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Jianxin Ma - Publications

Affiliations: 
Purdue University, West Lafayette, IN, United States 
Area:
Plant Genetics and Genomics​
Website:
https://ag.purdue.edu/agry/directory/Pages/maj.aspx
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115 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Zhuang Y, Wang X, Li X, Hu J, Fan L, Landis JB, Cannon SB, Grimwood J, Schmutz J, Jackson SA, Doyle JJ, Zhang XS, Zhang D, Ma J. Phylogenomics of the genus Glycine sheds light on polyploid evolution and life-strategy transition. Nature Plants. PMID 35288665 DOI: 10.1038/s41477-022-01102-4  0.456
2021 Clark CB, Wang W, Wang Y, Fear GJ, Wen Z, Wang D, Ren B, Ma J. Identification and molecular mapping of a major quantitative trait locus underlying branch angle in soybean. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 34779894 DOI: 10.1007/s00122-021-03995-9  0.511
2021 Wang W, Chen L, Fengler K, Bolar J, Llaca V, Wang X, Clark CB, Fleury TJ, Myrvold J, Oneal D, van Dyk MM, Hudson A, Munkvold J, Baumgarten A, Thompson J, ... ... Ma J, et al. A giant NLR gene confers broad-spectrum resistance to Phytophthora sojae in soybean. Nature Communications. 12: 6263. PMID 34741017 DOI: 10.1038/s41467-021-26554-8  0.358
2021 Chen L, Wang W, Ping J, Fitzgerald JC, Cai G, Clark CB, Aggarwal R, Ma J. Identification and molecular mapping of Rps14, a gene conferring broad-spectrum resistance to Phytophthora sojae in soybean. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 34370048 DOI: 10.1007/s00122-021-03933-9  0.375
2021 Zhang G, Ge C, Xu P, Wang S, Cheng S, Han Y, Wang Y, Zhuang Y, Hou X, Yu T, Xu X, Deng S, Li Q, Yang Y, Yin X, ... ... Ma J, et al. Author Correction: The reference genome of Miscanthus floridulus illuminates the evolution of Saccharinae. Nature Plants. PMID 34183786 DOI: 10.1038/s41477-021-00972-4  0.368
2021 Zhang G, Ge C, Xu P, Wang S, Cheng S, Han Y, Wang Y, Zhuang Y, Hou X, Yu T, Xu X, Deng S, Li Q, Yang Y, Yin X, ... ... Ma J, et al. Author Correction: The reference genome of Miscanthus floridulus illuminates the evolution of Saccharinae. Nature Plants. PMID 34183786 DOI: 10.1038/s41477-021-00972-4  0.368
2021 Zhang G, Ge C, Xu P, Wang S, Cheng S, Han Y, Wang Y, Zhuang Y, Hou X, Yu T, Xu X, Deng S, Li Q, Yang Y, Yin X, ... ... Ma J, et al. Publisher Correction: The reference genome of Miscanthus floridulus illuminates the evolution of Saccharinae. Nature Plants. PMID 34183785 DOI: 10.1038/s41477-021-00968-0  0.382
2021 Zhang G, Ge C, Xu P, Wang S, Cheng S, Han Y, Wang Y, Zhuang Y, Hou X, Yu T, Xu X, Deng S, Li Q, Yang Y, Yin X, ... ... Ma J, et al. Publisher Correction: The reference genome of Miscanthus floridulus illuminates the evolution of Saccharinae. Nature Plants. PMID 34183785 DOI: 10.1038/s41477-021-00968-0  0.382
2021 Zhang G, Ge C, Xu P, Wang S, Cheng S, Han Y, Wang Y, Zhuang Y, Hou X, Yu T, Xu X, Deng S, Li Q, Yang Y, Yin X, ... ... Ma J, et al. The reference genome of Miscanthus floridulus illuminates the evolution of Saccharinae. Nature Plants. PMID 33958777 DOI: 10.1038/s41477-021-00908-y  0.452
2021 Zhang G, Ge C, Xu P, Wang S, Cheng S, Han Y, Wang Y, Zhuang Y, Hou X, Yu T, Xu X, Deng S, Li Q, Yang Y, Yin X, ... ... Ma J, et al. The reference genome of Miscanthus floridulus illuminates the evolution of Saccharinae. Nature Plants. PMID 33958777 DOI: 10.1038/s41477-021-00908-y  0.452
2020 Liu B, Iwata-Otsubo A, Yang D, Baker RL, Liang C, Jackson SA, Liu S, Ma J, Zhao M. Analysis of CACTA transposase genes unveils the mechanism of intron loss and distinct small RNA silencing pathways underlying divergent evolution of Brassica genomes. The Plant Journal : For Cell and Molecular Biology. PMID 33098166 DOI: 10.1111/tpj.15037  0.39
