Complete Genome Sequence of
            <i>Lactobacillus plantarum</i>
            JDM1

Zhang, Zhuo-Yang; Liu, Chang; Zhu, Yongzhang; Zhong, Yi; Zhu, Yaping; Zheng, Huajun; Zhao, Guoping; Wang, Shengyue; Guo, Xin

doi:10.1128/jb.00587-09

Cited by 89 publications

(65 citation statements)

References 9 publications

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“…The GC content of the host strain L. plantarum ATCC 8014 was previously estimated at 45.1% (50), whereas genome sequencing of strain WCSF1 revealed a GC content of 44.5% (36,63). The genomes of two other L. plantarum strains also have GC contents of 44.5 to 44.7% (71,75). The GC contents were similar throughout the genomic sequences of both phages, although some noncoding regions in phage B2 were AT rich.…”

Section: Methodsmentioning

confidence: 78%

Characterization of Two Virulent Phages of Lactobacillus plantarum

Marcó

Garneau

Tremblay

et al. 2012

Appl Environ Microbiol

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We characterized two Lactobacillus plantarum virulent siphophages, ATCC 8014-B1 (B1) and ATCC 8014-B2 (B2), previously isolated from corn silage and anaerobic sewage sludge, respectively. Phage B2 infected two of the eight L. plantarum strains tested, while phage B1 infected three. Phage adsorption was highly variable depending on the strain used. Phage defense systems were found in at least two L. plantarum strains, LMG9211 and WCSF1. The linear double-stranded DNA genome of the pac-type phage B1 had 38,002 bp, a G؉C content of 47.6%, and 60 open reading frames (ORFs). Surprisingly, the phage B1 genome has 97% identity with that of Pediococcus damnosus phage clP1 and 77% identity with that of L. plantarum phage JL-1; these phages were isolated from sewage and cucumber fermentation, respectively. The double-stranded DNA (dsDNA) genome of the cos-type phage B2 had 80,618 bp, a G؉C content of 36.9%, and 127 ORFs with similarities to those of Bacillus and Lactobacillus strains as well as phages. Some phage B2 genes were similar to ORFs from L. plantarum phage LP65 of the Myoviridae family. Additionally, 6 tRNAs were found in the phage B2 genome. Protein analysis revealed 13 (phage B1) and 9 (phage B2) structural proteins. To our knowledge, this is the first report describing such high identity between phage genomes infecting different genera of lactic acid bacteria.

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Section: Methodsmentioning

confidence: 78%

Characterization of Two Virulent Phages of Lactobacillus plantarum

Marcó

Garneau

Tremblay

et al. 2012

Appl Environ Microbiol

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“…Taken together, our data suggest that glycosylation and the presence of tagE genes are common features in L. plantarum strains. Moreover, the sequence and length of Acm2 are highly similar in all sequenced L. plantarum strains, e.g., WCFS1 (46), ST-III (65), JDM1 (66), and NC8 (67) (785 residues) and ATCC 14917 (781 residues). This suggests that the Acm2 proteins of different L. plantarum strains may all have similar sizes as well as similar degrees of glycosylation and are represented by the universal abundant protein band around 100 kDa (Fig.…”

Section: Discussionmentioning

confidence: 98%

GtfA and GtfB Are Both Required for Protein O -Glycosylation in Lactobacillus plantarum

et al. 2014

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e Acm2, the major autolysin of Lactobacillus plantarum WCFS1, was recently found to be O-glycosylated with N-acetylhexosamine, likely N-acetylglucosamine (GlcNAc). In this study, we set out to identify the glycosylation machinery by employing a comparative genomics approach to identify Gtf1 homologues, which are involved in fimbria-associated protein 1 (Fap1) glycosylation in Streptococcus parasanguinis. This in silico approach resulted in the identification of 6 candidate L. plantarum WCFS1 genes with significant homology to Gtf1, namely, tagE1 to tagE6. These candidate genes were targeted by systematic gene deletion, followed by assessment of the consequences on glycosylation of Acm2. We observed a changed mobility of Acm2 on SDS-PAGE in the tagE5E6 deletion strain, while deletion of other tagE genes resulted in Acm2 mobility comparable to that of the wild type. Subsequent mass spectrometry analysis of excised and in-gel-digested Acm2 confirmed the loss of glycosylation on Acm2 in the tagE5E6 deletion mutant, whereas a lectin blot using GlcNAc-specific succinylated wheat germ agglutinin (sWGA) revealed that besides Acm2, tagE5E6 deletion also abolished all but one other sWGA-reactive, protease-sensitive signal. Only complementation of both tagE5 and tagE6 restored those sWGA lectin signals, establishing that TagE5 and TagE6 are both required for the glycosylation of Acm2 as well as the vast majority of other sWGA-reactive proteins. Finally, sWGA lectin blotting experiments using a panel of 8 other L. plantarum strains revealed that protein glycosylation is a common feature in L. plantarum strains. With the establishment of these enzymes as protein glycosyltransferases, we propose to rename TagE5 and TagE6 as GtfA and GtfB, respectively.

