Comparative genomics analysis of Pediococcus acidilactici species

Li, Zhenzhen; Song, Qi; Wang, Mingming; Ren, Jinhan; Liu, Songling; Zhao, Shancen

doi:10.1007/s12275-021-0618-6

Cited by 15 publications

(13 citation statements)

References 58 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Commonly, P . acidilactici contain pediocin PA-1, enterolycin A and colicin-B 41 , although, we identified only enterolycin A for two strains (Fig. 6 ).…”

Section: Discussionmentioning

confidence: 70%

See 1 more Smart Citation

Genomic analysis and in vivo efficacy of Pediococcus acidilactici as a potential probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections

Al‐Emran¹,

Moon²,

Miah³

et al. 2022

Sci Rep

View full text Add to dashboard Cite

Lactic acid bacteria are the well acknowledged probiotics that can cure a variety of diseases. In this study, we observed the in vivo potentials of Pediococcus to treat hyperglycemia, hypercholesterolemia and gastrointestinal infections. A total of 77 Lactobacillus were isolated from the milk of 10 cows and 10 goats, four of those strains inhibited both carbohydrates-hydrolyzing enzymes, α-glucosidase, and α-amylase. They all showed antagonistic effects on pathogenic E. coli and S. Typhimurium which were confirmed by performing pathogen challenge test and visualizing on Electron microscopy. 16S rRNA gene sequence identified that all four strains belong to Pediococcus genus which were further distinguished as Pediococcus acidilactici by pheS gene sequence. Whole genome sequence analysis revealed their non-pathogenic properties for human and the presence of probiotic genes responsible for stress resistance, immunomodulation, adhesion, metal and drug resistance. In vivo trial with diabetes-induced mice ascertained that all Pediococcus acidilactici had significant potentials to reduce elevated glucose and low-density lipoprotein level in blood. Interestingly, two out of four strains were significantly more effective (p < 0.0001 each) than metformin in reducing the blood glucose level. This in vivo study demonstrated that Pediococcus acidilactici might be a promising probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections.

show abstract

“…Commonly, P . acidilactici contain pediocin PA-1, enterolycin A and colicin-B 41 , although, we identified only enterolycin A for two strains (Fig. 6 ).…”

Section: Discussionmentioning

confidence: 70%

“…All three strains in this study possessed complete type II CRISPR/Cas defense system like other P. acidilactici studies previously 40 . Commonly, P. acidilactici contain pediocin PA-1, enterolycin A and colicin-B 41 , although, we identified only enterolycin A for two strains (Fig. 6).…”

Section: Discussionmentioning

confidence: 74%

Genomic analysis and in vivo efficacy of Pediococcus acidilactici as a potential probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections

Al‐Emran¹,

Moon²,

Miah³

et al. 2022

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Total CDS in each genome ranged from 1,825 to 2,359 proposing variability across Ln. pseudomesenteroides genomes ( Li et al, 2021 ). To approximate the overall gene pool of Ln.…”

Section: Resultsmentioning

confidence: 99%

“…pseudomesenteroides revealed an open genome, resulting in this species' functional diversity (Li et al, 2021). It is generally accepted that broadly distributed bacterial species often carry open pangenomes, which leads to the acquisition of alien genes from the environmental niche and adjust against environmental conditions such as E. coli (Fu and Qin, 2012), Bacillus cereus (Bazinet, 2017), and Streptococcus pneumonia (Tettelin et al, 2008).…”

Section: Discussionmentioning

confidence: 99%

“…pseudomesenteroides genome, occasional transposition of these elements to the other regions of the genome is a significant contributor to genomic plasticity and the evolution of bacteria ( Arber, 1991 ). The foreign DNA acquired from transposition results in the existence of the CRISPR-Cas system in variable sites of bacterial species ( Li et al, 2021 ), which confers adaptive immunity to bacterial species to combat invasive elements ( Barrangou et al, 2007 ).…”

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.

View full text Add to dashboard Cite

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.

show abstract

Population and functional genomics of lactic acid bacteria, an important group of food microorganism: Current knowledge, challenges, and perspectives

Li,

Wu,

Kwok

et al. 2023

Food Frontiers

View full text Add to dashboard Cite

Lactic acid bacteria (LAB) are widely used in the food industry, but little is known about their population genomics, hindering our understanding of their genetic background and evolution. To better understand the evolution of LAB and their potential applications to related food production, we conducted a scoping review of the literature focusing on genomic issues related to LAB. The research progress of LAB population and functional genomics was summarized by sorting the literature of LAB genomics research in the last 10–15 years. According to the existing evidence, the formation mechanism of characteristics of LAB and their habitat adaptive evolution directed by genome decay and horizontal gene transfer were elucidated. The major evolutionary driving forces of LAB are mutations and horizontal gene transfer (HGT) events with or without the involvement of mobile genetic elements instead of recombination. We also underline the application of LAB genome in food safety and properties. Collectively, this review paper provides up‐to‐date information of the population and functional genomics of LAB, current challenges in the field, and suggestions for improving the exploitation and application of LAB resources.

show abstract

Comparative genomics analysis of Pediococcus acidilactici species

Cited by 15 publications

References 58 publications

Genomic analysis and in vivo efficacy of Pediococcus acidilactici as a potential probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections

Genomic analysis and in vivo efficacy of Pediococcus acidilactici as a potential probiotic to prevent hyperglycemia, hypercholesterolemia and gastrointestinal infections

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

Population and functional genomics of lactic acid bacteria, an important group of food microorganism: Current knowledge, challenges, and perspectives

Contact Info

Product

Resources

About