2020 Liu B, Iwata-Otsubo A, Yang D, Baker RL, Liang C, Jackson SA, Liu S, Ma J, Zhao M. Analysis of CACTA transposase genes unveils the mechanism of intron loss and distinct small RNA silencing pathways underlying divergent evolution of Brassica genomes. The Plant Journal : For Cell and Molecular Biology. PMID 33098166 DOI: 10.1111/tpj.15037  0.39
2020 Yang Z, Zhang H, Li X, Shen H, Gao J, Hou S, Zhang B, Mayes S, Bennett M, Ma J, Wu C, Sui Y, Han Y, Wang X. A mini foxtail millet with an Arabidopsis-like life cycle as a C model system. Nature Plants. PMID 32868891 DOI: 10.1038/s41477-020-0747-7  0.361
2020 Yang Z, Zhang H, Li X, Shen H, Gao J, Hou S, Zhang B, Mayes S, Bennett M, Ma J, Wu C, Sui Y, Han Y, Wang X. A mini foxtail millet with an Arabidopsis-like life cycle as a C model system. Nature Plants. PMID 32868891 DOI: 10.1038/s41477-020-0747-7  0.361
2019 Ren B, Wang X, Duan J, Ma J. Rhizobial tRNA-derived small RNAs are signal molecules regulating plant nodulation. Science (New York, N.Y.). PMID 31346137 DOI: 10.1126/science.aav8907  0.459
2019 Ren B, Wang X, Duan J, Ma J. Rhizobial tRNA-derived small RNAs are signal molecules regulating plant nodulation. Science (New York, N.Y.). PMID 31346137 DOI: 10.1126/science.aav8907  0.459
2019 Zhang D, Wang X, Li S, Wang C, Gosney MJ, Mickelbart MV, Ma J. A Post-domestication Mutation Dt2 Triggers Systemic Modification of Divergent and Convergent Pathways Modulating Multiple Agronomic Traits in Soybean. Molecular Plant. PMID 31152912 DOI: 10.1016/J.Molp.2019.05.010  0.308
2019 Zhang D, Wang X, Li S, Wang C, Gosney MJ, Mickelbart MV, Ma J. A Post-domestication Mutation Dt2 Triggers Systemic Modification of Divergent and Convergent Pathways Modulating Multiple Agronomic Traits in Soybean. Molecular Plant. PMID 31152912 DOI: 10.1016/J.Molp.2019.05.010  0.308
2018 Zhao M, Zhang B, Ma J, Lisch D. Genome-wide Estimation of Evolutionary Distance and Phylogenetic Analysis of Homologous Genes. Bio-Protocol. 8: e3097. PMID 34532544 DOI: 10.21769/BioProtoc.3097  0.472
2018 Taylor M, Tornqvist CE, Zhao X, Grabowski P, Doerge R, Ma J, Volenec J, Evans J, Ramstein GP, Sanciangco MD, Buell CR, Casler MD, Jiang Y. Genome-Wide Association Study in Pseudo-F Populations of Switchgrass Identifies Genetic Loci Affecting Heading and Anthesis Dates. Frontiers in Plant Science. 9: 1250. PMID 30271414 DOI: 10.3389/Fpls.2018.01250  0.333
2018 Zhang D, Sun L, Li S, Wang W, Ding Y, Swarm SA, Li L, Wang X, Tang X, Zhang Z, Tian Z, Brown PJ, Cai C, Nelson RL, Ma J. Elevation of soybean seed oil content through selection for seed coat shininess. Nature Plants. PMID 29292374 DOI: 10.1038/S41477-017-0084-7  0.547
2018 Zhang D, Sun L, Li S, Wang W, Ding Y, Swarm SA, Li L, Wang X, Tang X, Zhang Z, Tian Z, Brown PJ, Cai C, Nelson RL, Ma J. Elevation of soybean seed oil content through selection for seed coat shininess. Nature Plants. PMID 29292374 DOI: 10.1038/S41477-017-0084-7  0.547
2018 Zhao M, Zhang B, Ma J, Lisch D. Genome-wide Estimation of Evolutionary Distance and Phylogenetic Analysis of Homologous Genes Bio-Protocol. 8. DOI: 10.21769/bioprotoc.3097  0.467
2017 Zhao M, Zhang B, Lisch D, Ma J. Patterns and Consequences of Subgenome Differentiation Provide Insights into the Nature of Paleopolyploidy in Plants. The Plant Cell. 29: 2974-2994. PMID 29180596 DOI: 10.1105/Tpc.17.00595  0.491
2017 Zhao M, Zhang B, Lisch D, Ma J. Patterns and Consequences of Subgenome Differentiation Provide Insights into the Nature of Paleopolyploidy in Plants. The Plant Cell. 29: 2974-2994. PMID 29180596 DOI: 10.1105/Tpc.17.00595  0.491
2017 Gao J, Yang S, Cheng W, Fu Y, Leng J, Yuan X, Jiang N, Ma J, Feng X. GmILPA1, Encoding an anaphase-promoting complex-like Protein, affects Leaf Petiole Angle. Plant Physiology. PMID 28336772 DOI: 10.1104/Pp.16.00074  0.31
