Sammanfattning

Avian coronavirus (AvCoV) is ubiquitously present on poultry as a multitude of virus lineages. Studies on AvCoV phenotypic traits are dependent on the isolation of field strains in chicken embryonated eggs, but the mutant spectrum on each isolate is not considered. This manuscript reports the previously unknown HTS (high throughput sequencing)-based complete genome haplotyping of AvCoV isolates after passages of two field strains in chicken embryonated eggs. For the first and third passages of strain 23/2013, virus loads were 6.699 log copies/mu L and 6 log copies/mu L and, for 38/2013, 5.699 log copies/mu L and 2.699 log copies/mu L of reaction, respectively. The first passage of strain 23/2013 contained no variant haplotype, while, for the third passage, five putative variant haplotypes were found, with > 99.9% full genome identity with each other and with the dominant genome. Regarding strain 38/2013, five variant haplotypes were found for the first passage, with > 99.9% full genome identity with each other and with the dominant genome, and a single variant haplotype was found. Extinction and emergence of haplotypes with polymorphisms in genes involved in receptor binding and regulation of RNA synthesis were observed, suggesting that phenotypic traits of AvCoV isolates are a result of their mutant spectrum.

Nyckelord

Avian coronavirus; haplotype; mutant spectrum; NGS; evolution

Publicerad i

Genetics and Molecular Biology
2020, Volym: 43, nummer: 2, artikelnummer: e20190064
Utgivare: SOC BRASIL GENETICA

SLU författare

• Berg, Mikael

  • Institutionen för husdjurens biovetenskaper, Sveriges lantbruksuniversitet
    

UKÄ forskningsämne

Patobiologi


Publikationens identifierare

DOI: https://doi.org/10.1590/1678-4685-GMB-2019-0064

Permanent länk till denna sida (URI)

https://res.slu.se/id/publ/105969