J Vet Sci.  2021 Mar;22(2):e24. 10.4142/jvs.2021.22.e24.

Single-nucleotide polymorphismbased epidemiological analysis of Korean Mycobacterium bovis isolates

Affiliations
  • 1Bacterial Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Korea
  • 2Gangwondo Livestock & Veterinary Service, Chuncheon 24203, Korea
  • 3Chung Cheongbukdo Livestock & Veterinary Service, Jungbu-Branch, Chungju 27336, Korea
  • 4College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Korea

Abstract

Background
Bovine tuberculosis (TB) is caused by Mycobacterium bovis, a well-known cause of zoonotic tuberculosis in cattle and deer, and has been investigated in many physiological and molecular studies. However, detailed genome-level studies of M. bovis have not been performed in Korea.
Objectives
To survey whole genome-wide single-nucleotide polymorphism (SNP) variants in Korean M. bovis field isolates and to define M. bovis groups in Korea by comparing SNP typing with spoligotyping and variable number tandem repeat typing.
Methods
A total of 46 M. bovis field isolates, isolated from laryngopharyngeal lymph nodes and lungs of Korean cattle, wild boar, and Korean water deer, were used to identify SNPs by performing whole-genome sequencing. SNP sites were confirmed via polymerase chain reaction using 87 primer pairs.
Results
We identified 34 SNP sites with different frequencies across M. bovis isolates, and performed SNP typing and epidemiological analysis, which divided the 46 field isolates into 16 subtypes.
Conclusions
Through SNP analysis, detailed differences in samples with identical spoligotypes could be detected. SNP analysis is, therefore, a useful epidemiological tracing tool that could enable better management of bovine TB, thus preventing further outbreaks and reducing the impact of this disease.

Keyword

Bovine tuberculosis; Bovine tuberculosis; Bovine tuberculosis; Mycobacterium bovis; Mycobacterium bovis; Mycobacterium bovis; Mycobacterium bovis; Single nucleotide polymorphism; Single nucleotide polymorphism; Single nucleotide polymorphism; Single nucleotide polymorphism; spoligotype; spoligotype; spoligotype; spoligotype; variable number of tandem repeat; variable number of tandem repeat; variable number of tandem repeat; variable number of tandem repeat
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