16S rRNA gene flow in Enterococcus spp. and SNP analysis: A reliable approach for specie level identification. (August 2022)

• Record Type: Journal Article
• Authors: Hayat, Zafar; Shahzad, Khuram; Ali, Habib; Casini, Ryan; Naveed, Khalid; Hafeez, Ahmed; El-Ansary, Diaa O.; Elansary, Hosam O.; Fiaz, Sajid; Abaid-Ullah, Muhammad; Hafeez, Fauzia Yusuf; Iqbal, Muhammad Shahid; Ullah, Anwar
• Is Part Of: Biochemical systematics and ecology. Volume 103(2022)
• Publication Date: 2022-08
• Subjects: Enterococcus durans -- 16S rRNA gene -- SNP Analysis -- Clonal population -- AMOVA; Chemotaxonomy -- Periodicals; Biochemical variation -- Periodicals; Ecology -- Periodicals; Biochemistry -- Periodicals; Ecology -- Periodicals; Chimiotaxinomie -- Périodiques; Variation biochimique -- Périodiques; Écologie -- Périodiques; 578.012
• DOI: 10.1016/j.bse.2022.104445
• Languages: English
• ISSNs: 0305-1978

Abstract

Abstract: Background: A major task of biodiversity researchers is speciation and understanding the processes of divergence. This type of research can provide a clear understanding of the mechanisms that produce biodiversity. We analyzed the 16S rRNA gene data by utilizing multivariate statistics for analyses of microbial community structures. Results: The 16S rRNA gene is the most widely applied genetic marker to study microbial community studies and their phylogenetic relationship. The groups were created by several clustering methods to visualize the relationship among the individuals, but overall, clustering methods did not influence the grouping of individuals in the population structure. The statistical tools applied in this study indicate the clonal population. According to the AMOVA test, the genetic difference was very low within populations (0.69) compared to between samples (5.85). Conclusion: The haplotype network, dendrogram, minimum spanning network, and secondary structure prediction results confirmed that the S2C isolate is E. durans . Highlights: The 16S rRNA gene is the most widely applied genetic marker to study microbial community studies and their phylogenetic relationship. In this study, a total of 31 species (1 S2C isolate and 30 reference isolates) of Enterococcus were used to explore the genetic diversity among them. The genetic difference was very low within populations (0.69) compared to between samples (5.85).