Investigation of the population structure of Legionella pneumophila by analysis of tandem repeat copy number and internal sequence variation
| Autor: | Silvia D'Arezzo, Christine Pourcel, Paolo Visca, Norman K. Fry, Yevgeniy Gelfand, Gary Benson, Gilles Vergnaud, Françoise Ramisse |
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| Přispěvatelé: | Institut de génétique et microbiologie [Orsay] (IGM), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Visca, Paolo, D'Arezzo, S, Ramisse, F, Gelfand, Y, Benson, G, Vergnaud, G, Fry, Nk, Pourcel, C. |
| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Linkage disequilibrium
DNA Copy Number Variations Genotype Sequence analysis Molecular Sequence Data Population Multiple Loci VNTR Analysis Microbiology Legionella pneumophila Linkage Disequilibrium 03 medical and health sciences Tandem repeat Sequence Homology Nucleic Acid [SDV.BBM]Life Sciences [q-bio]/Biochemistry Molecular Biology education 030304 developmental biology Repeat unit Genetics 0303 health sciences education.field_of_study Base Sequence biology 030306 microbiology Genetic Variation biology.organism_classification bacterial infections and mycoses Variable number tandem repeat Genetics Population Genetic Loci Tandem Repeat Sequences Sequence Alignment |
| Zdroj: | Microbiology Microbiology, Microbiology Society, 2011, 157 (Pt 9), pp.2582-94. ⟨10.1099/mic.0.047258-0⟩ |
| ISSN: | 1350-0872 1465-2080 |
| DOI: | 10.1099/mic.0.047258-0⟩ |
| Popis: | The population structure of the species Legionella pneumophila was investigated by multilocus variable number of tandem repeats (VNTR) analysis (MLVA) and sequencing of three VNTRs (Lpms01, Lpms04 and Lpms13) in selected strains. Of 150 isolates of diverse origins, 136 (86 %) were distributed into eight large MLVA clonal complexes (VACCs) and the rest were either unique or formed small clusters of up to two MLVA genotypes. In spite of the lower degree of genome-wide linkage disequilibrium of the MLVA loci compared with sequence-based typing, the clustering achieved by the two methods was highly congruent. The detailed analysis of VNTR Lpms04 alleles showed a very complex organization, with five different repeat unit lengths and a high level of internal variation. Within each MLVA-defined VACC, Lpms04 was endowed with a common recognizable pattern with some interesting exceptions. Evidence of recombination events was suggested by analysis of internal repeat variations at the two additional VNTR loci, Lpms01 and Lpms13. Sequence analysis of L. pneumophila VNTR locus Lpms04 alone provides a first-line assay for allocation of a new isolate within the L. pneumophila population structure and for epidemiological studies. |
| Databáze: | OpenAIRE |
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