Evidence map›Paper›PMID 29769347›Full record

ArticleJournal of virology2018

Avian Influenza Viruses in Wild Birds: Virus Evolution in a Multihost Ecosystem.

Divya Venkatesh, Marjolein J Poen, Theo M Bestebroer, Rachel D Scheuer, Oanh Vuong, Mzia Chkhaidze, Anna Machablishvili, Jimsher Mamuchadze, Levan Ninua, Nadia B Fedorova and 14 more

Open access · hybridAbstract read
In one paragraph

Article in Journal of virology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.

0numbers the graph read from it
0cells of the map it votes in
66citing papers in PubMed
8.4field-weighted citation impact, top 2% 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

66 citing papers in PubMed, 110 citations in OpenAlex.

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6 more citing papers are in PubMed but not listed here.

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

24 authors at 7 institutions in 4 countries.

Divya VenkateshDepartment of Zoology, University of Cambridge, Cambridge, United Kingdom.ORCID https://orcid.org/0000-0001-5441-8638
Marjolein J PoenDepartment of Viroscience, Erasmus MC, Rotterdam, Netherlands.
Theo M BestebroerDepartment of Viroscience, Erasmus MC, Rotterdam, Netherlands.
Rachel D ScheuerDepartment of Viroscience, Erasmus MC, Rotterdam, Netherlands.
Oanh VuongDepartment of Viroscience, Erasmus MC, Rotterdam, Netherlands.
Mzia ChkhaidzeNational Centre for Disease Control, Tbilisi, Georgia.
Anna MachablishviliNational Centre for Disease Control, Tbilisi, Georgia.
Jimsher MamuchadzeInstitute of Ecology, Ilia State University, Tbilisi, Georgia.
Levan NinuaInstitute of Ecology, Ilia State University, Tbilisi, Georgia.
Nadia B FedorovaJ. Craig Venter Institute, Rockville, Maryland, USA.
Rebecca A HalpinJ. Craig Venter Institute, Rockville, Maryland, USA.
Xudong LinJ. Craig Venter Institute, Rockville, Maryland, USA.
Amy RansierJ. Craig Venter Institute, Rockville, Maryland, USA.
Timothy B StockwellJ. Craig Venter Institute, Rockville, Maryland, USA.
David E WentworthJ. Craig Venter Institute, Rockville, Maryland, USA.
Divya KritiIcahn School of Medicine at Mount Sinai, New York, New York, USA.ORCID https://orcid.org/0000-0002-9357-5588
Jayeeta DuttaIcahn School of Medicine at Mount Sinai, New York, New York, USA.
Harm van BakelIcahn School of Medicine at Mount Sinai, New York, New York, USA.
Anita PuranikAnimal and Plant Health Agency-Weybridge, Weybridge, United Kingdom.
Marek J SlomkaAnimal and Plant Health Agency-Weybridge, Weybridge, United Kingdom.
Steve EssenAnimal and Plant Health Agency-Weybridge, Weybridge, United Kingdom.
Ian H BrownAnimal and Plant Health Agency-Weybridge, Weybridge, United Kingdom.
Ron A M FouchierDepartment of Viroscience, Erasmus MC, Rotterdam, Netherlands.
Nicola S LewisDepartment of Zoology, University of Cambridge, Cambridge, United Kingdom nsl25@cam.ac.uk.
J. Craig Venter Institute · USAnimal and Plant Health Agency · GBErasmus MC · NLIcahn School of Medicine at Mount Sinai · USIlia State University · GENational Center for Disease Control and Public Health · GEUniversity of Cambridge · GB

Funding

Transforming Genomics with 5 PB Big Omics Data Engine Cray CS300-AC SupercomputerS10OD018522 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2014 to 2014
$1.9M
NIAID NIH HHS HHSN266200700010CNIAID NIH HHS HHSN272200900007CNIH HHS S10 OD018522
6 · The paper itself

Abstract

Wild ducks and gulls are the major reservoirs for avian influenza A viruses (AIVs). The mechanisms that drive AIV evolution are complex at sites where various duck and gull species from multiple flyways breed, winter, or stage. The Republic of Georgia is located at the intersection of three migratory flyways: the Central Asian flyway, the East Africa/West Asia flyway, and the Black Sea/Mediterranean flyway. For six complete study years (2010 to 2016), we collected AIV samples from various duck and gull species that breed, migrate, and overwinter in Georgia. We found a substantial subtype diversity of viruses that varied in prevalence from year to year. Low-pathogenic AIV (LPAIV) subtypes included H1N1, H2N3, H2N5, H2N7, H3N8, H4N2, H6N2, H7N3, H7N7, H9N1, H9N3, H10N4, H10N7, H11N1, H13N2, H13N6, H13N8, and H16N3, and two highly pathogenic AIVs (HPAIVs) belonging to clade 2.3.4.4, H5N5 and H5N8, were found. Whole-genome phylogenetic trees showed significant host species lineage restriction for nearly all gene segments and significant differences in observed reassortment rates, as defined by quantification of phylogenetic incongruence, and in nucleotide sequence diversity for LPAIVs among different host species. Hemagglutinin clade 2.3.4.4 H5N8 viruses, which circulated in Eurasia during 2014 and 2015, did not reassort, but analysis after their subsequent dissemination during 2016 and 2017 revealed reassortment in all gene segments except NP and NS. Some virus lineages appeared to be unrelated to AIVs in wild bird populations in other regions, with maintenance of local AIVs in Georgia, whereas other lineages showed considerable genetic interrelationships with viruses circulating in other parts of Eurasia and Africa, despite relative undersampling in the area.

Indexed as

EcosystemEvolution, MolecularGenome, ViralPhylogenyAnimalsBirdsInfluenza A virusInfluenza in Birdsavian influenzaecologyevolutioninfluenzaphylogeneticsviruses

Identifiers

PMID29769347
PMCPMC6052287
OpenAlexW2953336408

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.