Sat, 05 Jul 2008 22:46:12 BST CiteULike: neils's Schatz http://www.citeulike.org/user/neils/author/Schatz CiteULike.org en-gb Copyright © 2004-2008 citeulike.org http://www.citeulike.org/user/neils/article/2743652 <i>BMC Genomics, Vol. 9, No. 1. (2008)</i><br /><br />BACKGROUND:Xanthomonas oryzae pv. oryzae causes bacterial blight of rice, a major disease that constrains production of this staple crop in many parts of the world. We report here on the complete genome sequence of strain PXO99A and its comparison to two previously sequenced strains, KACC10331 and MAFF311018, which are highly similar to one another.RESULTS:The PXO99A genome is a single circular chromosome of 5,240,075 bp, considerably longer than the genomes of the other strains (4,941,439 bp and 4,940,217 bp, respectively), and it contains 5083 protein-coding genes, including 87 not found in KACC10331 or MAFF311018. PXO99A contains a greater number of virulence-associated transcription activatoralike effector genes and has at least ten major chromosomal rearrangements relative to KACC10331 and MAFF311018. PXO99A contains numerous copies of diverse insertion sequence elements, members of which are associated with 7 out of 10 of the major rearrangements. A rapidly-evolving CRISPR (clustered regularly interspersed short palindromic repeats) region contains evidence of dozens of phage infections unique to the PXO99A lineage. PXO99A also contains a unique, near-perfect tandem repeat of 212 kilobases close to the replication terminus.CONCLUSIONS:Our results provide striking evidence of genome plasticity and rapid evolution within Xanthomonas oryzae pv. oryzae. The comparisons point to sources of genomic variation and candidates for strain-specific adaptations of this pathogen that help to explain the extraordinary diversity of Xanthomonas oryzae pv. oryzae genotypes and races that have been isolated from around the world. Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A Steven Salzberg Daniel Sommer Michael Schatz Adam Phillippy Pablo Rabinowicz Seiji Tsuge Ayako Furutani Hirokazu Ochiai Arthur Delcher David Kelley Ramana Madupu Daniela Puiu Diana Radune Martin Shumway Cole Trapnell Gudlur Aparna Gopaljee Jha Alok Pandey Prabhu Patil Hiromichi Ishihara Damien Meyer Boris Szurek Valerie Verdier Ralf Koebnik Maxwell Dow Robert Ryan Hisae Hirata Shinji Tsuyumu Sang Lee Pamela Ronald Ramesh Sonti Marie Van Sluys Jan Leach Frank White Adam Bogdanove doi:10.1186/1471-2164-9-204 BMC Genomics, Vol. 9, No. 1. (2008) 2008-05-01T23:28:04-00:00 2008 BMC Genomics 9 1 evolution genome pathogen rice sequence xanthomonas http://www.citeulike.org/user/neils/article/2709869 <i>Nature, Vol. 452, No. 7190. (24 April 2008), pp. 991-996.</i> The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus) Ray Ming Shaobin Hou Yun Feng Qingyi Yu Alexandre Dionne-Laporte Jimmy Saw Pavel Senin Wei Wang Benjamin Ly Kanako Lewis Steven Salzberg Lu Feng Meghan Jones Rachel Skelton Jan Murray Cuixia Chen Wubin Qian Junguo Shen Peng Du Moriah Eustice Eric Tong Haibao Tang Eric Lyons Robert Paull Todd Michael Kerr Wall Danny Rice Henrik Albert Ming-Li Wang Yun Zhu Michael Schatz Niranjan Nagarajan Ricelle Acob Peizhu Guan Andrea Blas Ching Wai Christine Ackerman Yan Ren Chao Liu Jianmei Wang Jianping Wang Jong-Kuk Na Eugene Shakirov Brian Haas Jyothi Thimmapuram David Nelson Xiyin Wang John Bowers Andrea Gschwend Arthur Delcher Ratnesh Singh Jon Suzuki Savarni Tripathi Kabi Neupane Hairong Wei Beth Irikura Maya Paidi Ning Jiang Wenli Zhang Gernot Presting Aaron Windsor Rafael Navajas-Perez Manuel Torres Alex Feltus Brad Porter Yingjun Li Max Burroughs Ming-Cheng Luo Lei Liu David Christopher Stephen Mount Paul Moore Tak Sugimura Jiming Jiang Mary Schuler Vikki Friedman Thomas Mitchell-Olds Dorothy Shippen Claude Depamphilis Jeffrey Palmer Michael Freeling Andrew Paterson Dennis Gonsalves Lei Wang Maqsudul Alam doi:10.1038/nature06856 Nature, Vol. 452, No. 7190. (24 April 2008), pp. 991-996. 2008-04-23T19:37:29-00:00 2008 Nature 452 7190 991 996 Nature Publishing Group genome genomics papaya plant sequence