Diversity analysis of dairy and nondairy Lactococcus lactis isolates, using a novel multilocus sequence analysis scheme and (GTG)5-PCR fingerprinting
| Autor: | Johan E. T. van Hylckama Vlieg, Hélène Herbet, Dirk Gevers, Jean Swings, Sabri M. Naser, J. L. W. Rademaker, Jeroen Hugenholtz, William J. Kelly, Marjo J. C. Starrenburg |
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| Přispěvatelé: | Molecular Microbial Physiology (SILS, FNWI) |
| Jazyk: | angličtina |
| Rok vydání: | 2007 |
| Předmět: |
DNA
Bacterial Genotype Sequence analysis Lactococcus Molecular Sequence Data Biology Polymerase Chain Reaction Applied Microbiology and Biotechnology law.invention Microbiology law Cluster Analysis Gene Genotyping Phylogeny Polymerase chain reaction Genetics Ecology Lactococcus lactis Genetic Variation Sequence Analysis DNA Ribosomal RNA biology.organism_classification Phenotype RNA Ribosomal Food Microbiology Dairy Products Food Science Biotechnology |
| Zdroj: | Applied and Environmental Microbiology, 73(22), 7128-7137. American Society for Microbiology |
| ISSN: | 1098-5336 0099-2240 |
| DOI: | 10.1128/AEM.01017-07 |
| Popis: | The diversity of a collection of 102 lactococcus isolates including 91 Lactococcus lactis isolates of dairy and nondairy origin was explored using partial small subunit rRNA gene sequence analysis and limited phenotypic analyses. A subset of 89 strains of L. lactis subsp. cremoris and L. lactis subsp. lactis isolates was further analyzed by (GTG) 5 -PCR fingerprinting and a novel multilocus sequence analysis (MLSA) scheme. Two major genomic lineages within L. lactis were found. The L. lactis subsp. cremoris type-strain-like genotype lineage included both L. lactis subsp. cremoris and L. lactis subsp. lactis isolates. The other major lineage, with a L. lactis subsp. lactis type-strain-like genotype, comprised L. lactis subsp. lactis isolates only. A novel third genomic lineage represented two L. lactis subsp. lactis isolates of nondairy origin. The genomic lineages deviate from the subspecific classification of L. lactis that is based on a few phenotypic traits only. MLSA of six partial genes ( atpA , encoding ATP synthase alpha subunit; pheS , encoding phenylalanine tRNA synthetase; rpoA , encoding RNA polymerase alpha chain; bcaT , encoding branched chain amino acid aminotransferase; pepN , encoding aminopeptidase N; and pepX , encoding X-prolyl dipeptidyl peptidase) revealed 363 polymorphic sites (total length, 1,970 bases) among 89 L. lactis subsp. cremoris and L. lactis subsp. lactis isolates with unique sequence types for most isolates. This allowed high-resolution cluster analysis in which dairy isolates form subclusters of limited diversity within the genomic lineages. The pheS DNA sequence analysis yielded two genetic groups dissimilar to the other genotyping analysis-based lineages, indicating a disparate acquisition route for this gene. |
| Databáze: | OpenAIRE |
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