Genomic and phenotypic analyses of Carnobacterium jeotgali strain MS3T, a lactate-producing candidate biopreservative bacterium isolated from salt-fermented shrimp

Abstract

Carnobacterium jeotgali strain MS3(T) was isolated from traditionally fermented Korean shrimp produced with bay salt. The bacterium belongs to the family Carnobacteriaceae, produces lactic acid and contains gene clusters involved in the production of lactate, butyrate, aromatic compounds and exopolysaccharides. Carnobacterium jeotgali strain MS3(T) was characterized through extensive comparison of the virulence potential, genomic relatedness and sequence similarities of its genome with the genomes of other Carnobacteria and lactic acid bacteria. In addition, links between predicted functions of genes and phenotypic characteristics, such as antibiotic resistance and lactate and butyrate production, were extensively evaluated. Genomic and phenotypic analyses of strain MS3(T) revealed promising features, including minimal virulence genes and lactate production, which make this bacterium a desirable candidate for exploitation by the fermented food industry.

Comparative In silico Analysis of Butyrate Production Pathways in Gut Commensals and Pathogens

“…A preliminary analysis using HMM based approach (details in Section “Materials and Methods”) was performed on known butyrate producers (e.g., Faecalibacterium, Roseburia, Fusobacteria, Coprococcus ) to confirm the evolutionary conservation of clustered gene arrangement for all four butyrogenic pathways. The identified juxtaposed arrangement of genes ( Figure 2 ) constituting butyrate production pathways is in agreement with previously reported studies (Boynton et al, 1996; Li et al, 2012; Whon et al, 2015). Although, the domain order for each pathway differed across genomes, all genes of a pathway were found to occur in context with each other.…”

“…In order to overcome this drawback, apart from identifying homologs of these genes, it is important to consider their genomic locations in the organisms. The clustered genomic arrangement of genes comprising each of these butyrate producing pathways has also been reported earlier in a few bacteria (Boynton et al, 1996; Li et al, 2012; Whon et al, 2015). …”