Evidence map›Paper›PMID 38180533›Full record

ArticleArchives of virology2024

Genomic variation in pepper vein yellows viruses in Australia, including a new putative variant, PeVYV-10.

Fiona Filardo, Sari Nurulita, Lynne Jones, Cherie Gambley, Samantha Bond, Murray Sharman, Paul Campbell

Abstract read
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Article in Archives of virology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. 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.

Fiona FilardoQueensland Department of Agriculture and Fisheries, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia. fiona.filardo@daf.qld.gov.au.ORCID http://orcid.org/0000-0001-5758-5669
Sari NurulitaQueensland Alliance for Agriculture and Food Science, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia.ORCID http://orcid.org/0000-0001-8784-4633
Lynne JonesDepartment of Agriculture Fisheries and Forestry, Northern Australia Quarantine Strategy, GPO Box 858, Canberra, ACT, 2601, Australia.
Cherie GambleyPrincipal Research Fellow, School of Agriculture and Food Science, University of Queensland, Gatton, QLD, 4343, Australia.
Samantha BondNorthern Territory Department of Industry, Tourism and Trade, Berrimah Farm Science Precinct, GPO Box 3000, Darwin, NT, 0801, Australia.
Murray SharmanQueensland Department of Agriculture and Fisheries, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia.
Paul CampbellQueensland Department of Agriculture and Fisheries, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Since the first identification and full sequence of the polerovirus pepper vein yellows virus in Australia in 2016, virus surveys of crops and weeds have sporadically identified PeVYV in different hosts and locations. Genomic comparisons of 14 PeVYV-like isolates using RT-PCR products spanning the 3' end of the RdRp region (ORF 2), the intergenic region, ORF 3a, ORF 4, and ORF 3 (1388 nt) showed that four of the PeVYV isolates might be a new variant or PeVYV-like virus. From six PeVYV-positive plants, eight PeVYV-like sequences were obtained by high-throughput sequencing, as two hosts, 5352 and 5634, contained two slightly different PeVYV-like isolates. Three of the PeVYV-like isolates were most closely related to PeVYV-6 and PeVYV-5, and two isolates were closely related to PeVYV-9 and PeVYV-2. The other three isolates shared only 69-74% nucleotide sequence identity across the whole genome with any of the other PeVYVs, despite sharing 73-98%, 87-91%, and 84-87% amino acid sequence identity in ORF 3a, ORF 3, and the RdRp (ORF 2), respectively, suggesting that this virus is a new PeVYV-like virus, which we have tentatively called PeVYV-10. This is also the first report of a PeVYV-like virus infecting garlic.

Indexed as

Crops, AgriculturalLuteoviridaeAustraliaGenomicsRNA-Dependent RNA PolymeraseRNA-Dependent RNA Polymerase

Identifiers

PMID38180533

What OpenQuestion holds

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Registered trials

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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.