2017 Gao J, Yang S, Cheng W, Fu Y, Leng J, Yuan X, Jiang N, Ma J, Feng X. GmILPA1, Encoding an anaphase-promoting complex-like Protein, affects Leaf Petiole Angle. Plant Physiology. PMID 28336772 DOI: 10.1104/Pp.16.00074  0.31
2017 Zhang D, Zhao M, Li S, Sun L, Wang W, Cai C, Dierking EC, Ma J. Plasticity and innovation of regulatory mechanisms underlying seed oil content mediated by duplicated genes in the palaeopolyploid soybean. The Plant Journal : For Cell and Molecular Biology. PMID 28295817 DOI: 10.1111/tpj.13533  0.338
2017 Zhang D, Zhao M, Li S, Sun L, Wang W, Cai C, Dierking EC, Ma J. Plasticity and innovation of regulatory mechanisms underlying seed oil content mediated by duplicated genes in the palaeopolyploid soybean. The Plant Journal : For Cell and Molecular Biology. PMID 28295817 DOI: 10.1111/tpj.13533  0.338
2016 Li L, Lin F, Wang W, Ping J, Fitzgerald JC, Zhao M, Li S, Sun L, Cai C, Ma J. Fine mapping and candidate gene analysis of two loci conferring resistance to Phytophthora sojae in soybean. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 27591777 DOI: 10.1007/s00122-016-2777-0  0.459
2016 Li L, Lin F, Wang W, Ping J, Fitzgerald JC, Zhao M, Li S, Sun L, Cai C, Ma J. Fine mapping and candidate gene analysis of two loci conferring resistance to Phytophthora sojae in soybean. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 27591777 DOI: 10.1007/s00122-016-2777-0  0.459
2015 Ping J, Fitzgerald JC, Zhang C, Lin F, Bai Y, Wang D, Aggarwal R, Rehman M, Crasta O, Ma J. Identification and molecular mapping of Rps11, a novel gene conferring resistance to Phytophthora sojae in soybean. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 26660465 DOI: 10.1007/S00122-015-2638-2  0.334
2015 Ping J, Fitzgerald JC, Zhang C, Lin F, Bai Y, Wang D, Aggarwal R, Rehman M, Crasta O, Ma J. Identification and molecular mapping of Rps11, a novel gene conferring resistance to Phytophthora sojae in soybean. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. PMID 26660465 DOI: 10.1007/S00122-015-2638-2  0.334
2015 Wang Z, Zhou Z, Liu Y, Liu T, Li Q, Ji Y, Li C, Fang C, Wang M, Wu M, Shen Y, Tang T, Ma J, Tian Z. Functional evolution of phosphatidylethanolamine binding proteins in soybean and Arabidopsis. The Plant Cell. 27: 323-36. PMID 25663621 DOI: 10.1105/tpc.114.135103  0.632
2015 Wang Z, Zhou Z, Liu Y, Liu T, Li Q, Ji Y, Li C, Fang C, Wang M, Wu M, Shen Y, Tang T, Ma J, Tian Z. Functional evolution of phosphatidylethanolamine binding proteins in soybean and Arabidopsis. The Plant Cell. 27: 323-36. PMID 25663621 DOI: 10.1105/tpc.114.135103  0.632
2014 Li YH, Zhou G, Ma J, Jiang W, Jin LG, Zhang Z, Guo Y, Zhang J, Sui Y, Zheng L, Zhang SS, Zuo Q, Shi XH, Li YF, Zhang WK, et al. De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits. Nature Biotechnology. 32: 1045-52. PMID 25218520 DOI: 10.1038/Nbt.2979  0.512
2014 Chalhoub B, Denoeud F, Liu S, Parkin IA, Tang H, Wang X, Chiquet J, Belcram H, Tong C, Samans B, Corréa M, Da Silva C, Just J, Falentin C, Koh CS, ... ... Ma J, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science (New York, N.Y.). 345: 950-3. PMID 25146293 DOI: 10.1126/Science.1253435  0.463
2014 Ping J, Liu Y, Sun L, Zhao M, Li Y, She M, Sui Y, Lin F, Liu X, Tang Z, Nguyen H, Tian Z, Qiu L, Nelson RL, Clemente TE, ... ... Ma J, et al. Dt2 is a gain-of-function MADS-domain factor gene that specifies semideterminacy in soybean. The Plant Cell. 26: 2831-42. PMID 25005919 DOI: 10.1105/tpc.114.126938  0.643
2014 Ping J, Liu Y, Sun L, Zhao M, Li Y, She M, Sui Y, Lin F, Liu X, Tang Z, Nguyen H, Tian Z, Qiu L, Nelson RL, Clemente TE, ... ... Ma J, et al. Dt2 is a gain-of-function MADS-domain factor gene that specifies semideterminacy in soybean. The Plant Cell. 26: 2831-42. PMID 25005919 DOI: 10.1105/tpc.114.126938  0.643