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“…Comparative genomic analysis indicated that the closest genome is that of Lactobacillus plantarum (4,9,10). Putative functions could be assigned to 82% of the encoded proteins, and the remaining 18% could not be placed (putative uncharacterized proteins).…”

mentioning

confidence: 96%

Genome Sequence of Lactobacillus pentosus IG1, a Strain Isolated from Spanish-Style Green Olive Fermentations

et al. 2011

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Lactobacillus pentosus is the most prevalent lactic acid bacterium in Spanish-style green olive fermentations. Here we present the draft genome sequence of L. pentosus IG1, a bacteriocin-producing strain with biotechnological and probiotic properties isolated from this food fermentations.Lactobacilli have been largely associated with food fermentations, and more recently, they have been used as probiotics, since they may promote health in humans and animals (6). Lactobacillus pentosus is the lactic acid bacterium most frequently isolated from Spanish-style green olive fermentations, and it has been successfully used as a starter culture for these fermentations (8).In addition, certain strains of L. pentosus have been shown to exert probiotic effects, improving the mucosal immunity and the resistance to bacterial infections (2, 5). The genome sequence of Lactobacillus pentosus IG1, a bile-resistant strain displaying bacteriocin activity against a wide range of spoilage and pathogen bacteria, will allow us to explore its biotechnological and probiotic properties.The whole genome of IG1 was sequenced using a paired-end strategy by pyrosequencing technology with the platform 454 Life Sciences, GS FLX Titanium system. The sequence data consisted of 8-kb paired-end libraries (481,661 reads totaling ϳ175.5 Mb, ϳ45-fold coverage of the genome). The paired-end reads were assembled into 13 scaffolds (3,982,537 nt), of which scaffold 1 (3,687,424 nt) corresponds to the entire chromosome, while scaffolds 2 (125,904 nt), 3 (77,782 nt), 4 (36,648 nt), 5 (21,059 nt), 6 (10,521 nt), 11 (2,654 nt), and 12 (2,509 nt) seem to belong to seven distinct plasmids, according to the plasmid profile obtained for L. pentosus IG1.The draft genome of L. pentosus IG1 includes 3,982,537 nucleotide bases, making it the biggest lactobacillus genome described to date. The GϩC content of the chromosome (scaffold 1) was determined to be 44.9 mol%. There is a single predicted copy of the 16S and 23S rRNAs, 3 copies of the 5S rRNA, and 44 predicted tRNAs. The genome contains 3,133 predicted coding sequences, of which 2,972 belong to scaffold 1.Comparative genomic analysis indicated that the closest genome is that of Lactobacillus plantarum (4, 9, 10). Putative functions could be assigned to 82% of the encoded proteins, and the remaining 18% could not be placed (putative uncharacterized proteins). Remarkably, this strain harbors 16 putative two-component regulatory systems, which may reflect an extensive ability to adapt to changing environmental conditions. L. pentosus IG1 contains several genes that could encode putative probiotic functions involved in adhesion (collagen-binding proteins, exopolysaccharides, lipoteichoic acids), resistance to stress (mannose phosphotransferase systems, bile salt hydrolases), and microbial competition (LuxS-mediated production of AI-2-and AI-3-like molecules and bacteriocin production). The genes responsible for the bacteriocin activity of L. pentosus IG1 are identical to those of the two-component class IIb bacteri...

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Complete Genome Sequence of Lactobacillus plantarum JDM1

Cited by 89 publications

References 9 publications

Characterization of Two Virulent Phages of Lactobacillus plantarum

Characterization of Two Virulent Phages of Lactobacillus plantarum

GtfA and GtfB Are Both Required for Protein O -Glycosylation in Lactobacillus plantarum

Genome Sequence of Lactobacillus pentosus IG1, a Strain Isolated from Spanish-Style Green Olive Fermentations

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