Repeat-based Sequence Typing of Carnobacterium maltaromaticum

Autor: Alexandre Back, Frédéric Borges, Abdur Rahman, Sara M. El Kheir, Anne-Marie Revol-Junelles, Cécile Mangavel
Přispěvatelé: Laboratoire d'Ingénierie des Biomolécules (LIBio), Université de Lorraine (UL), National University of Sciences and Technology [Islamabad] (NUST), Unité de recherche sur les Biopolymères, Interactions Assemblages (BIA), Institut National de la Recherche Agronomique (INRA)
Jazyk: angličtina
Rok vydání: 2016
Předmět:
0301 basic medicine
Genotype
Sequence analysis
Minisatellite Repeat
[SDV]Life Sciences [q-bio]
030106 microbiology
Minisatellite Repeats
[SDV.BID]Life Sciences [q-bio]/Biodiversity
Biology
Carnobacterium
Multiple Loci VNTR Analysis
Polymerase Chain Reaction
Microbiology
03 medical and health sciences
[SDV.EE.ECO]Life Sciences [q-bio]/Ecology
environment/Ecosystems
Species Specificity
Typing
Alleles
ComputingMilieux_MISCELLANEOUS
2. Zero hunger
Genetics
[SDV.GEN]Life Sciences [q-bio]/Genetics
Genetic Variation
General Medicine
bacterial infections and mycoses
biology.organism_classification
Variable number tandem repeat
030104 developmental biology
Food Microbiology
Multilocus sequence typing
Multilocus Sequence Typing
Food Science
[SDV.EE.IEO]Life Sciences [q-bio]/Ecology
environment/Symbiosis
Zdroj: International Journal of Food Microbiology
International Journal of Food Microbiology, Elsevier, 2016, 226, pp.1-4. ⟨10.1016/j.ijfoodmicro.2016.03.003⟩
ISSN: 0168-1605
DOI: 10.1016/j.ijfoodmicro.2016.03.003⟩
Popis: Carnobacterium maltaromaticum is a Lactic Acid Bacterium (LAB) of technological interest for the food industry, especially the dairy as bioprotection and ripening flora. The industrial use of this LAB requires accurate and resolutive typing tools. A new typing method for C. maltaromaticum inspired from MLVA analysis and called Repeat-based Sequence Typing (RST) is described. Rather than electrophoresis analysis, our RST method is based on sequence analysis of multiple loci containing Variable-Number Tandem-Repeats (VNTRs). The method described here for C. maltaromaticum relies on the analysis of three VNTR loci, and was applied to a collection of 24 strains. For each strain, a PCR product corresponding to the amplification of each VNTR loci was sequenced. Sequence analysis allowed delineating 11, 11, and 12 alleles for loci VNTR-A, VNTR-B, and VNTR-C, respectively. Considering the allele combination exhibited by each strain allowed defining 15 genotypes, ending in a discriminatory index of 0.94. Comparison with MLST revealed that both methods were complementary for strain typing in C. maltaromaticum.
Databáze: OpenAIRE
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