2014 Liu S, Liu Y, Yang X, Tong C, Edwards D, Parkin IA, Zhao M, Ma J, Yu J, Huang S, Wang X, Wang J, Lu K, Fang Z, Bancroft I, et al. The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes. Nature Communications. 5: 3930. PMID 24852848 DOI: 10.1038/Ncomms4930  0.413
2014 Chalhoub B, Denoeud F, Liu S, Parkin IAP, Tang H, Wang X, Chiquet J, Belcram H, Tong C, Samans B, Corréa M, Silva CD, Just J, Falentin C, Koh CS, ... ... Ma J, et al. Erratum: Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome (Science (2014) 345:6199 (950-953)) Science. 345. DOI: 10.1126/Science.1260782  0.344
2013 Li YH, Zhao SC, Ma JX, Li D, Yan L, Li J, Qi XT, Guo XS, Zhang L, He WM, Chang RZ, Liang QS, Guo Y, Ye C, Wang XB, et al. Molecular footprints of domestication and improvement in soybean revealed by whole genome re-sequencing. Bmc Genomics. 14: 579. PMID 23984715 DOI: 10.1186/1471-2164-14-579  0.501
2013 Zhao MX, Zhang B, Liu SY, Ma JX. [Transposon expression and potential effects on gene regulation of Brassica rapa and B. oleracea genomes]. Yi Chuan = Hereditas / Zhongguo Yi Chuan Xue Hui Bian Ji. 35: 1014-22. PMID 23956090 DOI: 10.3724/SP.J.1005.2013.01014  0.507
2013 Zhao M, Du J, Lin F, Tong C, Yu J, Huang S, Wang X, Liu S, Ma J. Shifts in the evolutionary rate and intensity of purifying selection between two Brassica genomes revealed by analyses of orthologous transposons and relics of a whole genome triplication Plant Journal. 76: 211-222. PMID 23869625 DOI: 10.1111/tpj.12291  0.509
2013 Zhao M, Ma J. Co-evolution of plant LTR-retrotransposons and their host genomes. Protein & Cell. 4: 493-501. PMID 23794032 DOI: 10.1007/s13238-013-3037-6  0.498
2013 Zhao M, Ma J. Co-evolution of plant LTR-retrotransposons and their host genomes. Protein & Cell. 4: 493-501. PMID 23794032 DOI: 10.1007/s13238-013-3037-6  0.498
2013 Motamayor JC, Mockaitis K, Schmutz J, Haiminen N, Livingstone D, Cornejo O, Findley SD, Zheng P, Utro F, Royaert S, Saski C, Jenkins J, Podicheti R, Zhao M, Scheffler BE, ... ... Ma J, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biology. 14: r53. PMID 23731509 DOI: 10.1186/Gb-2013-14-6-R53  0.535
2013 Lin F, Zhao M, Ping J, Johnson A, Zhang B, Abney TS, Hughes TJ, Ma J. Molecular mapping of two genes conferring resistance to Phytophthora sojae in a soybean landrace PI 567139B. Tag. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik. 126: 2177-85. PMID 23689748 DOI: 10.1007/s00122-013-2127-4  0.333
2012 Tian Z, Zhao M, She M, Du J, Cannon SB, Liu X, Xu X, Qi X, Li MW, Lam HM, Ma J. Genome-wide characterization of nonreference transposons reveals evolutionary propensities of transposons in soybean. The Plant Cell. 24: 4422-36. PMID 23175746 DOI: 10.1105/Tpc.112.103630  0.714
2012 Tian Z, Zhao M, She M, Du J, Cannon SB, Liu X, Xu X, Qi X, Li MW, Lam HM, Ma J. Genome-wide characterization of nonreference transposons reveals evolutionary propensities of transposons in soybean. The Plant Cell. 24: 4422-36. PMID 23175746 DOI: 10.1105/Tpc.112.103630  0.714
2012 Du J, Tian Z, Sui Y, Zhao M, Song Q, Cannon SB, Cregan P, Ma J. Pericentromeric effects shape the patterns of divergence, retention, and expression of duplicated genes in the paleopolyploid soybean. The Plant Cell. 24: 21-32. PMID 22227891 DOI: 10.1105/Tpc.111.092759  0.715
2012 Du J, Tian Z, Sui Y, Zhao M, Song Q, Cannon SB, Cregan P, Ma J. Pericentromeric effects shape the patterns of divergence, retention, and expression of duplicated genes in the paleopolyploid soybean. The Plant Cell. 24: 21-32. PMID 22227891 DOI: 10.1105/Tpc.111.092759  0.715
2012 Zhuang X, Köllner TG, Zhao N, Li G, Jiang Y, Zhu L, Ma J, Degenhardt J, Chen F. Dynamic evolution of herbivore-induced sesquiterpene biosynthesis in sorghum and related grass crops. The Plant Journal : For Cell and Molecular Biology. 69: 70-80. PMID 21880075 DOI: 10.1111/j.1365-313X.2011.04771.x  0.387
