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Viruses rule over adaptation in conserved human proteins

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1006/tpbi.1995.1026openalex-snapshot

Divergence Time and Population Size in the Lineage Leading to Modern Humans

inferredcites →https://doi.org/10.1016/j.cell.2018.08.034openalex-snapshot

Evidence that RNA Viruses Drove Adaptive Introgression between Neanderthals and Modern Humans

inferredcites →https://doi.org/10.1038/351652a0openalex-snapshot

Adaptive protein evolution at the Adh locus in Drosophila

inferredcites →https://doi.org/10.1038/nature07529openalex-snapshot

Protein kinase R reveals an evolutionary model for defeating viral mimicry

inferredcites →https://doi.org/10.1038/nature10336openalex-snapshot

The landscape of recombination in African Americans

inferredcites →https://doi.org/10.1038/nature12228openalex-snapshot

Great ape genetic diversity and population history

inferredcites →https://doi.org/10.1038/nature15393openalex-snapshot

A global reference for human genetic variation

inferredcites →https://doi.org/10.1038/s41559-019-0890-6openalex-snapshot

Exploiting selection at linked sites to infer the rate and strength of adaptation

inferredcites →https://doi.org/10.1073/pnas.0409853102openalex-snapshot

Positive selection of primate TRIM5 α identifies a critical species-specific retroviral restriction domain

inferredcites →https://doi.org/10.1073/pnas.1514696113openalex-snapshot

A genetic method for dating ancient genomes provides a direct estimate of human generation interval in the last 45,000 years

inferredcites →https://doi.org/10.1093/bioinformatics/btu763openalex-snapshot

Molecular principles of human virus protein–protein interactions

inferredcites →https://doi.org/10.1093/gbe/evv055openalex-snapshot

Recent Positive Selection Has Acted on Genes Encoding Proteins with More Interactions within the Whole Human Interactome

inferredcites →https://doi.org/10.1093/gbe/evy054openalex-snapshot

Signatures of Long-Term Balancing Selection in Human Genomes

inferredcites →https://doi.org/10.1093/genetics/134.4.1289openalex-snapshot

The effect of deleterious mutations on neutral molecular variation.

inferredcites →https://doi.org/10.1093/genetics/61.3.763openalex-snapshot

THE AVERAGE NUMBER OF GENERATIONS UNTIL FIXATION OF A MUTANT GENE IN A FINITE POPULATION

inferredcites →https://doi.org/10.1093/hmg/ddh183openalex-snapshot

Rapid evolution of primate antiviral enzyme APOBEC3G

inferredcites →https://doi.org/10.1093/molbev/msn148openalex-snapshot

Estimation of Hominoid Ancestral Population Sizes under Bayesian Coalescent Models Incorporating Mutation Rate Variation and Sequencing Errors

inferredcites →https://doi.org/10.1093/molbev/msr125openalex-snapshot

A Random Effects Branch-Site Model for Detecting Episodic Diversifying Selection

inferredcites →https://doi.org/10.1093/molbev/mst191openalex-snapshot

The Effective Population Sizes of the Anthropoid Ancestors of the Human-Chimpanzee Lineage Provide Insights on the Historical Biogeography of the Great Apes

inferredcites →https://doi.org/10.1093/nar/gkx1098openalex-snapshot

Ensembl 2018

inferredcites →https://doi.org/10.1098/rsbl.2018.0055openalex-snapshot

Overestimation of the adaptive substitution rate in fluctuating populations

inferredcites →https://doi.org/10.1101/gr.3715005openalex-snapshot

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

inferredcites →https://doi.org/10.1111/j.0014-3820.2002.tb00188.xopenalex-snapshot

