Unveiling Insights into the Whole Genome Sequencing of Mycobacterium spp. Isolated from Siamese Fighting Fish (Betta splendens)
Issued Date
2024-10-01
Resource Type
eISSN
20762615
Scopus ID
2-s2.0-85206568179
Journal Title
Animals
Volume
14
Issue
19
Rights Holder(s)
SCOPUS
Bibliographic Citation
Animals Vol.14 No.19 (2024)
Suggested Citation
Dinh-Hung N., Mwamburi S.M., Dong H.T., Rodkhum C., Meemetta W., Linh N.V., Mai H.N., Dhar A.K., Hirono I., Senapin S., Chatchaiphan S. Unveiling Insights into the Whole Genome Sequencing of Mycobacterium spp. Isolated from Siamese Fighting Fish (Betta splendens). Animals Vol.14 No.19 (2024). doi:10.3390/ani14192833 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/101732
Title
Unveiling Insights into the Whole Genome Sequencing of Mycobacterium spp. Isolated from Siamese Fighting Fish (Betta splendens)
Author's Affiliation
Faculty of Science, Mahidol University
Kenya Marine and Fisheries Research Institute
Chulalongkorn University
Kasetsart University
Tokyo University of Marine Science and Technology
Thailand National Center for Genetic Engineering and Biotechnology
Asian Institute of Technology Thailand
The University of Arizona
Chiang Mai University
Kenya Marine and Fisheries Research Institute
Chulalongkorn University
Kasetsart University
Tokyo University of Marine Science and Technology
Thailand National Center for Genetic Engineering and Biotechnology
Asian Institute of Technology Thailand
The University of Arizona
Chiang Mai University
Corresponding Author(s)
Other Contributor(s)
Abstract
This study aims to genomically elucidate six isolates of rapidly growing non-tuberculous mycobacteria (RGM) derived from Siamese fighting fish (Betta splendens). These isolates had previously undergone phenotypic and biochemical characterization, antibiotic susceptibility testing, and in vivo virulence assessment. Initial DNA barcoding using the 16S rRNA sequence assigned these six isolates to five different species, namely Mycobacterium chelonae (BN1983), M. cosmeticum (BN1984 and N041), M. farcinogenes (SNSK5), M. mucogenicum (BN1956), and M. senegalense (BN1985). However, the identification relied solely on the highest percent identity of the 16S rRNA gene, raising concerns about the taxonomic ambiguity of these species. Comprehensive whole genome sequencing (WGS) and extended genomic comparisons using multilocus sequence typing (MLST), average nucleotide identity (ANI), and digital DNA–DNA hybridization (dDDH) led to the reclassification of BN1985 and SNSK5 as M. conceptionense while confirming BN1983 as M. chelonae and BN1984 and N041 as M. cosmeticum. Notably, the analysis of the BN1956 isolate revealed a potential new species that is proposed here as M. mucogenicum subsp. phocaicum sp. nov. Common genes encoding “mycobacterial” virulence proteins, such as PE and PPE family proteins, MCE, and YrbE proteins, were detected in all six isolates. Two species, namely M. chelonae and M. cosmeticum, appear to have horizontally acquired T6SS-II (clpB), catalase (katA), GroEL (groel), and capsule (rmlb) from distantly related environmental bacteria such as Klebsiella sp., Neisseria sp., Clostridium sp., and Streptococcus sp. This study provides the first draft genome sequence of RGM isolates currently circulating in B. splendens and underscores the necessity of WGS for the identification and classification of mycobacterial species.
