Evidence map›Paper›PMID 31243074›Full record

ArticlemSphere2019

Endless Forms: Within-Host Variation in the Structure of the West Nile Virus RNA Genome during Serial Passage in Bird Hosts.

Stacey L P Scroggs, Nathan D Grubaugh, Johnny A Sena, Anitha Sundararajan, Faye D Schilkey, Darci R Smith, Gregory D Ebel, Kathryn A Hanley

Open access · goldAbstract read
In one paragraph

Article in mSphere, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
0.2field-weighted citation impact, top 38% 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

6 citing papers in PubMed, 6 citations in OpenAlex.

  1. West Nile virus unmasked: from gene variability to future challenges.Frontiers in cellular and infection microbiology · 2025
    Review
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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

8 authors at 3 institutions in 1 country.

Stacey L P ScroggsDepartment of Biology, New Mexico State University, Las Cruces, New Mexico, USA stpeters@nmsu.edu.
Nathan D GrubaughDepartment of Microbiology, Immunology & Pathology, Colorado State University, Fort Collins, Colorado, USA.
Johnny A SenaNational Center for Genome Resources, Santa Fe, New Mexico, USA.
Anitha SundararajanNational Center for Genome Resources, Santa Fe, New Mexico, USA.
Faye D SchilkeyNational Center for Genome Resources, Santa Fe, New Mexico, USA.
Darci R SmithDepartment of Microbiology, Immunology & Pathology, Colorado State University, Fort Collins, Colorado, USA.
Gregory D EbelDepartment of Microbiology, Immunology & Pathology, Colorado State University, Fort Collins, Colorado, USA.
Kathryn A HanleyDepartment of Biology, New Mexico State University, Las Cruces, New Mexico, USA.
Colorado State University · USNational Center for Genome Resources · USNew Mexico State University · US

Funding

NM-INBRE Sequencing and Bioinformatics CoreP20GM103451 · NIGMS · NEW MEXICO STATE UNIVERSITY LAS CRUCES · PI Charlotte C. Gard · 2012 to 2026
$61.2M
Quasispecies dynamics in arbovirus persistence emergence and fitnessR01AI067380 · NIAID · UNIVERSITY OF NEW MEXICO · PI Gregory David Ebel · 2007 to 2026
$7.7M
Mechanisms of competitive displacement by lineages of mosquito-borne dengue virusR15AI113628 · NIAID · NEW MEXICO STATE UNIVERSITY LAS CRUCES · PI HANLEY, KATHRYN ALYCE · 2014 to 2014
$432k
NIAID NIH HHS R15 AI113628
6 · The paper itself

Abstract

RNA viruses are infamous for their high rates of mutation, which produce swarms of genetic variants within individual hosts. To date, analyses of intrahost genetic diversity have focused on the primary genome sequence. However, virus phenotypes are shaped not only by primary sequence but also by the secondary structures into which this sequence folds. Such structures enable viral replication, translation, and binding of small RNAs, yet within-host variation at the structural level has not been adequately explored. We characterized the structural diversity of the 5' untranslated region (UTR) of populations of West Nile virus (WNV) that had been subject to five serial passages in triplicate in each of three bird species. Viral genomes were sampled from host serum samples at each passage (

Indexed as

5' Untranslated RegionsGenetic VariationGenome, ViralAnimalsBirdsCrowsCulicidaeHigh-Throughput Nucleotide SequencingMutationRNA, ViralSerial PassageVirus ReplicationWest Nile virus5' Untranslated RegionsRNA, Viralevolutiongenetic diversitynatural selectionquasispeciesRNA virussecondary structureuntranslated regionWest Nile virus

Identifiers

PMID31243074
PMCPMC6595145
OpenAlexW2954213281

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.