{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Alland D"],"funding":["NIAID NIH HHS"],"pagination":["39-46"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC1828963"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["45(1)"],"pubmed_abstract":["Mycobacterium tuberculosis strains contain different genomic insertions or deletions called large sequence polymorphisms (LSPs). Distinguishing between LSPs that occur one time versus ones that occur repeatedly in a genomic region may provide insights into the biological roles of LSPs and identify useful phylogenetic markers. We analyzed 163 clinical M. tuberculosis isolates for 17 LSPs identified in a genomic comparison of M. tuberculosis strains H37Rv and CDC1551. LSPs were mapped onto a single-nucleotide polymorphism (SNP)-based phylogenetic tree created using nine novel SNP markers that were found to reproduce a 212-SNP-based phylogeny. Four LSPs (group A) mapped to a single SNP tree segment. Two LSPs (group B) and 11 LSPs (group C) were inferred to have arisen independently in the sam"],"journal":["Journal of clinical microbiology"],"pubmed_title":["Role of large sequence polymorphisms (LSPs) in generating genomic diversity among clinical isolates of Mycobacterium tuberculosis and the utility of LSPs in phylogenetic analysis."],"pmcid":["PMC1828963"],"funding_grant_id":["AI-46669","AI-49352","R01 AI049352","R01 AI046669"],"pubmed_authors":["Whittam TS","Motiwala AS","Hazbon MH","Alland D","Qi W","Lacher DW","Fleischmann RD"],"additional_accession":[]},"is_claimable":false,"name":"Role of large sequence polymorphisms (LSPs) in generating genomic diversity among clinical isolates of Mycobacterium tuberculosis and the utility of LSPs in phylogenetic analysis.","description":"Mycobacterium tuberculosis strains contain different genomic insertions or deletions called large sequence polymorphisms (LSPs). Distinguishing between LSPs that occur one time versus ones that occur repeatedly in a genomic region may provide insights into the biological roles of LSPs and identify useful phylogenetic markers. We analyzed 163 clinical M. tuberculosis isolates for 17 LSPs identified in a genomic comparison of M. tuberculosis strains H37Rv and CDC1551. LSPs were mapped onto a single-nucleotide polymorphism (SNP)-based phylogenetic tree created using nine novel SNP markers that were found to reproduce a 212-SNP-based phylogeny. Four LSPs (group A) mapped to a single SNP tree segment. Two LSPs (group B) and 11 LSPs (group C) were inferred to have arisen independently in the sam","dates":{"release":"2007-01-01T00:00:00Z","publication":"2007 Jan","modification":"2026-03-27T17:15:25.111Z","creation":"2019-03-27T02:03:35Z"},"accession":"S-EPMC1828963","cross_references":{"pubmed":["17079498"],"doi":["10.1128/jcm.02483-05","10.1128/JCM.02483-05"]}}