Assessment of the whole genome sequencing of Lactiplantibacillus plantarum 13-3 for elucidation of novel bacteriocin producing gene cluster and confirmation of its potential probiotic functionality and safety applications

ABSTRACT

Lactiplantibacillus plantarum is a probiotic starter culture that improves the flavor and nutritional content of fermented foods. It also shows potential in enhancing mucosal and systemic immunity, which contributes to overall health. We aimed to examine the complex genetic composition of the L. plantarum 13–3 via a detailed analysis of comparative genomics and our findings discovered that this genome displays high efficacy and conciseness as a nutrition enhancer, encompassing a cumulative sum of 2921 genes encoding proteins and a GC content of 45%. This study clarifies the evolutionary lineage of L. plantarum strains by examining the level of gene order conservation and synteny across various strains. Our strain has been found to possess a range of genetic components, including bacteriocin gene clusters and prophage regions, which indicates its potential applicability in various fields, including biotechnology and medicine. The unique genetic components have the potential to reveal novel therapeutic and biotechnological applications in the future.

KEYWORDS:

• L. plantarum
• comparative genomics
• evolutionary study
• pangenomics
• functional genotyping

Acknowledgments

The authors greatly acknowledge and express their gratitude to the Researchers Supporting Project number (RSPD2024R568), King Saud University, Riyadh, Saudi Arabia.

Disclosure statement

No potential conflict of interest was reported by the author(s).

Author contributions

Conceptualization, T.A, M.N, M.A.S, A.S, A.W, and Y.Z; methodology, T.A, M.N, M.A.S, A.S, A.A.K, and Y.Z; software, M.A; validation, A.A.S; formal analysis, S.N, and N.N.; investigation, T.A, M.N, M.A., A.S, A.F.A, and Y.Z; resources, Y.Z; M.A and A.A.S.; data curation, A.Z, and I.S.; writing – original draft preparation, T.A, and M.N.; writing – review and editing, M.A., T.H.A, A.F.A; visualization, A.A.S and M.A.S; supervision, Y.Z.; project administration, M.J.R and AZ; funding acquisition, Y.Z.

Data availability statement

All the data generated during this research work has been included in this manuscript.

Supplementary material

Supplemental data for this article can be accessed online at https://doi.org/10.1080/19476337.2024.2329753.

Additional information

Funding

This research work was financially supported by the National Natural Science Foundation of China [Project No. 32272296].