2012 Zhuang X, Köllner TG, Zhao N, Li G, Jiang Y, Zhu L, Ma J, Degenhardt J, Chen F. Dynamic evolution of herbivore-induced sesquiterpene biosynthesis in sorghum and related grass crops. The Plant Journal : For Cell and Molecular Biology. 69: 70-80. PMID 21880075 DOI: 10.1111/j.1365-313X.2011.04771.x  0.387
2011 Tian Z, Yu Y, Lin F, Yu Y, Sanmiguel PJ, Wing RA, McCouch SR, Ma J, Jackson SA. Exceptional lability of a genomic complex in rice and its close relatives revealed by interspecific and intraspecific comparison and population analysis. Bmc Genomics. 12: 142. PMID 21385395 DOI: 10.1186/1471-2164-12-142  0.706
2011 Tian Z, Yu Y, Lin F, Yu Y, Sanmiguel PJ, Wing RA, McCouch SR, Ma J, Jackson SA. Exceptional lability of a genomic complex in rice and its close relatives revealed by interspecific and intraspecific comparison and population analysis. Bmc Genomics. 12: 142. PMID 21385395 DOI: 10.1186/1471-2164-12-142  0.706
2011 Li X, Zhu C, Lin Z, Wu Y, Zhang D, Bai G, Song W, Ma J, Muehlbauer GJ, Scanlon MJ, Zhang M, Yu J. Chromosome size in diploid eukaryotic species centers on the average length with a conserved boundary. Molecular Biology and Evolution. 28: 1901-11. PMID 21239390 DOI: 10.1093/Molbev/Msr011  0.321
2010 Kim MY, Lee S, Van K, Kim TH, Jeong SC, Choi IY, Kim DS, Lee YS, Park D, Ma J, Kim WY, Kim BC, Park S, Lee KA, Kim DH, et al. Whole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb. and Zucc.) genome. Proceedings of the National Academy of Sciences of the United States of America. 107: 22032-7. PMID 21131573 DOI: 10.1073/Pnas.1009526107  0.418
2010 Du J, Tian Z, Hans CS, Laten HM, Cannon SB, Jackson SA, Shoemaker RC, Ma J. Evolutionary conservation, diversity and specificity of LTR-retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison. The Plant Journal : For Cell and Molecular Biology. 63: 584-98. PMID 20525006 DOI: 10.1111/J.1365-313X.2010.04263.X  0.704
2010 Du J, Tian Z, Hans CS, Laten HM, Cannon SB, Jackson SA, Shoemaker RC, Ma J. Evolutionary conservation, diversity and specificity of LTR-retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison. The Plant Journal : For Cell and Molecular Biology. 63: 584-98. PMID 20525006 DOI: 10.1111/J.1365-313X.2010.04263.X  0.704
2010 Sanyal A, Ammiraju JS, Lu F, Yu Y, Rambo T, Currie J, Kollura K, Kim HR, Chen J, Ma J, San Miguel P, Mingsheng C, Wing RA, Jackson SA. Orthologous comparisons of the Hd1 region across genera reveal Hd1 gene lability within diploid Oryza species and disruptions to microsynteny in Sorghum. Molecular Biology and Evolution. 27: 2487-506. PMID 20522726 DOI: 10.1093/Molbev/Msq133  0.438
2010 Tian Z, Wang X, Lee R, Li Y, Specht JE, Nelson RL, McClean PE, Qiu L, Ma J. Artificial selection for determinate growth habit in soybean. Proceedings of the National Academy of Sciences of the United States of America. 107: 8563-8. PMID 20421496 DOI: 10.1073/pnas.1000088107  0.655
2010 Tian Z, Wang X, Lee R, Li Y, Specht JE, Nelson RL, McClean PE, Qiu L, Ma J. Artificial selection for determinate growth habit in soybean. Proceedings of the National Academy of Sciences of the United States of America. 107: 8563-8. PMID 20421496 DOI: 10.1073/pnas.1000088107  0.655
2010 Du J, Grant D, Tian Z, Nelson RT, Zhu L, Shoemaker RC, Ma J. SoyTEdb: a comprehensive database of transposable elements in the soybean genome. Bmc Genomics. 11: 113. PMID 20163715 DOI: 10.1186/1471-2164-11-113  0.741
2010 Du J, Grant D, Tian Z, Nelson RT, Zhu L, Shoemaker RC, Ma J. SoyTEdb: a comprehensive database of transposable elements in the soybean genome. Bmc Genomics. 11: 113. PMID 20163715 DOI: 10.1186/1471-2164-11-113  0.741
