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Whole-genome analysis suggesting probiotic potential and safety properties of Pediococcus pentosaceus DSPZPP1, a promising LAB strain isolated from traditional fermented sausages of the Basilicata region (Southern Italy)

“…In our analysis, the P. pentosaceus DSPZPP1 genome shows the presence of the pediocinlike bacteriocin gene penocin A, a class II bacteriocin. Class II pediocin-like bacteriocins are an important and dominant group of antimicrobial peptides that have common features in gene clusters, the structural genes coding for the central peptide, the gene coding for the immune protein and the transporter genes (Papagianni and Anastasiadou, 2009;Cui et al, 2012;Collins et al, 2017;Chen et al, 2020;Tatsaporn and Kornkanok, 2020;Oliveira et al, 2023). In this study, the identified operon of penocin A presented the necessary genes and it is a cluster of biosynthetic genes encoding bacteriocin (Miller et al, 2005;Drider et al, 2006).…”

“…Functional annotation analysis highlights the presence of gene sequences responsible for central carbohydrates and metabolism of proteins/amino acids, biosynthesis, and degradation of different compounds, such as cell envelope components, and for transport Overview of pediocin-like bacteriocin gene Penocin A in the draft genome of P. pentosaceus DSPZPP1. Tathode et al 10.3389/fmicb.2024.1268216 Frontiers in Microbiology 11 frontiersin.org mechanisms, marking important features in probiotic strains (Oliveira et al, 2023). Moreover, the tolerance to acids and bile was another significant characteristic in LAB because the strains must resist transit and the complexity of the gastrointestinal tract to perform its probiotic functional role.…”

“…Moreover, the tolerance to acids and bile was another significant characteristic in LAB because the strains must resist transit and the complexity of the gastrointestinal tract to perform its probiotic functional role. In the P. pentosaceus DSPZPP1 genome, the F0F1-ATPase synthase complex proteins and general stress response genes are bacterial defense mechanisms that allow strains to respond and thrive in rapidly changing environmental conditions ensuring the proper functioning of DNA repair and structure pathways (Cotter and Hill, 2003;Sanchez et al, 2008;Oliveira et al, 2023). Functional annotation analysis also revealed the potential of P. pentosaceus DSPZPP1 strain to biosynthesize different naturally occurring watersoluble vitamin B molecules including riboflavin, biotin, and folate [see Supplementary Table S1 (RASTDetailedSubsystemAnnotation)].…”

“…Another majority class of enzymes involved in carbohydrate metabolism was that of GHs with an important role in the hydrolysis of the carbohydrate glycosidic bonds; among the 20 GHs belonging to 11 families, the genes responsible for the synthesis of β-glucosidase (GH1), β-galactosidase (GH2), α-glucosidase (GH13) are present in the genome of DSPZPP1 strain. These enzymes are fundamental in the development of the strain in different environments as they act in the metabolism of sugars, such as lactose, sucrose, and oligosaccharides (Vera et al, 2020;Drula et al, 2022;Oliveira et al, 2023). Moreover, enzymes of the family GH73 were also detected, which are responsible for the cleavage of the β-1,4-glycosidic linkage between N-acetylglucosamine (NAG) and N-acetylmuramic acid (NAM) of bacterial peptidoglycan; because of their cleavage specificity, they are commonly described as β-N-acetylglucosaminidases.…”

“…Different LAB strains including P. pentosaceus are used in various food industry applications (Lv et al, 2014;Torres-Miranda et al, 2022;Oliveira et al, 2023). Therefore, it is important to Overview of RAST functional annotation results for the draft genome of P. pentosaceus DSPZPP1.…”