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ERX3510564: Illumina MiSeq paired end sequencing; Raw reads: CRCoV_quasispecies
1 ILLUMINA (Illumina MiSeq) run: 468,774 spots, 210.1M bases, 119.8Mb downloads

Design: unspecified
Submitted by: Swedish University of Agricultural Sciences
Study: Swedish dogs with canine infectious respiratory disease highlight establishment of canine respiratory coronavirus in Sweden, and recent evolutionary history with bovine coronavirus
show Abstracthide Abstract
Canine respiratory coronavirus (CRCoV) has been identified as a causative agent of canine infectious respiratory disease (CIRD), an upper respiratory infection affecting dogs. The epidemiology is current opaque, with an unclear understanding of global prevalence, pathology, and genetic characteristics In this study, Swedish privately privately-owned dogs with characteristic signs of CIRD (n=108) were screened for CRCoV and 13 positive samples further sequenced. Sequenced Swedish CRCoV isolates were highly similar despite being isolated from dogs living in geographically distant locations and across 3 years (2013-2015). This is due to a single introduction into Swedish dogs in approximately 2010, as inferred by time structured phylogeny. Unlike other CRCoV viruses, there was no evidence of recombination in Swedish CRCoVs, further supporting a single introduction. Finally, there are low levels of polymorphisms, representing quasispecies in the S genes. Overall, we demonstrate that there is little diversity of CRCoV which is endemic in Swedish dogs.
Sample: Canine Respiratory Coronavirus
SAMEA5877028 • ERS3665495 • All experiments • All runs
Library:
Instrument: Illumina MiSeq
Strategy: AMPLICON
Source: VIRAL RNA
Selection: RT-PCR
Layout: PAIRED
Runs: 1 run, 468,774 spots, 210.1M bases, 119.8Mb
Run# of Spots# of BasesSizePublished
ERR3489104468,774210.1M119.8Mb2020-04-01

ID:
10469629

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