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Mar. Drugs 2018, 16(5), 140; https://doi.org/10.3390/md16050140

Genome-Wide Comparison Reveals a Probiotic Strain Lactococcus lactis WFLU12 Isolated from the Gastrointestinal Tract of Olive Flounder (Paralichthys olivaceus) Harboring Genes Supporting Probiotic Action

1
Department of Aquatic Life Medicine, College of Fisheries Science, Pukyong National University, Busan 48513, Korea
2
Institute of Applied Science, Ho Chi Minh City University of Technology, Ho Chi Minh City 700000, Vietnam
*
Author to whom correspondence should be addressed.
Received: 30 January 2018 / Revised: 6 April 2018 / Accepted: 19 April 2018 / Published: 24 April 2018
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Abstract

Our previous study has shown that dietary supplementation with Lactococcus lactis WFLU12 can enhance the growth of olive flounder and its resistance against streptococcal infection. The objective of the present study was to use comparative genomics tools to investigate genomic characteristics of strain WFLU12 and the presence of genes supporting its probiotic action using sequenced genomes of L. lactis strains. Dispensable and singleton genes of strain WFLU12 were found to be more enriched in genes associated with metabolism (e.g., energy production and conversion, and carbohydrate transport and metabolism) than pooled dispensable and singleton genes in other L. lactis strains, reflecting WFLU12 strain-specific ecosystem origin and its ability to metabolize different energy sources. Strain WFLU12 produced antimicrobial compounds that could inhibit several bacterial fish pathogens. It possessed the nisin gene cluster (nisZBTCIPRKFEG) and genes encoding lysozyme and colicin V. However, only three other strains (CV56, IO-1, and SO) harbor a complete nisin gene cluster. We also found that L. lactis WFLU12 possessed many other important functional genes involved in stress responses to the gastrointestinal tract environment, dietary energy extraction, and metabolism to support the probiotic action of this strain found in our previous study. This strongly indicates that not all L. lactis strains can be used as probiotics. This study highlights comparative genomics approaches as very useful and powerful tools to select probiotic candidates and predict their probiotic effects. View Full-Text
Keywords: probiotics; genes; pan-genome analysis; comparative genomics; carbohydrate utilization probiotics; genes; pan-genome analysis; comparative genomics; carbohydrate utilization
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Nguyen, T.L.; Kim, D.-H. Genome-Wide Comparison Reveals a Probiotic Strain Lactococcus lactis WFLU12 Isolated from the Gastrointestinal Tract of Olive Flounder (Paralichthys olivaceus) Harboring Genes Supporting Probiotic Action. Mar. Drugs 2018, 16, 140.

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