Genomic features of lactic acid bacteria effecting bioprocessing and health

Klaenhammer, Todd R.; Barrangou, Rodolphe; Buck, B. Logan; Azcárate-Peril, M. Andrea; Altermann, Eric

doi:10.1016/j.fmrre.2005.04.007

Cited by 205 publications

(156 citation statements)

References 77 publications

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“…In summary, L. salivarius UCC118 can synthesize de novo or by interconversion nine amino acids, can convert glutamine to three more, and is theoretically auxotrophic for eight amino acids. This level of auxotrophy makes it clearly more dependent on uptake of extracellular amino acids than L. plantarum, less dependent than L. acidophilus (auxotrophic for 14), and far less dependent than L. johnsonii or L. sakei (auxotrophic for 18). However, L. sakei has numerous other adaptations for living in the particular nutrient-rich meat environment (18) where extracellular compounds, including amino acids, are freely available.…”

Section: Resultsmentioning

confidence: 98%

“…The application of genomic technologies recently has led to major advances in our understanding of lactobacilli (13,14), through genome sequence determination for Lactobacillus plantarum, Lactobacillus johnsonii, Lactobacillus acidophilus, and Lactobacillus sakei (15)(16)(17)(18). L. plantarum has the largest Lactobacillus genome sequenced to date (3.3 Mb) and has a commensurate biochemical complexity.…”

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confidence: 99%

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Multireplicon genome architecture of Lactobacillus salivarius

Claesson

Li²,

Leahy³

et al. 2006

Proc. Natl. Acad. Sci. U.S.A.

199

185

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Lactobacillus salivarius subsp. salivarius strain UCC118 is a bacteriocin-producing strain with probiotic characteristics. The 2.13-Mb genome was shown by sequencing to comprise a 1.83 Mb chromosome, a 242-kb megaplasmid (pMP118), and two smaller plasmids. Megaplasmids previously have not been characterized in lactic acid bacteria or intestinal lactobacilli. Annotation of the genome sequence indicated an intermediate level of auxotrophy compared with other sequenced lactobacilli. No single-copy essential genes were located on the megaplasmid. However, contingency amino acid metabolism genes and carbohydrate utilization genes, including two genes for completion of the pentose phosphate pathway, were megaplasmid encoded. The megaplasmid also harbored genes for the Abp118 bacteriocin, a bile salt hydrolase, a presumptive conjugation locus, and other genes potentially relevant for probiotic properties. Two subspecies of L. salivarius are recognized, salivarius and salicinius, and we detected megaplasmids in both subspecies by pulsed-field gel electrophoresis of sizes ranging from 100 kb to 380 kb. The discovery of megaplasmids of widely varying size in L. salivarius suggests a possible mechanism for genome expansion or contraction to adapt to different environments.megaplasmid ͉ probiotic ͉ heterofermentation

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Section: Resultsmentioning

confidence: 98%

mentioning

confidence: 99%

Multireplicon genome architecture of Lactobacillus salivarius

Claesson

Li²,

Leahy³

et al. 2006

Proc. Natl. Acad. Sci. U.S.A.

199

185

View full text Add to dashboard Cite

show abstract

“…Some Lactobacillus species have been attributed with probiotic properties, implying 'living micro-organisms which upon ingestion in certain numbers exert health benefits beyond inherent nutrition' (Guarner & Schaafsma, 1998). This has added further incentive to detailed microbiological, biochemical and genomic studies of lactobacilli (Klaenhammer et al, 2005). Taxonomic analysis has already led to a recognition of the unusual diversity of the genus Lactobacillus Dellaglio & Felis, 2005b), and one objective of this study was to extend the 16S rRNA phylogeny of the lactobacilli and investigate its correlation with genomebased comparison.…”

Section: Introductionmentioning

confidence: 99%

“…Major differences were identified in reconstructed metabolic maps, biosynthetic capabilities and extracellular protein repertoires, providing a rational basis for directing experimental analyses. A focused comparative analysis of genome synteny and exopolysaccharide biosynthesis loci in L. acidophilus, L. plantarum, L. johnsonii and Lactobacillus gasseri has also been published (Klaenhammer et al, 2005), but exhaustive phylogenetic issues were not within the scope of that review.…”

Section: Introductionmentioning

confidence: 99%

Diversity of the genus Lactobacillus revealed by comparative genomics of five species

et al. 2006

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The genus Lactobacillus contains over 80 recognized species, and is characterized by a high level of diversity, reflected in its complex phylogeny. The authors' recent determination of the genome sequence of Lactobacillus salivarius means that five complete genomes of Lactobacillus species are available for comparative genomics: L. salivarius, L. plantarum, L. acidophilus, L. johnsonii and L. sakei. This paper now shows that there is no extensive synteny of the genome sequences of these five lactobacilli. Phylogeny based on whole-genome alignments suggested that L. salivarius was closer to L. plantarum than to L. sakei, which was closest to Enterococcus faecalis, in contrast to 16S rRNA gene relatedness. A total of 593 orthologues common to all five species were identified. Species relatedness based on this protein set was largely concordant with genome synteny-based relatedness. A Lactobacillus supertree, combining individual phylogenetic trees from each of 354 core proteins, had four main branches, comprising L. salivarius-L. plantarum; L. sakei; E. faecalis; and L. acidophilus-L. johnsonii. The extreme divergence of the Lactobacillus genomes analysed supports the recognition of new subgeneric divisions.

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“…Several species of the genus Lactobacillus have been widely used as adjunct cultures for the production of various commodities, which can influence human health (Klaenhammer et al 2005). They are often used for their bioprocessing role as starters in dairy products where they play an important role in human nutrition.…”

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confidence: 99%

Differentiation of Lactobacillus species by ARDRA

Kšicová¹,

Dušková²,

Karpíšková³

2013

Czech J. Food Sci.

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Kšicová † K., Dušková M., Karpíšková R. (2013): Differentiation of Lactobacillus species by ARDRA. Czech J. Food Sci., 31: 180-188.The Lactobacillus species by 16S Amplified Ribosomal DNA Restriction Analysis (16S-ARDRA) was identified. Lactobacilli are bacteria often found in foodstuffs of both animal and vegetable origins. On one hand, they play an important role in the food spoilage and, on the other hand, they are used as starter cultures in food fermentation processes. The species-specific identification by traditional biochemical methods is time consuming and not always fully effective. Therefore, more efficient techniques are searched for. We focused on rapid identification of Lactobacillus isolates from different habitats. Forty-nine collection strains and isolates belonging to the genus Lactobacillus were discriminated. ARDRA was carried out with two restriction endonucleases. For the comparison of similarity, the Jaccard coefficient and clustering by the unweighted pair group method with arithmetic averages (UPGMA) were used. The percentages of similarity between profiles varied from 22% to 100% (aluI) and from 27% to 100% (MspI). This method proved applicable to the differentiation of 10 species.

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Genomic features of lactic acid bacteria effecting bioprocessing and health

Cited by 205 publications

References 77 publications

Multireplicon genome architecture of Lactobacillus salivarius

Multireplicon genome architecture of Lactobacillus salivarius

Diversity of the genus Lactobacillus revealed by comparative genomics of five species

Differentiation of Lactobacillus species by ARDRA

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