Evidence map›Paper›PMID 39861806›Full record

ArticleViruses2024

Detection and Phylogenetic Characterization of Influenza D in Swedish Cattle.

Ignacio Alvarez, Fereshteh Banihashem, Annie Persson, Emma Hurri, Hyeyoung Kim, Mariette Ducatez, Erika Geijer, Jean-Francois Valarcher, Sara Hägglund, Siamak Zohari

Abstract read
In one paragraph

Article in Viruses, 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

10 authors.

Ignacio AlvarezDivision of Ruminant Medicine, Department of Clinical Sciences, Swedish University of Agricultural Sciences, P.O. Box 7054, 756 51 Uppsala, Sweden.ORCID 0000-0002-2788-3523
Fereshteh BanihashemDepartment of Microbiology, Swedish Veterinary Agency, Ulls väg 2B, 751 89 Uppsala, Sweden.
Annie PerssonDepartment of Microbiology, Swedish Veterinary Agency, Ulls väg 2B, 751 89 Uppsala, Sweden.
Emma HurriDepartment of Clinical Sciences, Swedish University of Agricultural Sciences, 756 51 Uppsala, Sweden.ORCID 0000-0002-3240-7409
Hyeyoung KimDepartment of Epidemiology, Surveillance and Risk Assessment, Swedish Veterinary Agency, Ulls väg 2B, 751 89 Uppsala, Sweden.ORCID 0000-0001-9286-695X
Mariette DucatezInteractions Hôtes-Agents-Pathogènes, Ecole Vétérinaire de Toulouse (ENVT), Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement, 31300 Toulouse, France.ORCID 0000-0001-9632-5499
Erika GeijerGård & Djurhälsan, Kungsängens Gård, 753 23 Uppsala, Sweden.
Jean-Francois ValarcherDivision of Ruminant Medicine, Department of Clinical Sciences, Swedish University of Agricultural Sciences, P.O. Box 7054, 756 51 Uppsala, Sweden.ORCID 0000-0002-8564-5603
Sara HägglundDivision of Ruminant Medicine, Department of Clinical Sciences, Swedish University of Agricultural Sciences, P.O. Box 7054, 756 51 Uppsala, Sweden.ORCID 0000-0002-6983-5722
Siamak ZohariDepartment of Microbiology, Swedish Veterinary Agency, Ulls väg 2B, 751 89 Uppsala, Sweden.ORCID 0000-0002-0017-4233

Funding

European Food Safety Authority GP/EFSA/2017/01-GA04European Food Safety Authority GP/EFSA/ENCO/2020/03Swedish Research Council for Environment Agricultural Sciences and Spatial Planning 2020-02742
6 · The paper itself

Abstract

Increased evidence suggests that cattle are the primary host of Influenza D virus (IDV) and may contribute to respiratory disease in this species. The aim of this study was to detect and characterise IDV in the Swedish cattle population using archived respiratory samples. This retrospective study comprised a collection of a total 1763 samples collected between 1 January 2021 and 30 June 2024. The samples were screened for IDV and other respiratory pathogens using real-time reverse transcription quantitative PCR (rRT-qPCR). Fifty-one IDV-positive samples were identified, with a mean cycle threshold (Ct) value of 27 (range: 15-37). Individual samples with a Ct value of <30 for IDV RNA were further analysed by deep sequencing. Phylogenetic analysis was performed by the maximum likelihood estimation method on the whole IDV genome sequence from 16 samples. The IDV strains collected in 2021 (n = 7) belonged to the D/OK clade, whereas samples from 2023 (n = 4) and 2024 (n = 5) consisted of reassortants between the D/OK and D/660 clades, for the PB2 gene. This study reports the first detection of IDV in Swedish cattle and the circulation of D/OK and reassortant D/OK-D/660 in this population.

Indexed as

Cattle DiseasesOrthomyxoviridae InfectionsPhylogenyThogotovirusAnimalsCattleGenome, ViralHigh-Throughput Nucleotide SequencingRetrospective StudiesRNA, ViralSwedenRNA, Viralbovinecattleco-infectioninfluenza D virusPCRphylogenyreassortmentsequencingSweden

Identifiers

PMID39861806
PMCPMC11768518

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.