Phylogenetic and phylogeographic mapping of the avian coronavirus spike protein-encoding gene in wild and synanthropic birds

Virus Research
Ricardo Durães-CarvalhoClarice Weis Arns

Abstract

The evolution and population dynamics of avian coronaviruses (AvCoVs) remain underexplored. In the present study, in-depth phylogenetic and Bayesian phylogeographic studies were conducted to investigate the evolutionary dynamics of AvCoVs detected in wild and synanthropic birds. A total of 500 samples, including tracheal and cloacal swabs collected from 312 wild birds belonging to 42 species, were analysed using molecular assays. A total of 65 samples (13%) from 22 bird species were positive for AvCoV. Molecular evolution analyses revealed that the sequences from samples collected in Brazil did not cluster with any of the AvCoV S1 gene sequences deposited in the GenBank database. Bayesian framework analysis estimated an AvCoV strain from Sweden (1999) as the most recent common ancestor of the AvCoVs detected in this study. Furthermore, the analysis inferred an increase in the AvCoV dynamic demographic population in different wild and synanthropic bird species, suggesting that birds may be potential new hosts responsible for spreading this virus.

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Citations

Mar 8, 2019·Journal of Virology·Kim M BouwmanMonique H Verheije
Jul 17, 2020·FEMS Microbiology Reviews·Michelle Wille, Edward C Holmes
Apr 15, 2018·Scientific Reports·Anthony ChamingsSoren Alexandersen
Nov 12, 2020·Animals : an Open Access Journal From MDPI·Miguel Guzmán, Héctor Hidalgo
Apr 27, 2021·Virusdisease·Ricardo A Villalobos-AgüeroJames Karkashian-Córdoba
Aug 29, 2021·Viruses·Katarzyna Domańska-BlicharzAnna Pikuła

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Datasets Mentioned

BETA
JN022543.1
GQ885131.1
JF699751.1

Methods Mentioned

BETA
PCR

Software Mentioned

Densitree
Figtree
LogCombiner
BEAST
Mesquite
Linux
Geographic Information System ( GIS
jModelTest
Phylopart
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