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Multiplex variable number of tandem repeats for Oenococcus oeni and applications.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Claisse, Olivier Lonvaud-Funel, Aline
Description	Author Affiliation: Claisse O ( Université Bordeaux, ISVV, EA 4577, UR Oenologie, F-33140 Villenave d'Ornon, France)
Abstract	Oenococcus oeni is responsible for the malolactic fermentation of wine. Genomic diversity has already been established in this species. In addition, winemakers usually report varying starter-culture efficiency. It is essential to monitor indigenous and selected strains in order to understand strain survival and development during the winemaking process. A previous article described a variable number of tandem repeats (VNTR) scheme, based on five polymorphic loci of the genome. VNTR typing of O. oeni was highly discriminating, faster, and more reliable than the PFGE or MLST methods. The objective of this study was to set up a faster protocol by multiplexing, taking advantage of the high performance of multicolor capillary electrophoresis. The primers were labeled with multiple fluorescent dyes. PCR conditions were adapted by multiplexing amplifications in two separate PCR mixtures for the five loci, both at the same annealing temperature. The resulting assay proved to be robust, accurate, fast and easy to perform. Thanks to this new protocol, all O. oeni strains used in the study were typed using the five tandem repeats (TR). As expected, the primers for the five TR loci were specific to O. oeni. The method was improved to analyze isolated and mixed colonies, as well as bacteria harvested from wine using fast technology for analysis of nucleic acids (FTA(®)) technology. Finally, predictive models were constructed, to predict phylogenetic relationships and associate bacterial strain resistance to freeze-drying with fragment length analysis (FLA) profiles and genotypic and phenotypic characters.
File Format	HTM / HTML
ISSN	07400020
Volume Number	38
e-ISSN	10959998
Journal	Food Microbiology
Language	English
Publisher	Elsevier
Publisher Date	2014-04-01
Publisher Place	Great Britain (UK)
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Discipline Microbiology Discipline Nutritional Sciences Minisatellite Repeats Multilocus Sequence Typing Methods Oenococcus Isolation & Purification Polymerase Chain Reaction Dna Primers Genetics Dna, Bacterial Molecular Sequence Data Classification Phylogeny Wine Microbiology Evaluation Studies Journal Article
Content Type	Text
Resource Type	Article
Subject	Microbiology Food Science

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Development of a multilocus variable number of tandem repeat typing method for Oenococcus oeni.

Oenococcus oeni strain typification by combination of Multilocus Sequence Typing and Pulsed Field Gel Electrophoresis analysis.

RNA fingerprinting analysis of Oenococcus oeni strains under wine conditions.

Multiple-locus variable number of tandem repeat analysis (MLVA) of Listeria monocytogenes directly in food samples.

Genotyping of dairy Bacillus licheniformis isolates by high resolution melt analysis of multiple variable number tandem repeat loci.

Use of propidium monoazide for the enumeration of viable Oenococcus oeni in must and wine by quantitative PCR.

Development of a variable number of tandem repeats typing scheme for the bacterial rice pathogen Xanthomonas oryzae pv. oryzicola.

Identification of an optimized panel of variable number tandem-repeat (VNTR) loci for Listeria monocytogenes typing.

IS30 elements are mediators of genetic diversity in Oenococcus oeni.

Multiplex variable number of tandem repeats for Oenococcus oeni and applications.

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Development of a multilocus variable number of tandem repeat typing method for Oenococcus oeni.

Oenococcus oeni strain typification by combination of Multilocus Sequence Typing and Pulsed Field Gel Electrophoresis analysis.

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