2010 Du J, Tian Z, Bowen NJ, Schmutz J, Shoemaker RC, Ma J. Bifurcation and enhancement of autonomous-nonautonomous retrotransposon partnership through LTR Swapping in soybean. The Plant Cell. 22: 48-61. PMID 20081112 DOI: 10.1105/Tpc.109.068775  0.678
2010 Du J, Tian Z, Bowen NJ, Schmutz J, Shoemaker RC, Ma J. Bifurcation and enhancement of autonomous-nonautonomous retrotransposon partnership through LTR Swapping in soybean. The Plant Cell. 22: 48-61. PMID 20081112 DOI: 10.1105/Tpc.109.068775  0.678
2010 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, et al. Genome sequence of the palaeopolyploid soybean. Nature. 463: 178-83. PMID 20075913 DOI: 10.1038/Nature08670  0.76
2010 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, et al. Genome sequence of the palaeopolyploid soybean. Nature. 463: 178-83. PMID 20075913 DOI: 10.1038/Nature08670  0.76
2010 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, et al. Erratum: Genome sequence of the palaeopolyploid soybean Nature. 465: 120-120. DOI: 10.1038/Nature08957  0.7
2009 Tian Z, Rizzon C, Du J, Zhu L, Bennetzen JL, Jackson SA, Gaut BS, Ma J. Do genetic recombination and gene density shape the pattern of DNA elimination in rice long terminal repeat retrotransposons? Genome Research. 19: 2221-30. PMID 19789376 DOI: 10.1101/Gr.083899.108  0.787
2009 Tian Z, Rizzon C, Du J, Zhu L, Bennetzen JL, Jackson SA, Gaut BS, Ma J. Do genetic recombination and gene density shape the pattern of DNA elimination in rice long terminal repeat retrotransposons? Genome Research. 19: 2221-30. PMID 19789376 DOI: 10.1101/Gr.083899.108  0.787
2009 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, ... ... Ma J, et al. Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. The Plant Journal : For Cell and Molecular Biology. 60: 805-19. PMID 19702669 DOI: 10.1111/j.1365-313X.2009.04002.x  0.725
2009 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, ... ... Ma J, et al. Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. The Plant Journal : For Cell and Molecular Biology. 60: 805-19. PMID 19702669 DOI: 10.1111/j.1365-313X.2009.04002.x  0.725
2009 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. A lineage-specific centromere retrotransposon in Oryza brachyantha. The Plant Journal : For Cell and Molecular Biology. 60: 820-31. PMID 19702667 DOI: 10.1111/J.1365-313X.2009.04005.X  0.461
2009 Gill N, Findley S, Walling JG, Hans C, Ma J, Doyle J, Stacey G, Jackson SA. Molecular and chromosomal evidence for allopolyploidy in soybean. Plant Physiology. 151: 1167-74. PMID 19605552 DOI: 10.1104/Pp.109.137935  0.399
2009 Joseph B, Schlueter JA, Du J, Graham MA, Ma J, Shoemaker RC. Retrotransposons within Syntenic Regions between Soybean and Medicago truncatula and Their Contribution to Local Genome Evolution The Plant Genome. 2. DOI: 10.3835/plantgenome.2009.01.0001  0.415
2008 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, et al. Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains. Bmc Genomics. 9: 621. PMID 19099592 DOI: 10.1186/1471-2164-9-621  0.817
2008 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, et al. Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains. Bmc Genomics. 9: 621. PMID 19099592 DOI: 10.1186/1471-2164-9-621  0.817
2007 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. Evolutionary dynamics of an ancient retrotransposon family provides insights into evolution of genome size in the genus Oryza. The Plant Journal : For Cell and Molecular Biology. 52: 342-51. PMID 17764506 DOI: 10.1111/J.1365-313X.2007.03242.X  0.42
2007 Ma J, Wing RA, Bennetzen JL, Jackson SA. Evolutionary history and positional shift of a rice centromere. Genetics. 177: 1217-20. PMID 17660534 DOI: 10.1534/Genetics.107.078709  0.594
2007 Ma J, Wing RA, Bennetzen JL, Jackson SA. Evolutionary history and positional shift of a rice centromere. Genetics. 177: 1217-20. PMID 17660534 DOI: 10.1534/Genetics.107.078709  0.594
