Whole Genome Sequence and In Silico Analysis of Probiotic Potential of Limosilactobacillus fermentum PC-10 and PC-76 Isolated from Poultry Gut | [Pakistan Journal of Zoology • 2025]

Author(s):

1. Adnan Mehmood: Institute of Microbiology, University of Veterinary and Animal Sciences,Lahore ,Pakistan

2. Muhammad Nawaz: Institute of Microbiology, University of Veterinary and Animal Sciences,Lahore, Pakistan

3. Masood Rabbani: Institute of Microbiology, University of Veterinary and Animal Sciences,Lahore,Pakistan

4. Muhammad Hassan Mushtaq: Department of Epidemiology and Public Health, University of Veterinary and Animal Sciences,Lahore ,Pakistan

Abstract:

The Limosilactobacillus fermentum (PC-10 and PC-76) originally isolated from poultry gut have displayed antibacterial activity against Salmonella Gallinarum and potential in vitro probiotic properties. The aim of this study was to elucidate the genetic traits associated with probiotic characteristics and to assess the safety of these strains. Using illumina sequencing technology the entire genome of isolates (PC-10 and PC-76) was sequenced and annotated for the characterization of probiotic proteins at genomic level. The genomic features of isolates were analyzed by Circular Genome (CG) View server. The results showed that complete circular chromosomes of strains are approximately 2MB including GC content, coding sequences, tRNA, ncRNA and mRNA. The comparison of genome by Orthovenn2 tool using orthologous cluster genes and evolutionary tree constructed by TYGS server showed their close association with L. fermentum. Several genes encoding for probiotic properties such as resistance to acidic pH and bile salts, oxidative stress, adhesion to gut and stress (heat and cold) conditions were identified by KEGG. In silico analysis evidenced the presence of probiotic markers that perform different functions in hosts such as acid tolerance and resistance to bile salts, aggregation and improved survival under stress conditions. Moreover, these isolates possess the CRISPR region in their genome and are considered safe, as they have no acquired antibiotic resistance genes or prophage loci. These findings suggest that L. fermentum (PC-10 and PC-76) presents promising probiotic traits, further investigation is required to evaluate their biological and health promoting effects in chicken

Page(s): 1607-1618

DOI: 10.17582/journal.pjz/20230818034435

Published: Journal: Pakistan Journal of Zoology, Volume: 57, Issue: 4, Year: 2025

Keywords:

probiotic , Phylogenetic analysis , whole genome sequencing , AntiSalmonella Gallinarum , Comparative genomic , Limosilactobacillus fermentum

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