Multiphasic strain differentation of atypicalmycobacteria fromelephant trunk wash

Chan, K.G., and Loke, M.F., and Ong, B.L., and Wong, Y.L., and Hong, K.W., and Tan, K.H., and Kaur, S., and Ng, H.F., and Razak, M.F.A.A., and Ngeow, Y.F., (2015) Multiphasic strain differentation of atypicalmycobacteria fromelephant trunk wash. Peer J, 2015.

Official URL: https://peerj.com/articles/1367/

Abstract

Background. Two non-tuberculous mycobacterial strains, UM_3 and UM_11, were isolated from the trunk wash of captive elephants in Malaysia. As they appeared to be identical phenotypes, they were investigated further by conventional and whole genome sequence-based methods of strain differentiation. Methods. Multiphasic investigations on the isolates included species identification with hsp65 PCR-sequencing, conventional biochemical tests, rapid biochemical profiling using API strips and the Biolog Phenotype Microarray analysis, protein profiling with liquid chromatography-mass spectrometry, repetitive sequence-based PCR typing and whole genome sequencing followed by phylogenomic analyses. Results. The isolates were shown to be possibly novel slow-growing schotochromogens with highly similar biological and genotypic characteristics. Both strains have a genome size of 5.2 Mbp, G+C content of 68.8%, one rRNA operon and 52 tRNAs each. They qualified for classification into the same species with their average nucleotide identity of 99.98% and tetranucleotide correlation coefficient of 0.99999. At the subspecies level, both strains showed 98.8% band similarity in the Diversilab automated repetitive sequence-based PCR typing system, 96.2% similarity in protein profiles obtained by liquid chromatography mass spectrometry, and a genomic distance that is close to zero in the phylogenomic tree constructed with conserved orthologs. Detailed epidemiological tracking revealed that the elephants shared a common habitat eight years apart, thus, strengthening the possibility of a clonal relationship between the two strains.

Item Type: Non-Indexed Article
Keywords: Biolog phenotyping; Genomic analysis; Genotyping; Mass spectrometry; Mycobacterium; Rep-PCR
Faculty: Faculty of Veterinary Medicine
Deposited By: En. Pahmi Abdullah
Date Deposited: 21 May 2017 08:36
Last Modified: 21 May 2017 08:36
URI: http://umkeprints.umk.edu.my/id/eprint/6284

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