Genome Characterization of Streptococcus mitis KHUD 011 Isolated from the Oral Microbiome of a Healthy Korean Individual
10.5856/JKDS.2025.18.1.20
- Author:
Eun-Young JANG
1
;
Doyun KU
;
Seok Bin YANG
;
Cheul KIM
;
Jae-Hyung LEE
;
Ji-Hoi MOON
Author Information
1. Department of Oral Microbiology, College of Dentistry, Kyung Hee University, Seoul, Korea
- Publication Type:ORIGINAL ARTICLE
- From:Journal of Korean Dental Science
2025;18(1):20-29
- CountryRepublic of Korea
- Language:English
-
Abstract:
Purpose:This study aimed to perform a genome characterization of Streptococcus mitis KHUD 011, a strain isolated from the oral microbiome of a healthy Korean individual, and to compare its genomic features with other S. mitis strains.
Materials and Methods:The strain was identified through 16S rRNA gene sequencing, and its genome was sequenced using the PacBio Sequel II platform. De novo assembly and annotation were performed, followed by comparative genomic analysis with three additional strains (S. mitis NCTC 12261, S022-V3-A4, and B6). Pan-genome and phylogenetic analyses were conducted to identify strain-specific genes and assess inter-strain genomic diversity.
Results:The genome of S. mitis KHUD 011 consisted of 1,782 protein-coding genes, with a G+C content of 40.24%. Pan-genome analysis identified 1,263 core gene clusters (50.0%), 496 dispensable clusters (19.7%), and 763 strain-specific clusters (30.3%). KHUD 011 displayed 88 strain-specific genes, particularly associated with cell wall/membrane biogenesis, transcriptional regulation, and carbohydrate metabolism. Phylogenetic analysis placed KHUD 011 closely with NCTC 12261, forming a distinct cluster apart from other strains.
Conclusion:The genome characterization of S. mitis KHUD 011 underscores substantial inter-strain genomic diversity influenced by host interactions, ecological niches, and health status. The identified strain-specific genes, particularly those associated with cell wall/ membrane biogenesis, transcriptional regulation, and carbohydrate metabolism, suggest adaptations to the oral microbiome and its interaction with the host. These findings highlight the ecological versatility of S. mitis and the importance of exploring strains from diverse environments to better understand their role within the host and the broader microbiome.
