The online version of this article (https://doi.org/10.1186/s13099-018-0228-y) contains supplementary material, which is available to authorized users.
Lactobacillus pentosus SLC13 is a high exopolysaccharide (EPS)-producing strain with broad-spectrum antimicrobial activity and the ability to grow in simulated gastrointestinal conditions. SLC13 was isolated from mustard pickles in Taiwan for potential probiotic applications. To better understand the molecular base for its antimicrobial activity and high EPS production, entire genome of SLC13 was determined by PacBio SMRT sequencing.
L. pentosus SLC13 contains a genome with a 3,520,510-bp chromosome and a 62,498-bp plasmid. GC content of the complete genome was 46.5% and that of plasmid pSLC13 was 41.3%. Sequences were annotated at the RAST prokaryotic genome annotation server, and the results showed that the genome contained 3172 coding sequences and 82 RNA genes. Seventy-six protein-coding sequences were identified on the plasmid pSLC13. A plantaricin gene cluster, which is responsible for bacteriosins biosynthesis and could be associated with its broad-spectrum antimicrobial activity, was identified based on comparative genomic analysis. Two gene clusters involved in EPS production were also identified.
This genomic sequence might contribute to a future application of this strain as probiotic in productive livestock potentially inhibiting competing and pathogenic organisms.
Additional file 1: Figure S1. Genetic organization of eps gene cluster of L. pentosus SLC13 and L. plantarum WCFS1. The graphic is centered on the focus gene (tyrosine-protein kinase transmembrane modulator, epsC), which is red and numbered 1. Sets of genes with similar sequence are grouped with the same number and color. Genes whose relative position is conserved in at least four chromosome loci are functionally coupled and share gray background boxes. Gene number 2, UDP-glucose 4-epimerase; number 3, tyrosine-protein kinase epsD; number 4, manganese-dependent protein-tyrosine phosphatase; number 5, undecaprenyl-phosphate galactosephosphotransferas; number 6, excinuclease ABC subunit C; number 7, exopolysaccharide biosynthesis glycosyltransferase epsF; number 8, integrase/recombinase (putative); number 9, glutamine ABC transporter, ATP-binding protein; number 10, dTDP-4-dehydrorhamnose reductase. Figure S2. Genetic organization of genes for bacteriocins synthesis. (A). Genetic organization of pln gene cluster of L. pentosus SLC13 and L. plantarum WCFS1. The graphic is centered on the focus gene ( plnP), which is red and numbered 1. Sets of genes with similar sequence are grouped with the same number and color. Gene number 2, Three-component quorum-sensing regulatory system, sensor histidine kinase; number 3, Three-component quorum-sensing regulatory system, response regulator; number 4, plnL; number 5, Na(+)/H(+) antiporter; number 6, Branched-chain amino acid transport system carrier protein. (B). Genetic organization of putative class II bacteriocin on SLC13 chromosome predicted by BAGEL3 server. The gene for putative bacteriocin is shown in green.
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- Complete genome sequence of Lactobacillus pentosus SLC13, isolated from mustard pickles, a potential probiotic strain with antimicrobial activity against foodborne pathogenic microorganisms
Tony J. Fang
- BioMed Central
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