{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,21]],"date-time":"2025-10-21T14:51:24Z","timestamp":1761058284639},"reference-count":35,"publisher":"American Society for Microbiology","issue":"12","license":[{"start":{"date-parts":[[2005,6,15]],"date-time":"2005-06-15T00:00:00Z","timestamp":1118793600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Bacteriol"],"published-print":{"date-parts":[[2005,6,15]]},"abstract":"<jats:title>ABSTRACT<\/jats:title><jats:p>Natural isolates of pathogenic bacteria can exhibit a broad range of phenotypic traits. To investigate the molecular mechanisms contributing to such phenotypic variability, we compared the genomes, transcriptomes, and proteomes of two natural isolates of the gram-negative bacterium<jats:italic>Burkholderia pseudomallei<\/jats:italic>, the causative agent of the human disease melioidosis. Significant intrinsic genomic, transcriptional, and proteomic variations were observed between the two strains involving genes of diverse functions. We identified 16 strain-specific regions in the<jats:italic>B. pseudomallei<\/jats:italic>K96243 reference genome, and for eight regions their differential presence could be ascribed to either DNA acquisition or loss. A remarkable 43% of the transcriptional differences between the strains could be attributed to genes that were differentially present between K96243 and Bp15682, demonstrating the importance of lateral gene transfer or gene loss events in contributing to pathogen diversity at the gene expression level. Proteins expressed in a strain-specific manner were similarly correlated at the gene expression level, but up to 38% of the global proteomic variation between strains comprised proteins expressed in both strains but associated with strain-specific protein isoforms. Collectively, &gt;65 hypothetical genes were transcriptionally or proteomically expressed, supporting their bona fide biological presence. Our results provide, for the first time, an integrated framework for classifying the repertoire of natural variations existing at distinct molecular levels for an important human pathogen.<\/jats:p>","DOI":"10.1128\/jb.187.12.4276-4285.2005","type":"journal-article","created":{"date-parts":[[2005,6,3]],"date-time":"2005-06-03T16:03:36Z","timestamp":1117814616000},"page":"4276-4285","update-policy":"http:\/\/dx.doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":31,"title":["Integrative Genomic, Transcriptional, and Proteomic Diversity in Natural Isolates of the Human Pathogen<i>Burkholderia pseudomallei<\/i>"],"prefix":"10.1128","volume":"187","author":[{"given":"Keli","family":"Ou","sequence":"first","affiliation":[{"name":"Agenica Research"},{"name":"Shimadzu (Asia Pacific), 16A Science Park Drive, Singapore Science Park 1, Singapore 118228, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Catherine","family":"Ong","sequence":"additional","affiliation":[{"name":"Defence Medical and Environmental Research Institute, DSO National Laboratories (Kent Ridge), 27 Medical Drive, Singapore 117510, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shze Yung","family":"Koh","sequence":"additional","affiliation":[{"name":"National Cancer Centre"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fiona","family":"Rodrigues","sequence":"additional","affiliation":[{"name":"National Cancer Centre"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Siew Hoon","family":"Sim","sequence":"additional","affiliation":[{"name":"Defence Medical and Environmental Research Institute, DSO National Laboratories (Kent Ridge), 27 Medical Drive, Singapore 117510, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Daniel","family":"Wong","sequence":"additional","affiliation":[{"name":"National Cancer Centre"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chia Huey","family":"Ooi","sequence":"additional","affiliation":[{"name":"National Cancer Centre"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kim Chong","family":"Ng","sequence":"additional","affiliation":[{"name":"National Cancer Centre"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hiroyuki","family":"Jikuya","sequence":"additional","affiliation":[{"name":"Agenica Research"},{"name":"Shimadzu (Asia Pacific), 16A Science Park Drive, Singapore Science Park 1, Singapore 118228, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chin Chin","family":"Yau","sequence":"additional","affiliation":[{"name":"Agenica Research"},{"name":"Shimadzu (Asia Pacific), 16A Science Park Drive, Singapore Science Park 1, Singapore 118228, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sou Yen","family":"Soon","sequence":"additional","affiliation":[{"name":"Agenica Research"},{"name":"Shimadzu (Asia Pacific), 16A Science Park Drive, Singapore Science Park 1, Singapore 118228, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Djohan","family":"Kesuma","sequence":"additional","affiliation":[{"name":"Agenica Research"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"May Ann","family":"Lee","sequence":"additional","affiliation":[{"name":"Defence Medical and Environmental Research Institute, DSO National Laboratories (Kent Ridge), 27 Medical Drive, Singapore 117510, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Patrick","family":"Tan","sequence":"additional","affiliation":[{"name":"Agenica Research"},{"name":"National Cancer Centre"},{"name":"Genome Institute of Singapore, 11 Hospital Drive, Singapore 169610, Republic of Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"235","reference":[{"key":"e_1_3_2_2_2","doi-asserted-by":"crossref","first-page":"176","DOI":"10.1038\/16495","volume":"397","year":"1999","unstructured":"Alm, R. 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