2007 Liu R, Vitte C, Ma J, Mahama AA, Dhliwayo T, Lee M, Bennetzen JL. A GeneTrek analysis of the maize genome. Proceedings of the National Academy of Sciences of the United States of America. 104: 11844-9. PMID 17615239 DOI: 10.1073/Pnas.0704258104  0.709
2007 Liu R, Vitte C, Ma J, Mahama AA, Dhliwayo T, Lee M, Bennetzen JL. A GeneTrek analysis of the maize genome. Proceedings of the National Academy of Sciences of the United States of America. 104: 11844-9. PMID 17615239 DOI: 10.1073/Pnas.0704258104  0.709
2007 Ma J, Wing RA, Bennetzen JL, Jackson SA. Plant centromere organization: a dynamic structure with conserved functions. Trends in Genetics : Tig. 23: 134-9. PMID 17275131 DOI: 10.1016/J.Tig.2007.01.004  0.626
2007 Ma J, Wing RA, Bennetzen JL, Jackson SA. Plant centromere organization: a dynamic structure with conserved functions. Trends in Genetics : Tig. 23: 134-9. PMID 17275131 DOI: 10.1016/J.Tig.2007.01.004  0.626
2006 Ma J, Bennetzen JL. Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice. Proceedings of the National Academy of Sciences of the United States of America. 103: 383-8. PMID 16381819 DOI: 10.1073/Pnas.0509810102  0.632
2006 Ma J, Bennetzen JL. Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice. Proceedings of the National Academy of Sciences of the United States of America. 103: 383-8. PMID 16381819 DOI: 10.1073/Pnas.0509810102  0.632
2006 Ma J, Jackson SA. Retrotransposon accumulation and satellite amplification mediated by segmental duplication facilitate centromere expansion in rice Genome Research. 16: 251-259. PMID 16354755 DOI: 10.1101/gr.4583106  0.418
2005 Devos KM, Ma J, Pontaroli AC, Pratt LH, Bennetzen JL. Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat. Proceedings of the National Academy of Sciences of the United States of America. 102: 19243-8. PMID 16357197 DOI: 10.1073/Pnas.0509473102  0.712
2005 Devos KM, Ma J, Pontaroli AC, Pratt LH, Bennetzen JL. Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat. Proceedings of the National Academy of Sciences of the United States of America. 102: 19243-8. PMID 16357197 DOI: 10.1073/Pnas.0509473102  0.712
2005 Emberton J, Ma J, Yuan Y, SanMiguel P, Bennetzen JL. Gene enrichment in maize with hypomethylated partial restriction (HMPR) libraries. Genome Research. 15: 1441-6. PMID 16204197 DOI: 10.1101/Gr.3362105  0.687
2005 Emberton J, Ma J, Yuan Y, SanMiguel P, Bennetzen JL. Gene enrichment in maize with hypomethylated partial restriction (HMPR) libraries. Genome Research. 15: 1441-6. PMID 16204197 DOI: 10.1101/Gr.3362105  0.687
2005 Ma J, SanMiguel P, Lai J, Messing J, Bennetzen JL. DNA rearrangement in orthologous orp regions of the maize, rice and sorghum genomes. Genetics. 170: 1209-20. PMID 15834137 DOI: 10.1534/Genetics.105.040915  0.696
2005 Ma J, SanMiguel P, Lai J, Messing J, Bennetzen JL. DNA rearrangement in orthologous orp regions of the maize, rice and sorghum genomes. Genetics. 170: 1209-20. PMID 15834137 DOI: 10.1534/Genetics.105.040915  0.696
2005 Bennetzen JL, Ma J, Devos KM. Mechanisms of recent genome size variation in flowering plants. Annals of Botany. 95: 127-32. PMID 15596462 DOI: 10.1093/Aob/Mci008  0.667
2005 Bennetzen JL, Ma J, Devos KM. Mechanisms of recent genome size variation in flowering plants. Annals of Botany. 95: 127-32. PMID 15596462 DOI: 10.1093/Aob/Mci008  0.667
2004 Swigonova Z, Lai J, Ma J, Ramakrishna W, Llaca V, Bennetzen JL, Messing J. On the tetraploid origin of the maize genome. Comparative and Functional Genomics. 5: 281-4. PMID 18629160 DOI: 10.1002/Cfg.395  0.714
2004 Swigonova Z, Lai J, Ma J, Ramakrishna W, Llaca V, Bennetzen JL, Messing J. On the tetraploid origin of the maize genome. Comparative and Functional Genomics. 5: 281-4. PMID 18629160 DOI: 10.1002/Cfg.395  0.714
