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BAC-end sequences analysis provides first insights into coffee (Coffea canephora P.) genome composition and evolution.
Dereeper A, Guyot R, Tranchant-Dubreuil C, Anthony F, Argout X, de Bellis F, Combes MC, Gavory F, de Kochko A, Kudrna D, Leroy T, Poulain J, Rondeau M, Song X, Wing R, Lashermes P. Dereeper A, et al. Among authors: song x. Plant Mol Biol. 2013 Oct;83(3):177-89. doi: 10.1007/s11103-013-0077-5. Epub 2013 May 25. Plant Mol Biol. 2013. PMID: 23708951
The genome of Theobroma cacao.
Argout X, Salse J, Aury JM, Guiltinan MJ, Droc G, Gouzy J, Allegre M, Chaparro C, Legavre T, Maximova SN, Abrouk M, Murat F, Fouet O, Poulain J, Ruiz M, Roguet Y, Rodier-Goud M, Barbosa-Neto JF, Sabot F, Kudrna D, Ammiraju JS, Schuster SC, Carlson JE, Sallet E, Schiex T, Dievart A, Kramer M, Gelley L, Shi Z, Bérard A, Viot C, Boccara M, Risterucci AM, Guignon V, Sabau X, Axtell MJ, Ma Z, Zhang Y, Brown S, Bourge M, Golser W, Song X, Clement D, Rivallan R, Tahi M, Akaza JM, Pitollat B, Gramacho K, D'Hont A, Brunel D, Infante D, Kebe I, Costet P, Wing R, McCombie WR, Guiderdoni E, Quetier F, Panaud O, Wincker P, Bocs S, Lanaud C. Argout X, et al. Among authors: song x. Nat Genet. 2011 Feb;43(2):101-8. doi: 10.1038/ng.736. Epub 2010 Dec 26. Nat Genet. 2011. PMID: 21186351
Spatio-temporal patterns of genome evolution in allotetraploid species of the genus Oryza.
Ammiraju JS, Fan C, Yu Y, Song X, Cranston KA, Pontaroli AC, Lu F, Sanyal A, Jiang N, Rambo T, Currie J, Collura K, Talag J, Bennetzen JL, Chen M, Jackson S, Wing RA. Ammiraju JS, et al. Among authors: song x. Plant J. 2010 Aug;63(3):430-42. doi: 10.1111/j.1365-313X.2010.04251.x. Epub 2010 May 6. Plant J. 2010. PMID: 20487382 Free article.
The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication.
Wang M, Yu Y, Haberer G, Marri PR, Fan C, Goicoechea JL, Zuccolo A, Song X, Kudrna D, Ammiraju JS, Cossu RM, Maldonado C, Chen J, Lee S, Sisneros N, de Baynast K, Golser W, Wissotski M, Kim W, Sanchez P, Ndjiondjop MN, Sanni K, Long M, Carney J, Panaud O, Wicker T, Machado CA, Chen M, Mayer KF, Rounsley S, Wing RA. Wang M, et al. Among authors: song x. Nat Genet. 2014 Sep;46(9):982-8. doi: 10.1038/ng.3044. Epub 2014 Jul 27. Nat Genet. 2014. PMID: 25064006 Free PMC article.
Advancing Eucalyptus genomics: identification and sequencing of lignin biosynthesis genes from deep-coverage BAC libraries.
Paiva JA, Prat E, Vautrin S, Santos MD, San-Clemente H, Brommonschenkel S, Fonseca PG, Grattapaglia D, Song X, Ammiraju JS, Kudrna D, Wing RA, Freitas AT, Bergès H, Grima-Pettenati J. Paiva JA, et al. Among authors: song x. BMC Genomics. 2011 Mar 4;12:137. doi: 10.1186/1471-2164-12-137. BMC Genomics. 2011. PMID: 21375742 Free PMC article.
Dynamic evolution of oryza genomes is revealed by comparative genomic analysis of a genus-wide vertical data set.
Ammiraju JS, Lu F, Sanyal A, Yu Y, Song X, Jiang N, Pontaroli AC, Rambo T, Currie J, Collura K, Talag J, Fan C, Goicoechea JL, Zuccolo A, Chen J, Bennetzen JL, Chen M, Jackson S, Wing RA. Ammiraju JS, et al. Among authors: song x. Plant Cell. 2008 Dec;20(12):3191-209. doi: 10.1105/tpc.108.063727. Epub 2008 Dec 19. Plant Cell. 2008. PMID: 19098269 Free PMC article.
The 19 genomes of Drosophila: a BAC library resource for genus-wide and genome-scale comparative evolutionary research.
Song X, Goicoechea JL, Ammiraju JS, Luo M, He R, Lin J, Lee SJ, Sisneros N, Watts T, Kudrna DA, Golser W, Ashley E, Collura K, Braidotti M, Yu Y, Matzkin LM, McAllister BF, Markow TA, Wing RA. Song X, et al. Genetics. 2011 Apr;187(4):1023-30. doi: 10.1534/genetics.111.126540. Epub 2011 Feb 14. Genetics. 2011. PMID: 21321134 Free PMC article.
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