Epernicus: Jianxin Ma, Ph.D.

Jianxin Ma, Ph.D.

Position:
Assistant Professor

Agronomy

Genomics Facility

Purdue University (West Lafayette, IN)
Degrees:

Ph.D., Plant Genetics & Breeding, CAAS
Past Advisors:

Scott Jackson (as Senior Scientist)

Jeffrey L Bennetzen (as Post Doctoral Fellow)

Yushen Dong (as Graduate Student - Ph.D.)

Jizeng Jia (as Graduate Student - Masters)
Research:
Other Experience:
2006-2007 Research Assistant Professor

2005-2006 Research Geneticist

Communities:

Jianxin Ma's Genealogy

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Jianxin Ma's Publications (25)

Bifurcation and enhancement of autonomous-nonautonomous retrotransposon partnership through LTR Swapping in soybean.
Du J, Tian Z, Bowen NJ, Schmutz J, Shoemaker RC, Ma J

The Plant cell. 2010 Jan;22(1):48-61
Genome sequence of the palaeopolyploid soybean.
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, Goodstein D, Barry K, Futrell-Griggs M, Abernathy B, Du J, Tian Z, Zhu L, Gill N, Joshi T, Libault M, Sethuraman A, Zhang XC, Shinozaki K, Nguyen HT, Wing RA, Cregan P, Specht J, Grimwood J, Rokhsar D, Stacey G, Shoemaker RC, Jackson SA

Nature. 2010 Jan 14;463(7278):178-83
SoyTEdb: a comprehensive database of transposable elements in the soybean genome.
Du J, Grant D, Tian Z, Nelson RT, Zhu L, Shoemaker RC, Ma J

BMC genomics. 2010;11:113
A lineage-specific centromere retrotransposon in Oryza brachyantha.
Gao D, Gill N, Kim HR, Walling JG, Zhang W, Fan C, Yu Y, Ma J, Sanmiguel P, Jiang N, Cheng Z, Wing RA, Jiang J, Jackson SA

The Plant journal : for cell and molecular biology. 2009 Dec;60(5):820-31
Molecular and chromosomal evidence for allopolyploidy in soybean.
Gill N, Findley S, Walling JG, Hans C, Ma J, Doyle J, Stacey G, Jackson SA

Plant physiology. 2009 Nov;151(3):1167-74
Do genetic recombination and gene density shape the pattern of DNA elimination in rice long terminal repeat retrotransposons?
Tian Z, Rizzon C, Du J, Zhu L, Bennetzen JL, Jackson SA, Gaut BS, Ma J

Genome research. 2009 Oct 28
Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains.
Nelson W, Luo M, Ma J, Estep M, Estill J, He R, Talag J, Sisneros N, Kudrna D, Kim H, Ammiraju JS, Collura K, Bharti AK, Messing J, Wing RA, Sanmiguel P, Bennetzen JL, Soderlund C

BMC genomics. 2008;9:621
Evolutionary dynamics of an ancient retrotransposon family provides insights into evolution of genome size in the genus Oryza.
Ammiraju JS, Zuccolo A, Yu Y, Song X, Piegu B, Chevalier F, Walling JG, Ma J, Talag J, Brar DS, SanMiguel PJ, Jiang N, Jackson SA, Panaud O, Wing RA

The Plant journal : for cell and molecular biology. 2007 Oct;52(2):342-51
Evolutionary history and positional shift of a rice centromere.
Ma J, Wing RA, Bennetzen JL, Jackson SA

Genetics. 2007 Oct;177(2):1217-20
A GeneTrek analysis of the maize genome.
Liu R, Vitte C, Ma J, Mahama AA, Dhliwayo T, Lee M, Bennetzen JL

Proceedings of the National Academy of Sciences of the United States of America. 2007 Jul 10;104(28):11844-9
Plant centromere organization: a dynamic structure with conserved functions.
Ma J, Wing RA, Bennetzen JL, Jackson SA

Trends in genetics : TIG. 2007 Mar;23(3):134-9
Retrotransposon accumulation and satellite amplification mediated by segmental duplication facilitate centromere expansion in rice.
Ma J, Jackson SA

Genome research. 2006 Feb;16(2):251-9
Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice.
Ma J, Bennetzen JL

Proceedings of the National Academy of Sciences of the United States of America. 2006 Jan 10;103(2):383-8
Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat.
Devos KM, Ma J, Pontaroli AC, Pratt LH, Bennetzen JL

Proceedings of the National Academy of Sciences of the United States of America. 2005 Dec 27;102(52):19243-8
Gene enrichment in maize with hypomethylated partial restriction (HMPR) libraries.
Emberton J, Ma J, Yuan Y, SanMiguel P, Bennetzen JL

Genome research. 2005 Oct;15(10):1441-6
DNA rearrangement in orthologous orp regions of the maize, rice and sorghum genomes.
Ma J, SanMiguel P, Lai J, Messing J, Bennetzen JL

Genetics. 2005 Jul;170(3):1209-20
Mechanisms of recent genome size variation in flowering plants.
Bennetzen JL, Ma J, Devos KM

Annals of botany. 2005 Jan;95(1):127-32
Consistent over-estimation of gene number in complex plant genomes.
Bennetzen JL, Coleman C, Liu R, Ma J, Ramakrishna W

Current opinion in plant biology. 2004 Dec;7(6):732-6
Close split of sorghum and maize genome progenitors.
Swigonová Z, Lai J, Ma J, Ramakrishna W, Llaca V, Bennetzen JL, Messing J

Genome research. 2004 Oct;14(10A):1916-23
Gene loss and movement in the maize genome.
Lai J, Ma J, Swigonová Z, Ramakrishna W, Linton E, Llaca V, Tanyolac B, Park YJ, Jeong OY, Bennetzen JL, Messing J

Genome research. 2004 Oct;14(10A):1924-31
Rapid recent growth and divergence of rice nuclear genomes.
Ma J, Bennetzen JL

Proceedings of the National Academy of Sciences of the United States of America. 2004 Aug 24;101(34):12404-10
Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice.
Ma J, Devos KM, Bennetzen JL

Genome research. 2004 May;14(5):860-9
On the tetraploid origin of the maize genome.
Swigonova Z, Lai J, Ma J, Ramakrishna W, Llaca V, Bennetzen JL, Messing J

Comparative and functional genomics. 2004;5(3):281-4
The genetic colinearity of rice and other cereals on the basis of genomic sequence analysis.
Bennetzen JL, Ma J

Current opinion in plant biology. 2003 Apr;6(2):128-33
Frequent genic rearrangements in two regions of grass genomes identified by comparative sequence analysis.
Ramakrishna W, Ma J, Sanmiguel P, Emberton J, Dubcovsky J, Shiloff BA, Jiang Z, Rostoks N, Busso CS, Ogden M, Linton E, Kleinhofs A, Devos KM, Messing J, Bennetzen JL

Comparative and functional genomics. 2002;3(2):165-6

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Jianxin Ma, Ph.D.

Assistant Professor

Jianxin Ma's Genealogy

Jianxin Ma's Publications (25)