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Volume 8, Issue 4

capsule locus typing for serovar prediction of Open Access

Abstract

is a causative agent of pleuropneumonia in pigs of all ages. . is divided into 19 serovars based on capsular polysaccharides (CPSs) and lipopolysaccharides. The serovars of isolates are commonly determined by serological tests and multiplex PCR. This study aimed to develop a genomic approach for typing by screening for the presence of the species-specific gene in whole-genome sequencing (WGS) reads and identifying capsule locus (KL) types in genome assemblies. A database of the . KL, including CPS synthesis and CPS export genes, was established and optimized for Kaptive. To test the developed genomic approach, WGS reads of 189 . isolates and those of 66 samples from 14 other bacterial species were analysed. analysis showed that was detected in all 189 . samples. These -positive WGS reads were assembled into genome assemblies and assessed. A total of 105 . genome assemblies that passed the quality assessment were analysed by Kaptive analysis against the . KL database. The results showed that 97 assemblies were classified and predicted as 13 serovars, which matched the serovar information obtained from the literature. The six genome assemblies from previously nontypable isolates were typed and predicted as serovars 17 and 18. Notably, one of the two “” samples was positive, and its genome assembly was typed as KL03 with high identity and predicted as . serovar 3. Collectively, a genomic approach was established and could accurately determine the KL type of . isolates using WGS reads. This approach can be used with high-quality genome assemblies for predicting . serovars and for retrospective analysis.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): Actinobacillus pleuropneumoniae , capsule locus typing and genomic analysis
Funding
This study was supported by the:
  • Council of Agriculture (Award 110AS-5.6.1-BQ-B1)
    • Principle Award Recipient: Zeng-WengChen
  • Council of Agriculture (Award 109AS-8.8.1-BQ-B1)
    • Principle Award Recipient: Zeng-WengChen
© 2022 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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2022-04-11
2024-05-14
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In silico capsule locus typing for serovar prediction of Actinobacillus pleuropneumoniae
M Gen 8, 000780 (2022); https://doi.org/10.1099/mgen.0.000780
/content/journal/mgen/10.1099/mgen.0.000780
/content/journal/mgen/10.1099/mgen.0.000780
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