Genome Sequence of Lactobacillus plantarum Strain UCMA 3037

Naz, Sumera; Tareb, Raouf; Bernardeau, Marion; Vaisse, Melissa; Lucchetti-Miganeh, Céline; Rechenmann, Mathias; Vernoux, Jean-Paul

doi:10.1128/genomea.00251-13

Cited by 3 publications

(1 citation statement)

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“…Further, comparative genomics has enabled insights into the genomic features that are unique for L. fermentum strains [ 32 ]. Genome sequencing of particular L. plantarum strains elucidated niche adaptations [ 33 , 34 ], probiotic properties [ 35 – 38 ], prophage occurrence [ 39 – 41 ], general metabolic properties [ 42 – 46 ], and bacteriocin production [ 47 ]. Therefore, it can be expected that whole-genome sequence analysis of the cocoa-derived L. fermentum 222 and L. plantarum 80 strains, isolates from a spontaneous Ghanaian cocoa bean fermentation process and proposed as interesting functional starter culture strains [ 7 , 25 , 26 ], will provide detailed insight into their genetic potential, metabolic capacities and functionalities as well as cocoa niche adaptations.…”

Section: Introductionmentioning

confidence: 99%

Comparative genome analysis of the candidate functional starter culture strains Lactobacillus fermentum 222 and Lactobacillus plantarum 80 for controlled cocoa bean fermentation processes

2015

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BackgroundLactobacillus fermentum 222 and Lactobacillus plantarum 80, isolates from a spontaneous Ghanaian cocoa bean fermentation process, proved to be interesting functional starter culture strains for cocoa bean fermentations. Lactobacillus fermentum 222 is a thermotolerant strain, able to dominate the fermentation process, thereby converting citrate and producing mannitol. Lactobacillus plantarum 80 is an acid-tolerant and facultative heterofermentative strain that is competitive during cocoa bean fermentation processes. In this study, whole-genome sequencing and comparative genome analysis was used to investigate the mechanisms of these strains to dominate the cocoa bean fermentation process.ResultsThrough functional annotation and analysis of the high-coverage contigs obtained through 454 pyrosequencing, plantaricin production was predicted for L. plantarum 80. For L. fermentum 222, genes encoding a complete arginine deiminase pathway were attributed. Further, in-depth functional analysis revealed the capacities of these strains associated with carbohydrate and amino acid metabolism, such as the ability to use alternative external electron acceptors, the presence of an extended pyruvate metabolism, and the occurrence of several amino acid conversion pathways. A comparative genome sequence analysis using publicly available genome sequences of strains of the species L. plantarum and L. fermentum revealed unique features of both strains studied. Indeed, L. fermentum 222 possessed genes encoding additional citrate transporters and enzymes involved in amino acid conversions, whereas L. plantarum 80 is the only member of this species that harboured a gene cluster involved in uptake and consumption of fructose and/or sorbose.ConclusionsIn-depth genome sequence analysis of the candidate functional starter culture strains L. fermentum 222 and L. plantarum 80 revealed their metabolic capacities, niche adaptations and functionalities that enable them to dominate the cocoa bean fermentation process. Further, these results offered insights into the cocoa bean fermentation ecosystem as a whole and will facilitate the selection of appropriate starter culture strains for controlled cocoa bean fermentation processes.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-015-1927-0) contains supplementary material, which is available to authorized users.

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Section: Introductionmentioning

confidence: 99%

Comparative genome analysis of the candidate functional starter culture strains Lactobacillus fermentum 222 and Lactobacillus plantarum 80 for controlled cocoa bean fermentation processes

2015

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New insights in antibiotic resistance of Lactobacillus species from fermented foods

Abriouel

Muñoz

Lerma

et al. 2015

Food Research International

134

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Nomadic Lifestyle ofLactobacillus plantarumRevealed by Comparative Genomics of 54 strains Isolated from Different Niches

Martino

Bayjanov²,

Caffrey

et al. 2016

Preprint

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The ability of many bacteria to adapt to diverse environmental conditions is well known. Recent research has linked the process of bacterial adaptation to a niche to changes in the genome content and size, showing that many bacterial genomes reflect the constraints imposed by their habitat. However, some highly versatile bacteria are found in diverse niches that almost share nothing in common.Lactobacillus plantarum is a lactic acid bacterium that is found in a large variety of niches. With the aim of unravelling the link between genome evolution and ecological versatility of L. plantarum, we analysed the genomes of 54 L. plantarum strains isolated from different environments. Phylogenomic analyses coupled with the study of genetic functional divergence and gene-trait matching analysis revealed a mixed distribution of the strains, which was uncoupled from their environmental origin. Our findings demonstrate the high complexity of L. plantarum evolution, revealing the absence of specific genomic signatures marking adaptations of this species towards the diverse habitats it is associated with. This suggests fundamentally similar and parallel trends of genome evolution in L. plantarum, which occur in a manner that is apparently uncoupled from ecological constraint and reflects the nomadic lifestyle of this species.not peer-reviewed)

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Genome Sequence of Lactobacillus plantarum Strain UCMA 3037

Abstract: Nucleic acid of the strain Lactobacillus plantarum UCMA 3037, isolated from raw milk camembert cheese in our laboratory, was sequenced. We present its draft genome sequence with the aim of studying its functional properties and relationship to the cheese ecosystem.

Cited by 3 publications

References 11 publications

Comparative genome analysis of the candidate functional starter culture strains Lactobacillus fermentum 222 and Lactobacillus plantarum 80 for controlled cocoa bean fermentation processes

Comparative genome analysis of the candidate functional starter culture strains Lactobacillus fermentum 222 and Lactobacillus plantarum 80 for controlled cocoa bean fermentation processes

New insights in antibiotic resistance of Lactobacillus species from fermented foods

Nomadic Lifestyle ofLactobacillus plantarumRevealed by Comparative Genomics of 54 strains Isolated from Different Niches

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