2004 Bennetzen JL, Coleman C, Liu R, Ma J, Ramakrishna W. Consistent over-estimation of gene number in complex plant genomes. Current Opinion in Plant Biology. 7: 732-6. PMID 15491923 DOI: 10.1016/J.Pbi.2004.09.003  0.686
2004 Bennetzen JL, Coleman C, Liu R, Ma J, Ramakrishna W. Consistent over-estimation of gene number in complex plant genomes. Current Opinion in Plant Biology. 7: 732-6. PMID 15491923 DOI: 10.1016/J.Pbi.2004.09.003  0.686
2004 Lai J, Ma J, Swigonová Z, Ramakrishna W, Linton E, Llaca V, Tanyolac B, Park YJ, Jeong OY, Bennetzen JL, Messing J. Gene loss and movement in the maize genome. Genome Research. 14: 1924-31. PMID 15466290 DOI: 10.1101/Gr.2701104  0.674
2004 Lai J, Ma J, Swigonová Z, Ramakrishna W, Linton E, Llaca V, Tanyolac B, Park YJ, Jeong OY, Bennetzen JL, Messing J. Gene loss and movement in the maize genome. Genome Research. 14: 1924-31. PMID 15466290 DOI: 10.1101/Gr.2701104  0.674
2004 Swigonová Z, Lai J, Ma J, Ramakrishna W, Llaca V, Bennetzen JL, Messing J. Close split of sorghum and maize genome progenitors. Genome Research. 14: 1916-23. PMID 15466289 DOI: 10.1101/Gr.2332504  0.713
2004 Swigonová Z, Lai J, Ma J, Ramakrishna W, Llaca V, Bennetzen JL, Messing J. Close split of sorghum and maize genome progenitors. Genome Research. 14: 1916-23. PMID 15466289 DOI: 10.1101/Gr.2332504  0.713
2004 Ma J, Bennetzen JL. Rapid recent growth and divergence of rice nuclear genomes. Proceedings of the National Academy of Sciences of the United States of America. 101: 12404-10. PMID 15240870 DOI: 10.1073/Pnas.0403715101  0.731
2004 Ma J, Bennetzen JL. Rapid recent growth and divergence of rice nuclear genomes. Proceedings of the National Academy of Sciences of the United States of America. 101: 12404-10. PMID 15240870 DOI: 10.1073/Pnas.0403715101  0.731
2004 Ma J, Devos KM, Bennetzen JL. Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Research. 14: 860-9. PMID 15078861 DOI: 10.1101/Gr.1466204  0.669
2004 Ma J, Devos KM, Bennetzen JL. Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Research. 14: 860-9. PMID 15078861 DOI: 10.1101/Gr.1466204  0.669
2003 Bennetzen JL, Ma J. The genetic colinearity of rice and other cereals on the basis of genomic sequence analysis. Current Opinion in Plant Biology. 6: 128-33. PMID 12667868 DOI: 10.1016/S1369-5266(03)00015-3  0.727
2003 Bennetzen JL, Ma J. The genetic colinearity of rice and other cereals on the basis of genomic sequence analysis. Current Opinion in Plant Biology. 6: 128-33. PMID 12667868 DOI: 10.1016/S1369-5266(03)00015-3  0.727
2002 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. Frequent genic rearrangements in two regions of grass genomes identified by comparative sequence analysis. Comparative and Functional Genomics. 3: 165-6. PMID 18628890 DOI: 10.1002/Cfg.164  0.718
2002 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. Frequent genic rearrangements in two regions of grass genomes identified by comparative sequence analysis. Comparative and Functional Genomics. 3: 165-6. PMID 18628890 DOI: 10.1002/Cfg.164  0.718
2002 Rostoks N, Park YJ, Ramakrishna W, Ma J, Druka A, Shiloff BA, SanMiguel PJ, Jiang Z, Brueggeman R, Sandhu D, Gill K, Bennetzen JL, Kleinhofs A. Genomic sequencing reveals gene content, genomic organization, and recombination relationships in barley. Functional & Integrative Genomics. 2: 51-9. PMID 12021850 DOI: 10.1007/S10142-002-0055-5  0.723
2002 Rostoks N, Park YJ, Ramakrishna W, Ma J, Druka A, Shiloff BA, SanMiguel PJ, Jiang Z, Brueggeman R, Sandhu D, Gill K, Bennetzen JL, Kleinhofs A. Genomic sequencing reveals gene content, genomic organization, and recombination relationships in barley. Functional & Integrative Genomics. 2: 51-9. PMID 12021850 DOI: 10.1007/S10142-002-0055-5  0.723
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