Next-generation sequencing reveals significant bacterial diversity of botrytized wine.

PloS One
N A BokulichD A Mills

Abstract

While wine fermentation has long been known to involve complex microbial communities, the composition and role of bacteria other than a select set of lactic acid bacteria (LAB) has often been assumed either negligible or detrimental. This study served as a pilot study for using barcoded amplicon next-generation sequencing to profile bacterial community structure in wines and grape musts, comparing the taxonomic depth achieved by sequencing two different domains of prokaryotic 16S rDNA (V4 and V5). This study was designed to serve two goals: 1) to empirically determine the most taxonomically informative 16S rDNA target region for barcoded amplicon sequencing of wine, comparing V4 and V5 domains of bacterial 16S rDNA to terminal restriction fragment length polymorphism (TRFLP) of LAB communities; and 2) to explore the bacterial communities of wine fermentation to better understand the biodiversity of wine at a depth previously unattainable using other techniques. Analysis of amplicons from the V4 and V5 provided similar views of the bacterial communities of botrytized wine fermentations, revealing a broad diversity of low-abundance taxa not traditionally associated with wine, as well as atypical LAB communities initially detected...Continue Reading

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Citations

Dec 7, 2013·Proceedings of the National Academy of Sciences of the United States of America·Jack A GilbertIratxe Zarraonaindia
Mar 25, 2014·Journal of Industrial Microbiology & Biotechnology·Vanessa DavidHervé Alexandre
Nov 28, 2013·Proceedings of the National Academy of Sciences of the United States of America·Nicholas A BokulichDavid A Mills
Nov 30, 2012·Annual Review of Food Science and Technology·Melissa IveyTrevor G Phister
Apr 30, 2014·Annual Review of Microbiology·Jan Steensels, Kevin J Verstrepen
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Dec 4, 2012·Nature Methods·Nicholas A BokulichJ Gregory Caporaso
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May 23, 2015·Food Microbiology·Nicholas A BokulichDavid A Mills
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Jun 20, 2017·Applied and Environmental Microbiology·Francesca De FilippisDanilo Ercolini

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Methods Mentioned

BETA
electrophoresis
amplicon sequencing
PCR

Software Mentioned

MiCA
IBEST
QIIME Project
R
Peak Scanner
QIIME
TRFLP
UniFrac
UCLUST
CASAVA

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