Evidence map›Paper›PMID 27940876›Full record

ArticleScience (New York, N.Y.)2016

The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish.

Noah M Reid, Dina A Proestou, Bryan W Clark, Wesley C Warren, John K Colbourne, Joseph R Shaw, Sibel I Karchner, Mark E Hahn, Diane Nacci, Marjorie F Oleksiak and 2 more

Abstract read
In one paragraph

Article in Science (New York, N.Y.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 203 papers.

0numbers the graph read from it
0cells of the map it votes in
203citing 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

203 citing papers in PubMed.

  1. Review
  2. Article
  3. The genetic foundations of convergent traits.Nature reviews. Genetics · 2026
    Review
  4. Ancient DNA from shells reveals delayed genomic erosion and rapid immune adaptation in the critically endangered black abalone.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. Article
  14. Article
  15. Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors.

Noah M ReidDepartment of Environmental Toxicology, University of California, Davis, CA 95616, USA.
Dina A ProestouAgricultural Research Service, U.S. Department of Agriculture, Kingston, RI 02881, USA.
Bryan W ClarkOak Ridge Institute for Science and Education, Office of Research and Development, U.S. Environmental Protection Agency, Narragansett, RI 02882, USA.
Wesley C WarrenMcDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO 63108, USA.
John K ColbourneSchool of Biosciences, University of Birmingham, Edgbaston B15 2TT, UK.
Joseph R ShawSchool of Biosciences, University of Birmingham, Edgbaston B15 2TT, UK.
Sibel I KarchnerBiology Department, Woods Hole Oceanographic Institution, Woods Hole, MA 02543, USA.
Mark E HahnBiology Department, Woods Hole Oceanographic Institution, Woods Hole, MA 02543, USA.
Diane NacciOffice of Research and Development, U.S. Environmental Protection Agency, Narragansett, RI 02882, USA.
Marjorie F OleksiakDepartment of Marine Biology and Ecology, Rosenstiel School of Marine and Atmospheric Science, University of Miami, Miami, FL 33149, USA.
Douglas L CrawfordDepartment of Marine Biology and Ecology, Rosenstiel School of Marine and Atmospheric Science, University of Miami, Miami, FL 33149, USA.
Andrew WhiteheadDepartment of Environmental Toxicology, University of California, Davis, CA 95616, USA. awhitehead@ucdavis.edu.

Funding

Training CoreP42ES007381 · NIEHS · BOSTON UNIVERSITY MEDICAL CAMPUS · PI HAHN, MARK E · 1995 to 2019
$46.1M
Effects of environmental contamination on gene copy number variation: Molecular bR01ES019324 · NIEHS · TRUSTEES OF INDIANA UNIVERSITY · PI SHAW, JOSEPH R. · 2010 to 2014
$2.2M
Whole genome assembly resources for aquatic models of human diseaseR24OD011198 · OD · WASHINGTON UNIVERSITY · PI WARREN, WESLEY CHARLES · 2012 to 2019
$1.4M
Mechanisms of reproductive, developmental, and early life stage impacts of marineR01ES021934 · NIEHS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI GALVEZ, FERNANDO, GREEN, CHRISTOPHER C · 2012 to 2015
$452k
NIEHS NIH HHS P42 ES007381NIEHS NIH HHS R01 ES019324NIEHS NIH HHS R01 ES021934NIH HHS R24 OD011198
6 · The paper itself

Abstract

Atlantic killifish populations have rapidly adapted to normally lethal levels of pollution in four urban estuaries. Through analysis of 384 whole killifish genome sequences and comparative transcriptomics in four pairs of sensitive and tolerant populations, we identify the aryl hydrocarbon receptor-based signaling pathway as a shared target of selection. This suggests evolutionary constraint on adaptive solutions to complex toxicant mixtures at each site. However, distinct molecular variants apparently contribute to adaptive pathway modification among tolerant populations. Selection also targets other toxicity-mediating genes and genes of connected signaling pathways; this indicates complex tolerance phenotypes and potentially compensatory adaptations. Molecular changes are consistent with selection on standing genetic variation. In killifish, high nucleotide diversity has likely been a crucial substrate for selective sweeps to propel rapid adaptation.

Indexed as

Water PollutionAdaptation, PhysiologicalAnimalsCytochrome P-450 CYP1A1EstuariesEvolution, MolecularFundulidaeGenetic VariationGenomicsPhenotypeReceptors, Aryl HydrocarbonSelection, GeneticSequence Analysis, DNATime FactorsTranscriptomeWater Pollutants, ChemicalCytochrome P-450 CYP1A1Receptors, Aryl HydrocarbonWater Pollutants, Chemical

Identifiers

PMID27940876
PMCPMC5206662

What OpenQuestion holds

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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.