Evidence map›Paper›PMID 28870221›Full record

ArticleVirology journal2017

Isolation and characterization of the fall Chinook aquareovirus.

Negar Makhsous, Nicole L Jensen, Katherine H Haman, William N Batts, Keith R Jerome, James R Winton, Alexander L Greninger

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Virology journal, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.6field-weighted citation impact, top 32% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed, 10 citations in OpenAlex.

  1. Review
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 5 institutions in 1 country.

Negar MakhsousDepartment of Laboratory Medicine, University of Washington, 1616 Eastlake Avenue East, Suite 320, Seattle, WA, 98102, USA.
Nicole L JensenWashington State Department of Fish and Wildlife, Olympia, WA, USA.
Katherine H HamanWashington State Department of Fish and Wildlife, Olympia, WA, USA.
William N BattsUSGS Western Fisheries Research Center, Seattle, WA, USA.
Keith R JeromeDepartment of Laboratory Medicine, University of Washington, 1616 Eastlake Avenue East, Suite 320, Seattle, WA, 98102, USA.
James R WintonUSGS Western Fisheries Research Center, Seattle, WA, USA.
Alexander L GreningerDepartment of Laboratory Medicine, University of Washington, 1616 Eastlake Avenue East, Suite 320, Seattle, WA, 98102, USA. agrening@uw.edu.
Fred Hutch Cancer Center · USWashington Department of Fish and Wildlife · USNOAA National Marine Fisheries Service Northwest Fisheries Science Center · USUniversity of Washington · USWestern Fisheries Research Center

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundSalmon are paramount to the economy, ecology, and history of the Pacific Northwest. Viruses constitute one of the major threats to salmon health and well-being, with more than twenty known virus species that infect salmon. Here, we describe the isolation and characterization of the fall Chinook aquareovirus, a divergent member of the species Aquareovirus B within the family Reoviridae.

methodsThe virus was first found in 2014 as part of a routine adult broodstock screening program in which kidney and spleen tissue samples from healthy-appearing, adult fall Chinook salmon (Oncorhynchus tshawytscha) returning to a hatchery in Washington State produced cytopathic effects when inoculated onto a Chinook salmon embryo cell line (CHSE-214). The virus was not able to be confirmed by an RT-PCR assay using existing aquareovirus pan-species primers, and instead was identified by metagenomic next-generation sequencing. Metagenomic next-generation sequencing was used to recover the full genome and completed using 3' RACE.

resultsThe genome of the fall Chinook aquareovirus contains 11 segments of double-stranded RNA totaling 23.3 kb, with each segment flanked by the canonical sequence termini found in the aquareoviruses. Sequence comparisons and a phylogenetic analysis revealed a nucleotide identity of 63.2% in the VP7 gene with the Green River Chinook virus, placing the new isolate in the species Aquareovirus B. A qRT-PCR assay was developed targeting the VP2, which showed rapid growth of the isolate during the initial 5 days in culture using CHSE-214 cells.

conclusionsThis sequence represents the first complete genome of an Aquareovirus B species. Future studies will be required to understand the potential pathogenicity and epidemiology of the fall Chinook aquareovirus.

Indexed as

Genome, ViralAnimalsAntigens, ViralCell LineFish DiseasesMetagenomicsPhylogenyReal-Time Polymerase Chain ReactionReoviridaeReverse Transcriptase Polymerase Chain ReactionRNA, Double-StrandedRNA, ViralSalmonSequence Homology, Amino AcidSequence Homology, Nucleic AcidAntigens, ViralRNA, Double-StrandedRNA, ViralAquareovirusAquareovirus BChinookFall chinookSalmon virus

Identifiers

PMID28870221
PMCPMC5584334
OpenAlexW2750769321

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.