Evidence map›Paper›PMID 34587900›Full record

ArticleBMC ecology and evolution2021

Divergent patterns of selection on metabolite levels and gene expression.

Alexander F Kern, Grace Xiaolu Yang, Neil M Khosla, Roy Moh Lik Ang, Michael P Snyder, Hunter B Fraser

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC ecology and evolution, 2021. 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
0.7field-weighted citation impact, top 26% 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

3 citing papers in PubMed, 4 citations in OpenAlex.

  1. Article
  2. The metabolic domestication syndrome of budding yeast.Proceedings of the National Academy of Sciences of the United States of America · 2024
    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

6 authors at 2 institutions in 1 country.

Alexander F Kern *Department of Genetics, Stanford University, Stanford, CA, USA.
Grace Xiaolu Yang *Department of Genetics, Stanford University, Stanford, CA, USA.
Neil M KhoslaDepartment of Biology, Stanford University, Stanford, CA, USA.
Roy Moh Lik AngDepartment of Genetics, Stanford University, Stanford, CA, USA.
Michael P SnyderDepartment of Genetics, Stanford University, Stanford, CA, USA.
Hunter B FraserDepartment of Biology, Stanford University, Stanford, CA, USA. hbfraser@stanford.edu.
Stanford University · USStanford Medicine · US

Funding

INSTITUTIONAL TRAINING GRANT IN GENOME SCIENCET32HG000044 · NHGRI · STANFORD UNIVERSITY · PI MICHAEL P. SNYDER · 1995 to 2026
$32.2M
Yeast as a model for understanding gene expression adaptationR01GM097171 · NIGMS · STANFORD UNIVERSITY · PI FRASER, HUNTER B · 2012 to 2024
$4.2M
NHGRI NIH HHS T32 HG000044NIGMS NIH HHS R01 GM097171
6 · The paper itself

Abstract

backgroundNatural selection can act on multiple genes in the same pathway, leading to polygenic adaptation. For example, adaptive changes were found to down-regulate six genes involved in ergosterol biosynthesis-an essential pathway targeted by many antifungal drugs-in some strains of the yeast Saccharomyces cerevisiae. However, the impact of this polygenic adaptation on metabolite levels was unknown. Here, we performed targeted mass spectrometry to measure the levels of eight metabolites in this pathway in 74 yeast strains from a genetic cross.

resultsThrough quantitative trait locus (QTL) mapping we identified 19 loci affecting ergosterol pathway metabolite levels, many of which overlap loci that also impact gene expression within the pathway. We then used the recently developed v-test, which identified selection acting upon three metabolite levels within the pathway, none of which were predictable from the gene expression adaptation.

conclusionsThese data showed that effects of selection on metabolite levels were complex and not predictable from gene expression data. This suggests that a deeper understanding of metabolism is necessary before we can understand the impacts of even relatively straightforward gene expression adaptations on metabolic pathways.

Indexed as

Saccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsChromosome MappingErgosterolGene ExpressionErgosterolSaccharomyces cerevisiae ProteinsErgosterolGene expressionMetabolic evolutionMetabolismPolygenic adaptationStabilizing selectionYeast

Identifiers

PMID34587900
PMCPMC8482673
OpenAlexW3203021324

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.