Evidence map›Paper›PMID 39091791›Full record

ArticlebioRxiv : the preprint server for biology2024

Convergent expansions of keystone gene families drive metabolic innovation in a major eukaryotic clade.

Kyle T David, Joshua G Schraiber, Johnathan G Crandall, Abigal L Labella, Dana A Opulente, Marie-Claire Harrison, John F Wolters, Xiaofan Zhou, Xing-Xing Shen, Marizeth Groenewald and 3 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors.

Kyle T DavidDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN 37235, USA.ORCID 0000-0001-9907-789X
Joshua G SchraiberDepartments of Quantitative and Computational Biology and Biological Sciences, University of Southern California, Los Angeles CA 90089, USA.ORCID 0000-0002-7912-2195
Johnathan G CrandallLaboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, DOE Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI 53726, USA.
Abigal L LabellaDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN 37235, USA.ORCID 0000-0003-0068-6703
Dana A OpulenteDepartments of Quantitative and Computational Biology and Biological Sciences, University of Southern California, Los Angeles CA 90089, USA.ORCID 0000-0003-3224-7510
Marie-Claire HarrisonDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN 37235, USA.ORCID 0000-0002-3013-9906
John F WoltersDepartments of Quantitative and Computational Biology and Biological Sciences, University of Southern California, Los Angeles CA 90089, USA.
Xiaofan ZhouGuangdong Laboratory for Lingnan Modern Agriculture, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Center, South China Agricultural University, Guangzhou 510642, China.ORCID 0000-0002-2879-6317
Xing-Xing ShenKey Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Insect Sciences, Zhejiang University, Hangzhou 310058, China.ORCID 0000-0001-5765-1419
Marizeth GroenewaldWesterdijk Fungal Biodiversity Institute, 3584 Utrecht, The Netherlands.
Chris Todd HittingerLaboratory of Genetics, J. F. Crow Institute for the Study of Evolution, Center for Genomic Science Innovation, DOE Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, WI 53726, USA.ORCID 0000-0001-5088-7461
Matt PennellDepartments of Quantitative and Computational Biology and Biological Sciences, University of Southern California, Los Angeles CA 90089, USA.
Antonis RokasDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA; Evolutionary Studies Initiative, Vanderbilt University, Nashville, TN 37235, USA.ORCID 0000-0002-7248-6551

Funding

Deciphering the phenotypic and genomic traits that underlie the evolution of pathogenicity differences among Aspergillus fumigatus and its close relativesR01AI153356 · NIAID · VANDERBILT UNIVERSITY · PI Antonis Rokas · 2022 to 2026
$3.5M
Leveraging phylogenetic approaches to investigate the evolution of geneexpressionR35GM151348 · NIGMS · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Matthew Wesley Pennell · 2023 to 2026
$1.6M
NIAID NIH HHS R01 AI153356NIGMS NIH HHS R35 GM151348
6 · The paper itself

Abstract

Many remarkable innovations have repeatedly occurred across vast evolutionary distances. When convergent traits emerge on the tree of life, they are sometimes driven by the same underlying gene families, while other times many different gene families are involved. Conversely, a gene family may be repeatedly recruited for a single trait or many different traits. To understand the general rules governing convergence at both genomic and phenotypic levels, we systematically tested associations between 56 binary metabolic traits and gene count in 14,710 gene families from 993 species of

Indexed as

Convergent EvolutionGene DuplicationInnovationMacroevolutionYeasts

Identifiers

PMID39091791
PMCPMC11291092

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.