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Genomic islands from five strains of Burkholderia pseudomallei.
BMC Genomics. 2008 Nov 27; 9:566.BG

Abstract

BACKGROUND

Burkholderia pseudomallei is the etiologic agent of melioidosis, a significant cause of morbidity and mortality where this infection is endemic. Genomic differences among strains of B. pseudomallei 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.

RESULTS

We found that genomic islands (GIs) vary greatly among B. pseudomallei strains. We identified 71 distinct GIs from the genome sequences of five reference strains of B. pseudomallei: 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.

CONCLUSION

Our data suggest that acquisition of GIs is one of the major sources of genomic diversity within B. pseudomallei and the molecular mechanisms that facilitate horizontally-acquired GIs are common across multiple strains of B. pseudomallei. 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.

Authors+Show Affiliations

Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ 86011-5640, USA. Apichai.Tuanyok@nau.eduNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, N.I.H., Extramural

Language

eng

PubMed ID

19038032

Citation

Tuanyok, Apichai, et al. "Genomic Islands From Five Strains of Burkholderia Pseudomallei." BMC Genomics, vol. 9, 2008, p. 566.
Tuanyok A, Leadem BR, Auerbach RK, et al. Genomic islands from five strains of Burkholderia pseudomallei. BMC Genomics. 2008;9:566.
Tuanyok, A., Leadem, B. R., Auerbach, R. K., Beckstrom-Sternberg, S. M., Beckstrom-Sternberg, J. S., Mayo, M., Wuthiekanun, V., Brettin, T. S., Nierman, W. C., Peacock, S. J., Currie, B. J., Wagner, D. M., & Keim, P. (2008). Genomic islands from five strains of Burkholderia pseudomallei. BMC Genomics, 9, 566. https://doi.org/10.1186/1471-2164-9-566
Tuanyok A, et al. Genomic Islands From Five Strains of Burkholderia Pseudomallei. BMC Genomics. 2008 Nov 27;9:566. PubMed PMID: 19038032.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genomic islands from five strains of Burkholderia pseudomallei. AU - Tuanyok,Apichai, AU - Leadem,Benjamin R, AU - Auerbach,Raymond K, AU - Beckstrom-Sternberg,Stephen M, AU - Beckstrom-Sternberg,James S, AU - Mayo,Mark, AU - Wuthiekanun,Vanaporn, AU - Brettin,Thomas S, AU - Nierman,William C, AU - Peacock,Sharon J, AU - Currie,Bart J, AU - Wagner,David M, AU - Keim,Paul, Y1 - 2008/11/27/ PY - 2008/08/20/received PY - 2008/11/27/accepted PY - 2008/11/29/pubmed PY - 2009/2/24/medline PY - 2008/11/29/entrez SP - 566 EP - 566 JF - BMC genomics JO - BMC Genomics VL - 9 N2 - BACKGROUND: Burkholderia pseudomallei is the etiologic agent of melioidosis, a significant cause of morbidity and mortality where this infection is endemic. Genomic differences among strains of B. pseudomallei 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. RESULTS: We found that genomic islands (GIs) vary greatly among B. pseudomallei strains. We identified 71 distinct GIs from the genome sequences of five reference strains of B. pseudomallei: 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. CONCLUSION: Our data suggest that acquisition of GIs is one of the major sources of genomic diversity within B. pseudomallei and the molecular mechanisms that facilitate horizontally-acquired GIs are common across multiple strains of B. pseudomallei. 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. SN - 1471-2164 UR - https://www.unboundmedicine.com/medline/citation/19038032/Genomic_islands_from_five_strains_of_Burkholderia_pseudomallei_ L2 - https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-9-566 DB - PRIME DP - Unbound Medicine ER -