Dr. Jianxin Ma

Purdue University, USA

Email: maj@purdue.edu

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. 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.
2. 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.
3. 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.
4. 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.
5. 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.
6. 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.
7. 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.
8. 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.
9. 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.
10. 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.
11. 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.
12. 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.
13. 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.
14. The International Brachypodium Initiative. 2010. Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463: 763-768
15. 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.
16. 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.
17. 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.
18. 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.
19. Gao D, Gill N, Kim H-R, Walling J, Zhang W, Fan C, Yu Y, Ma J, SanMiguel 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.
20. 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.