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Safety Assessment of a Nham Starter Culture Lactobacillus plantarum BCC9546 via Whole-genome Analysis
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Document Title
Safety Assessment of a Nham Starter Culture Lactobacillus plantarum BCC9546 via Whole-genome Analysis
Author
Chokesajjawatee N, Santiyanont P, Chantarasakha K, Kocharin K, Thammarongtham C, Lertampaiporn S, Vorapreeda T, Srisuk T, Wongsurawat T, Jenjaroenpun P, Nookaew I, Visessanguan W
Name from Authors Collection
Scopus Author ID
57189353906
Scopus Author ID
54880593800
Affiliations
National Science & Technology Development Agency - Thailand; National Center Genetic Engineering & Biotechnology (BIOTEC); King Mongkuts University of Technology Thonburi; University of Arkansas System; University of Arkansas Medical Sciences
Type
Article
Source Title
SCIENTIFIC REPORTS
ISSN
2045-2322
Year
2020
Volume
10
Issue
1
Page
-
Open Access
Green Published, gold
Publisher
NATURE RESEARCH
DOI
10.1038/s41598-020-66857-2
Format
Abstract
The safety of microbial cultures utilized for consumption is vital for public health and should be thoroughly assessed. Although general aspects on the safety assessment of microbial cultures have been suggested, no methodological detail nor procedural guideline have been published. Herein, we propose a detailed protocol on microbial strain safety assessment via whole-genome sequence analysis. A starter culture employed in traditional fermented pork production, nham, namely Lactobacillus plantarum BCC9546, was used as an example. The strain's whole-genome was sequenced through several next-generation sequencing techniques. Incomplete plasmid information from the PacBio sequencing platform and shorter chromosome size from the hybrid Oxford Nanopore-Illumina platform were noted. The methods for 1) unambiguous species identification using 16S rRNA gene and average nucleotide identity, 2) determination of virulence factors and undesirable genes, 3) determination of antimicrobial resistance properties and their possibility of transfer, and 4) determination of antimicrobial drug production capability of the strain were provided in detail. Applicability of the search tools and limitations of databases were discussed. Finally, a procedural guideline for the safety assessment of microbial strains via whole-genome analysis was proposed.
Industrial Classification
Knowledge Taxonomy Level 1
Knowledge Taxonomy Level 2
Funding Sponsor
National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency, Thailand [P-17-52209]
License
CC BY
Rights
Authors
Publication Source
WOS