THE ECOLOGY AND GENETICS OF FITNESS IN CHLAMYDOMONAS. XII. REPEATED SEXUAL EPISODES INCREASE RATES OF ADAPTATION TO NOVEL ENVIRONMENTS

inferredcites →https://doi.org/10.1126/science.1262110openalex-snapshot

The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans

inferredcites →https://doi.org/10.1371/journal.pbio.0020275openalex-snapshot

Ancient Adaptive Evolution of the Primate Antiviral DNA-Editing Enzyme APOBEC3G

inferredcites →https://doi.org/10.1371/journal.pbio.0030170openalex-snapshot

A Scan for Positively Selected Genes in the Genomes of Humans and Chimpanzees

inferredcites →https://doi.org/10.1371/journal.pbio.0040072openalex-snapshot

A Map of Recent Positive Selection in the Human Genome

inferredcites →https://doi.org/10.1371/journal.pcbi.1005182openalex-snapshot

WORMHOLE: Novel Least Diverged Ortholog Prediction through Machine Learning

inferredcites →https://doi.org/10.1371/journal.pgen.1000071openalex-snapshot

The Impact of Recombination on Nucleotide Substitutions in the Human Genome

inferredcites →https://doi.org/10.1371/journal.pgen.1000471openalex-snapshot

Widespread Genomic Signatures of Natural Selection in Hominid Evolution

inferredcites →https://doi.org/10.1371/journal.pgen.1005774openalex-snapshot

Adaptive Protein Evolution in Animals and the Effective Population Size Hypothesis

inferredcites →https://doi.org/10.1371/journal.pgen.1007023openalex-snapshot

High rate of adaptation of mammalian proteins that interact with Plasmodium and related parasites

inferredcites →https://doi.org/10.1534/genetics.117.300323openalex-snapshot

Inference of Distribution of Fitness Effects and Proportion of Adaptive Substitutions from Polymorphism Data

inferredcites →https://doi.org/10.7554/elife.12469openalex-snapshot

Viruses are a dominant driver of protein adaptation in mammals

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/ajpa.24086openalex-snapshot

Positively selected variants in functionally important regions of TLR7 in Alouatta guariba clamitans with yellow fever virus exposure in Northern Argentina

inferred← citeshttps://doi.org/10.1002/evl3.263openalex-snapshot

Using singleton densities to detect recent selection in Bos taurus

inferred← citeshttps://doi.org/10.1016/j.tig.2020.07.008openalex-snapshot

Studying Natural Selection in the Era of Ubiquitous Genomes

inferred← citeshttps://doi.org/10.1093/cz/zoac067openalex-snapshot

Genomic analysis of Tibetan ground tits identifies molecular adaptations associated with cooperative breeding

inferred← citeshttps://doi.org/10.1093/g3journal/jkae031openalex-snapshot

An efficient and robust ABC approach to infer the rate and strength of adaptation

inferred← citeshttps://doi.org/10.1093/molbev/msab291openalex-snapshot

Dissecting Genomic Determinants of Positive Selection with an Evolution-Guided Regression Model

inferred← citeshttps://doi.org/10.1098/rstb.2019.0575openalex-snapshot

Ancient RNA virus epidemics through the lens of recent adaptation in human genomes

inferred← citeshttps://doi.org/10.1101/2022.02.01.478712openalex-snapshot

Genomic signatures of host-specific selection in a parasitic plant

inferred← citeshttps://doi.org/10.1101/2022.12.01.518739openalex-snapshot

Stability evolution as a major mechanism of human protein adaptation in response to viruses

inferred← citeshttps://doi.org/10.1101/2023.10.06.559946openalex-snapshot

Quantifying Adaptive Evolution of the Human Immune Cell Landscape

inferred← citeshttps://doi.org/10.1534/genetics.119.302494openalex-snapshot

Comparison of the Full Distribution of Fitness Effects of New Amino Acid Mutations Across Great Apes

inferred← citeshttps://doi.org/10.7554/elife.69026openalex-snapshot

Decreased recent adaptation at human mendelian disease genes as a possible consequence of interference between advantageous and deleterious variants

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