Comparative genome analysis of four Leuconostoc strains with a focus on carbohydrate-active enzymes and oligosaccharide utilization pathways

Sharma, Anshul; Sharma, Neha; Gupta, Deepshikha; Lee, Hae‐Jeung

doi:10.1016/j.csbj.2022.08.032

Cited by 5 publications

(5 citation statements)

References 68 publications

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“…Members of GH13 family represented the largest proportion of all GHs predicted in 38 Ln. pseudomesenteroides genomes accounting for 18%, which is consistent with the previous report for genus Leuconostoc ( Sharma et al, 2022 ). GH13 is belong to alpha amylase group and possesses catalytic machinery and conserved sequence regions ( Martinovičová and Janeček, 2018 ).…”

Section: Discussionsupporting

confidence: 93%

“…GT2 and GT4 family members represented the largest proportion of GTs in Ln. pseudomesenteroides genomes accounting for 42% and 32%, respectively and in alignment with previous observations for Leuconostoc genus ( Sharma et al, 2022 ). Third largest member of GT family was GT51 involved in glycan metabolism.…”

Section: Discussionsupporting

confidence: 91%

“…Third largest member of GT family was GT51 involved in glycan metabolism. This enzymatic machinery degrades the complex polysaccharides of plants into mono- and oligosaccharides which could later be transported by ABC transporters ( Sharma et al, 2022 ). GTs are functional in forming the glycosidic bonds by transferring sugar component from sugar donor (i.e., activated) to acceptor compound ( Cantarel et al, 2009 ).…”

Section: Discussionmentioning

confidence: 99%

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Analyzing the genetic diversity and biotechnological potential of Leuconostoc pseudomesenteroides by comparative genomics

Gumustop

Ortakcı

2023

Front. Microbiol.

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Leuconostoc pseudomesenteroides is a lactic acid bacteria species widely exist in fermented dairy foods, cane juice, sourdough, kimchi, apple dumpster, caecum, and human adenoid. In the dairy industry, Ln. pseudomesenteroides strains are usually found in mesophilic starter cultures with lactococci. This species plays a crucial role in the production of aroma compounds such as acetoin, acetaldehyde, and diacetyl, thus beneficially affecting dairy technology. We performed genomic characterization of 38 Ln. pseudomesenteroides from diverse ecological niches to evaluate this species’ genetic diversity and biotechnological potential. A mere ~12% of genes conserved across 38 Ln. pseudomesenteroides genomes indicate that accessory genes are the driving force for genotypic distinction in this species. Seven main clades were formed with variable content surrounding mobile genetic elements, namely plasmids, transposable elements, IS elements, prophages, and CRISPR-Cas. All but three genomes carried CRISPR-Cas system. Furthermore, a type IIA CRISPR-Cas system was found in 80% of the CRISPR-Cas positive strains. AMBR10, CBA3630, and MGBC116435 were predicted to encode bacteriocins. Genes responsible for citrate metabolism were found in all but five strains belonging to cane juice, sourdough, and unknown origin. On the contrary, arabinose metabolism genes were only available in nine strains isolated from plant-related systems. We found that Ln. pseudomesenteroides genomes show evolutionary adaptation to their ecological environment due to niche-specific carbon metabolism and forming closely related phylogenetic clades based on their isolation source. This species was found to be a reservoir of type IIA CRISPR-Cas system. The outcomes of this study provide a framework for uncovering the biotechnological potential of Ln. pseudomesenteroides and its future development as starter or adjunct culture for dairy industry.

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Section: Discussionsupporting

confidence: 93%

Section: Discussionsupporting

confidence: 91%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Analyzing the genetic diversity and biotechnological potential of Leuconostoc pseudomesenteroides by comparative genomics

Gumustop

Ortakcı

2023

Front. Microbiol.

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“…The L. lactis CCK940, L. lactis SBC001, and W. cibaria YRK005 strains have glycosyltransferases (GTs), such as maltose phosphorylase and dextransucrase, which produce oligosaccharides [ 57 , 58 ]. These strains also have glycoside hydrolase (GH) genes, which utilize oligosaccharides, such as β-galactosidase and α-glucosidase (EC 3.2.1.20).…”

Section: Discussionmentioning

confidence: 99%

“…Furthermore, these strains have the β-galactosidase enzyme, which hydrolyzes lactose into glucose and galactose, as well as hydrolyzing a broad range of GOS (including oligosaccharides with 3–6 DP) [ 6 ]. An in silico analysis suggested that the three lactic acid bacterial strains contained enzymes synthesizing oligosaccharides [ 57 , 58 ].…”

Section: Discussionmentioning

confidence: 99%

Synergistic Immunostimulatory Activities of Probiotic Strains, Leuconostoc lactis and Weissella cibaria, and the Prebiotic Oligosaccharides They Produce

2023

Self Cite

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Synbiotics contain health-beneficial bacteria, i.e., probiotics and prebiotics selectively utilized by the probiotics. Herein, three probiotic strains, Leuconostoc lactis CCK940, L. lactis SBC001, and Weissella cibaria YRK005, and the oligosaccharides produced by these strains (CCK, SBC, and YRK, respectively) were used to prepare nine synbiotic combinations. Macrophages (RAW 264.7) were treated with these synbiotic combinations and the corresponding lactic acid bacteria and oligosaccharides alone to evaluate the treatments’ immunostimulatory activities. The level of nitric oxide (NO) production was significantly higher in the macrophages treated with the synbiotics than in those treated with the corresponding probiotic strains and the oligosaccharide alone. The immunostimulatory activities of the synbiotics increased regardless of the probiotic strain and the type of oligosaccharide used. The expressions of tissue necrosis factor-α, interleukin-1β, cyclooxygenase-2, inducible NO synthase genes, and extracellular-signal-regulated and c-Jun N-terminal kinases were significantly higher in the macrophages treated with the three synbiotics than in those treated with the corresponding strains or with the oligosaccharides alone. These results indicate that the synergistic immunostimulatory activities of probiotics and the prebiotics they produced in the studied synbiotic preparations resulted from the activation of the mitogen-activated protein-kinase-signaling pathway. This study suggests the combined use of these probiotics and prebiotics in the development of synbiotic preparations as health supplements.

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Genome analysis revealed a repertoire of oligosaccharide utilizing CAZymes in Weissella confusa CCK931 and Weissella cibaria YRK005

Sharma

Gupta

2023

Food Sci Biotechnol

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Comparative genome analysis of four Leuconostoc strains with a focus on carbohydrate-active enzymes and oligosaccharide utilization pathways

Cited by 5 publications

References 68 publications

Analyzing the genetic diversity and biotechnological potential of Leuconostoc pseudomesenteroides by comparative genomics

Analyzing the genetic diversity and biotechnological potential of Leuconostoc pseudomesenteroides by comparative genomics

Synergistic Immunostimulatory Activities of Probiotic Strains, Leuconostoc lactis and Weissella cibaria, and the Prebiotic Oligosaccharides They Produce

Genome analysis revealed a repertoire of oligosaccharide utilizing CAZymes in Weissella confusa CCK931 and Weissella cibaria YRK005

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