Evidence map›Paper›PMID 32685284›Full record

ArticlePeerJ2020

Addressing incomplete lineage sorting and paralogy in the inference of uncertain salmonid phylogenetic relationships.

Matthew A Campbell, Thaddaeus J Buser, Michael E Alfaro, J Andrés López

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in PeerJ, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Article
  3. Review
  4. Review
  5. 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

4 authors.

Matthew A CampbellUniversity of Alaska Museum, University of Alaska-Fairbanks, Fairbanks, AK, USA.ORCID 0000-0002-5826-0329
Thaddaeus J BuserDepartment of Fisheries and Wildlife, Oregon State University, Corvallis, OR, USA.
Michael E AlfaroDepartment of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA, USA.ORCID 0000-0002-8898-8230
J Andrés LópezUniversity of Alaska Museum, University of Alaska-Fairbanks, Fairbanks, AK, USA.ORCID 0000-0002-2845-9871

Funding

The Administrative CoreP20GM103395 · NIGMS · UNIVERSITY OF ALASKA FAIRBANKS · PI BRIAN M BARNES · 2012 to 2026
$66.1M
NIGMS NIH HHS P20 GM103395
6 · The paper itself

Abstract

Recent and continued progress in the scale and sophistication of phylogenetic research has yielded substantial advances in knowledge of the tree of life; however, segments of that tree remain unresolved and continue to produce contradicting or unstable results. These poorly resolved relationships may be the product of methodological shortcomings or of an evolutionary history that did not generate the signal traits needed for its eventual reconstruction. Relationships within the euteleost fish family Salmonidae have proven challenging to resolve in molecular phylogenetics studies in part due to ancestral autopolyploidy contributing to conflicting gene trees. We examine a sequence capture dataset from salmonids and use alternative strategies to accommodate the effects of gene tree conflict based on aspects of salmonid genome history and the multispecies coalescent. We investigate in detail three uncertain relationships: (1) subfamily branching, (2) monophyly of

Indexed as

CoregonusGene tree and species tree conflictIncomplete lineage sortingOhnolog resolutionParahuchoPhylogenySalmonidaeSegmental polyploidy

Identifiers

PMID32685284
PMCPMC7337038

What OpenQuestion holds

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LicenceCC BY
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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.