Evidence map›Paper›PMID 27197209›Full record

ArticleGenome research2016

Evidence for the fixation of gene duplications by positive selection in Drosophila.

Margarida Cardoso-Moreira, J Roman Arguello, Srikanth Gottipati, L G Harshman, Jennifer K Grenier, Andrew G Clark

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.

0numbers the graph read from it
0cells of the map it votes in
52citing 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

52 citing papers in PubMed.

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  17. Demonstration ofbioRxiv : the preprint server for biology · 2023
    Article
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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

6 authors.

Margarida Cardoso-MoreiraDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853-2703, USA; Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland;
J Roman ArguelloDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853-2703, USA; Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland;
Srikanth GottipatiDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853-2703, USA; Translational Medicine and Think Team, Otsuka Pharmaceutical Development and Commercialization, Inc., Princeton, New Jersey 08540, USA;
L G HarshmanSchool of Biological Sciences, University of Nebraska-Lincoln, Lincoln, Nebraska 68588-0118, USA.
Jennifer K GrenierDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853-2703, USA;
Andrew G ClarkDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853-2703, USA;

Funding

Comparative Functional Genomics of Drosophila ObesityR01DK074136 · NIDDK · CORNELL UNIVERSITY · PI CLARK, ANDREW G · 2006 to 2009
$1.5M
NIDDK NIH HHS R01 DK074136
6 · The paper itself

Abstract

Gene duplications play a key role in the emergence of novel traits and in adaptation. But despite their centrality to evolutionary processes, it is still largely unknown how new gene duplicates are initially fixed within populations and later maintained in genomes. Long-standing debates on the evolution of gene duplications could be settled by determining the relative importance of genetic drift vs. positive selection in the fixation of new gene duplicates. Using the Drosophila Global Diversity Lines (GDL), we have combined genome-wide SNP polymorphism data with a novel set of copy number variant calls and gene expression profiles to characterize the polymorphic phase of new genes. We found that approximately half of the roughly 500 new complete gene duplications segregating in the GDL lead to significant increases in the expression levels of the duplicated genes and that these duplications are more likely to be found at lower frequencies, suggesting a negative impact on fitness. However, we also found that six of the nine gene duplications that are fixed or close to fixation in at least one of the five populations in our study show signs of being under positive selection, and that these duplications are likely beneficial because of dosage effects, with a possible role for additional mutations in two duplications. Our work suggests that in Drosophila, theoretical models that posit that gene duplications are immediately beneficial and fixed by positive selection are most relevant to explain the long-term evolution of gene duplications in this species.

Indexed as

TranscriptomeAnimalsDNA Copy Number VariationsDrosophila melanogasterDrosophila ProteinsEvolution, MolecularGene DuplicationGene FrequencyMaleSelection, GeneticDrosophila Proteins

Identifiers

PMID27197209
PMCPMC4889967

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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.