Genomic islands from five strains of <it>Burkholderia pseudomallei</it>
<p>Abstract</p> <p>Background</p> <p><it>Burkholderia pseudomallei </it>is the etiologic agent of melioidosis, a significant cause of morbidity and mortality where this infection is endemic. Genomic differences among strains of <it>B. pseudomallei <...
| Main Authors: | , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2008-11-01
|
| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/9/566 |
| _version_ | 1811251112969240576 |
|---|---|
| author | Nierman William C Brettin Thomas S Wuthiekanun Vanaporn Mayo Mark Beckstrom-Sternberg James S Beckstrom-Sternberg Stephen M Auerbach Raymond K Leadem Benjamin R Tuanyok Apichai Peacock Sharon J Currie Bart J Wagner David M Keim Paul |
| author_facet | Nierman William C Brettin Thomas S Wuthiekanun Vanaporn Mayo Mark Beckstrom-Sternberg James S Beckstrom-Sternberg Stephen M Auerbach Raymond K Leadem Benjamin R Tuanyok Apichai Peacock Sharon J Currie Bart J Wagner David M Keim Paul |
| author_sort | Nierman William C |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p><it>Burkholderia pseudomallei </it>is the etiologic agent of melioidosis, a significant cause of morbidity and mortality where this infection is endemic. Genomic differences among strains of <it>B. pseudomallei </it>are predicted to be one of the major causes of the diverse clinical manifestations observed among patients with melioidosis. The purpose of this study was to examine the role of genomic islands (GIs) as sources of genomic diversity in this species.</p> <p>Results</p> <p>We found that genomic islands (GIs) vary greatly among <it>B. pseudomallei </it>strains. We identified 71 distinct GIs from the genome sequences of five reference strains of <it>B. pseudomallei</it>: K96243, 1710b, 1106a, MSHR668, and MSHR305. The genomic positions of these GIs are not random, as many of them are associated with tRNA gene loci. In particular, the 3' end sequences of tRNA genes are predicted to be involved in the integration of GIs. We propose the term "tRNA-mediated site-specific recombination" (tRNA-SSR) for this mechanism. In addition, we provide a GI nomenclature that is based upon integration hotspots identified here or previously described.</p> <p>Conclusion</p> <p>Our data suggest that acquisition of GIs is one of the major sources of genomic diversity within <it>B. pseudomallei </it>and the molecular mechanisms that facilitate horizontally-acquired GIs are common across multiple strains of <it>B. pseudomallei</it>. The differential presence of the 71 GIs across multiple strains demonstrates the importance of these mobile elements for shaping the genetic composition of individual strains and populations within this bacterial species.</p> |
| first_indexed | 2024-04-12T16:14:50Z |
| format | Article |
| id | doaj.art-9caa90ecf60a411aaec504d5dcbf5b86 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-04-12T16:14:50Z |
| publishDate | 2008-11-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-9caa90ecf60a411aaec504d5dcbf5b862022-12-22T03:25:45ZengBMCBMC Genomics1471-21642008-11-019156610.1186/1471-2164-9-566Genomic islands from five strains of <it>Burkholderia pseudomallei</it>Nierman William CBrettin Thomas SWuthiekanun VanapornMayo MarkBeckstrom-Sternberg James SBeckstrom-Sternberg Stephen MAuerbach Raymond KLeadem Benjamin RTuanyok ApichaiPeacock Sharon JCurrie Bart JWagner David MKeim Paul<p>Abstract</p> <p>Background</p> <p><it>Burkholderia pseudomallei </it>is the etiologic agent of melioidosis, a significant cause of morbidity and mortality where this infection is endemic. Genomic differences among strains of <it>B. pseudomallei </it>are predicted to be one of the major causes of the diverse clinical manifestations observed among patients with melioidosis. The purpose of this study was to examine the role of genomic islands (GIs) as sources of genomic diversity in this species.</p> <p>Results</p> <p>We found that genomic islands (GIs) vary greatly among <it>B. pseudomallei </it>strains. We identified 71 distinct GIs from the genome sequences of five reference strains of <it>B. pseudomallei</it>: K96243, 1710b, 1106a, MSHR668, and MSHR305. The genomic positions of these GIs are not random, as many of them are associated with tRNA gene loci. In particular, the 3' end sequences of tRNA genes are predicted to be involved in the integration of GIs. We propose the term "tRNA-mediated site-specific recombination" (tRNA-SSR) for this mechanism. In addition, we provide a GI nomenclature that is based upon integration hotspots identified here or previously described.</p> <p>Conclusion</p> <p>Our data suggest that acquisition of GIs is one of the major sources of genomic diversity within <it>B. pseudomallei </it>and the molecular mechanisms that facilitate horizontally-acquired GIs are common across multiple strains of <it>B. pseudomallei</it>. The differential presence of the 71 GIs across multiple strains demonstrates the importance of these mobile elements for shaping the genetic composition of individual strains and populations within this bacterial species.</p>http://www.biomedcentral.com/1471-2164/9/566 |
| spellingShingle | Nierman William C Brettin Thomas S Wuthiekanun Vanaporn Mayo Mark Beckstrom-Sternberg James S Beckstrom-Sternberg Stephen M Auerbach Raymond K Leadem Benjamin R Tuanyok Apichai Peacock Sharon J Currie Bart J Wagner David M Keim Paul Genomic islands from five strains of <it>Burkholderia pseudomallei</it> BMC Genomics |
| title | Genomic islands from five strains of <it>Burkholderia pseudomallei</it> |
| title_full | Genomic islands from five strains of <it>Burkholderia pseudomallei</it> |
| title_fullStr | Genomic islands from five strains of <it>Burkholderia pseudomallei</it> |
| title_full_unstemmed | Genomic islands from five strains of <it>Burkholderia pseudomallei</it> |
| title_short | Genomic islands from five strains of <it>Burkholderia pseudomallei</it> |
| title_sort | genomic islands from five strains of it burkholderia pseudomallei it |
| url | http://www.biomedcentral.com/1471-2164/9/566 |
| work_keys_str_mv | AT niermanwilliamc genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT brettinthomass genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT wuthiekanunvanaporn genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT mayomark genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT beckstromsternbergjamess genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT beckstromsternbergstephenm genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT auerbachraymondk genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT leadembenjaminr genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT tuanyokapichai genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT peacocksharonj genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT curriebartj genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT wagnerdavidm genomicislandsfromfivestrainsofitburkholderiapseudomalleiit AT keimpaul genomicislandsfromfivestrainsofitburkholderiapseudomalleiit |