Mol. Bio. Evol. 28: 1901-1911.
  24. Tian Z, Yu Y, Lin F, Yu Y-S, SanMiguel P., Wing RA, McCouch S, Ma J, and Jackson SA (2011) Exceptional lability of a genomic complex of rice and its close relatives. BMC Genomics, 12: 142.
  25. Tian Z, Wang X, Lee R, Li Y, Specht J, Nelson R, McClean P, Qiu L, and Ma J (2010) Artificial selection for determinate growth habit in soybean. Proc. Natl. Acad. Sci. USA 107: 8563-8568.
  26. Du J, Tian Z, Schmutz J, Bowen NJ, Shoemaker RC, and Ma J (2010) Bifurcation and enhancement of autonomous-nonautonomous retrotransposon partnership through LTR swapping in soybean. Plant Cell. 22: 48-61.
  27. Kim MY, Lee S, Van K, Kim T-H, Jeong S-C, Choi I-Y, Kim D-S, Lee Y-S, Park D, Ma J, Kim W-Y, Kim B, Park S, Lee K-A, Kim D-H, Kim K-H, Shin J-H, Jang T-E, Kim KD, Liu WX, Chaisan T, Kang YJ, Lee Y-H, Kim K-H, Moon J-K, Schmutz J, Jackson S, Bhak J, and Lee, S-H (2010) Whole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine sojaSieb. and Zucc.) genome. Proc. Natl. Acad. Sci. USA 107: 22032-22037.
  28. Du J, Tian Z, Christian H, Laten H, Jackson S, Cannon S, Shoemaker RC, and Ma J (2010) Evolutionary conservation, diversity and specificity of LTR-retrotransposons in flowering plants: new insights from genome-wide analysis and multi-specific comparison. Plant J. 63: 584-598.
  29. Sanyal A, Jetty ASS, Lu F, Yu Y, Rambo T, Currie J, Kollura K, Kim HR, Chen J, Ma J, SanMiguel P, Chen M, Wing RA, Jackson SA (2010) Orthologous comparisons of the Hd1 region across genera reveal Hd1 gene lability within diploid Oryzaspecies and D dsruptions to microsynteny in sorghumMol. Bio. Evol. 27: 2487-2506.
  30. Du J, Grant D, Tian Z, Nelson RT, Zhu L, Shoemaker RC, and Ma J (2010) SoyTEdb: a comprehensive database of transposable elements in the soybean genome. BMC Genomics 11: 113.
  31. Findley SD, Cannon S, Varala K, Du J, Ma J, Hudson M, Birchler J, and Stacey G (2010) A soybean paint-by-numbers kit: a fluorescence in situ hybridization karyotyping system. Genetics 185: 727-744.
  32. Schmutz J, Cannon SB, Schlueter J, Ma J, Mitros T, Nelson W, Hyten DL, Song Q, Thelen JJ, Cheng J, Xu D, Hellsten U, May GD, Yu Y, Sakurai T, Umezawa T, Bhattacharyya MK, Sandhu D, Valliyodan B, Lindquist E, Peto M, Grant D, Shu S, Goodtsein D, Barry K, Futrell-Griggs M, Abernathy B, Du J, Tian Z, Zhu L, Gill N, Joshi T, Libault M, Sethuraman A, Zhang X-C, Shinozaki K, Nguyen HT, Wing R, Cregan P, Specht J, Grimwood J, Rokhsar D, Stacy G, Shoemaker RC, and Jackson SA (2010) Genome sequence of the paleopolyploid soybean (Glycine max(L.) Merr.). Nature 463: 178-183.
  33. The International Brachypodium Initiative. 2010. Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463: 763-768
  34. Tian Z, Rizzon C, Du J, Liu Z, Bennetzen JL, Gaut B, Jackson SA,and Ma J (2009) Do genetic recombination and gene density shape the pattern of DNA elimination in rice LTR-retrotransposons? Genome Res. 19:2221-2230.
  35. Gill N, Findley S, Walling JG, Ma J, Stacey G, Doyle JJ, and Jackson SA (2009) Molecular and chromosomal evidence for allopolyploidy in soybean,Glycine max(L.) Merr. Plant Physiol.151:1167-1174.
  36. Ma J, Jackson SA, Cannon S, and Shoemaker RC (2009) Comparative genomics of soybean. In, Bilyeu, K., Ratnaparkhe MB and Kole C (ed), Genetics, Genomics and Breeding in Soybean, Science Publisher, Inc. pp395-410.
  37. Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J. 60:805-819.
  38. Gao D, Gill N, Kim H-R, Walling J, Zhang W, Fan C, Yu Y, Ma J, San Miguel P, Jiang N, Cheng Z, Wing R, Jiang J, and Jackson SA (2009) A lineage-specific centromere retrotransposon in Oryza brachyantha. Plant J. 60:820-831.
  39. Joseph B, Schlueter JA, Du J, Graham MA, Ma J, and Shoemaker RC 2009. Retrotransposons in the intergenic regions of syntenic blocks between soybean and medicago truncatula and their contribution to local genome evolution. Plant Genome 2:211-223.


Personal Profile

https://ag.purdue.edu/department/agry/directory.html#/maj
https://orcid.org/0000-0002-1474-812X
https://scholar.google.com/citations?hl=en&user=hGFwT5sAAAAJ

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