The Whole-genome sequencing of the obligate intracellular bacterium Orientia tsutsugamushi revealed massive gene amplification during reductive genome evolution. Export

@article{citeulike:3702789, abstract = {Scrub typhus ('Tsutsugamushi' disease in Japanese) is a mite-borne infectious disease. The causative agent is Orientia tsutsugamushi, an obligate intracellular bacterium belonging to the family Rickettsiaceae of the subdivision alpha-Proteobacteria. In this study, we determined the complete genome sequence of O. tsutsugamushi strain Ikeda, which comprises a single chromosome of 2 008 987 bp and contains 1967 protein coding sequences (CDSs). The chromosome is much larger than those of other members of Rickettsiaceae, and 46.7\% of the sequence was occupied by repetitive sequences derived from an integrative and conjugative element, 10 types of transposable elements, and seven types of short repeats of unknown origins. The massive amplification and degradation of these elements have generated a huge number of repeated genes (1196 CDSs, categorized into 85 families), many of which are pseudogenes (766 CDSs), and also induced intensive genome shuffling. By comparing the gene content with those of other family members of Rickettsiacea, we identified the core gene set of the family Rickettsiaceae and found that, while much more extensive gene loss has taken place among the housekeeping genes of Orientia than those of Rickettsia, O. tsutsugamushi has acquired a large number of foreign genes. The O. tsutsugamushi genome sequence is thus a prominent example of the high plasticity of bacterial genomes, and provides the genetic basis for a better understanding of the biology of O. tsutsugamushi and the pathogenesis of 'Tsutsugamushi' disease.}, author = {Nakayama, K. and Yamashita, A. and Kurokawa, K. and Morimoto, T. and Ogawa, M. and Fukuhara, M. and Urakami, H. and Ohnishi, M. and Uchiyama, I. and Ogura, Y. and Ooka, T. and Oshima, K. and Tamura, A. and Hattori, M. and Hayashi, T.}, citeulike-article-id = {3702789}, citeulike-linkout-0 = {http://view.ncbi.nlm.nih.gov/pubmed/18508905}, citeulike-linkout-1 = {http://www.hubmed.org/display.cgi?uids=18508905}, issn = {1875-6190}, journal = {DNA research : an international journal for rapid publication of reports on genes and genomes}, keywords = {amplification, duplication, gene, genome, orientia, sequence}, month = {August}, number = {4}, pages = {185--199}, posted-at = {2008-11-26 11:04:57}, priority = {2}, title = {The Whole-genome sequencing of the obligate intracellular bacterium Orientia tsutsugamushi revealed massive gene amplification during reductive genome evolution.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/18508905}, volume = {15}, year = {2008} }

TY - JOUR ID - citeulike:3702789 L3 - citeulike-article-id:3702789 N2 - Scrub typhus ('Tsutsugamushi' disease in Japanese) is a mite-borne infectious disease. The causative agent is Orientia tsutsugamushi, an obligate intracellular bacterium belonging to the family Rickettsiaceae of the subdivision alpha-Proteobacteria. In this study, we determined the complete genome sequence of O. tsutsugamushi strain Ikeda, which comprises a single chromosome of 2 008 987 bp and contains 1967 protein coding sequences (CDSs). The chromosome is much larger than those of other members of Rickettsiaceae, and 46.7% of the sequence was occupied by repetitive sequences derived from an integrative and conjugative element, 10 types of transposable elements, and seven types of short repeats of unknown origins. The massive amplification and degradation of these elements have generated a huge number of repeated genes (1196 CDSs, categorized into 85 families), many of which are pseudogenes (766 CDSs), and also induced intensive genome shuffling. By comparing the gene content with those of other family members of Rickettsiacea, we identified the core gene set of the family Rickettsiaceae and found that, while much more extensive gene loss has taken place among the housekeeping genes of Orientia than those of Rickettsia, O. tsutsugamushi has acquired a large number of foreign genes. The O. tsutsugamushi genome sequence is thus a prominent example of the high plasticity of bacterial genomes, and provides the genetic basis for a better understanding of the biology of O. tsutsugamushi and the pathogenesis of 'Tsutsugamushi' disease. IS - 4 JF - DNA research : an international journal for rapid publication of reports on genes and genomes SN - 1875-6190 EP - 199 TI - The Whole-genome sequencing of the obligate intracellular bacterium Orientia tsutsugamushi revealed massive gene amplification during reductive genome evolution. VL - 15 SP - 185 KW - amplification KW - duplication KW - gene KW - genome KW - orientia KW - sequence AU - Nakayama, K AU - Yamashita, A AU - Kurokawa, K AU - Morimoto, T AU - Ogawa, M AU - Fukuhara, M AU - Urakami, H AU - Ohnishi, M AU - Uchiyama, I AU - Ogura, Y AU - Ooka, T AU - Oshima, K AU - Tamura, A AU - Hattori, M AU - Hayashi, T PY - 2008/08// UR - http://view.ncbi.nlm.nih.gov/pubmed/18508905 ER -