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Estimating Temporally Variable Selection Intensity from Ancient DNA Data

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (3)

Novel technologies for recovering DNA information from archaeological and historical specimens have made available an ever-increasing amount of tempor......

A Novel Group of Dynamin-Related Proteins Shared by Eukaryotes and Giant Viruses Is Able to Remodel Mitochondria From Within the Matrix

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (6)

The diverse GTPases of the dynamin superfamily play various roles in the cell, as exemplified by the dynamin-related proteins (DRPs) Mgm1 and Opa1, wh......

A Quantitative Theory for Genomic Offset Statistics

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (6)

Genomic offset statistics predict the maladaptation of populations to rapid habitat alteration based on association of genotypes with environmental va......

Inferring Human Immunodeficiency Virus 1 Proviral Integration Dates With Bayesian Inference

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (8)

Human immunodeficiency virus 1 (HIV) proviruses archived in the persistent reservoir currently pose the greatest obstacle to HIV cure due to their eva......

Tracing Eastern Wolf Origins From Whole-Genome Data in Context of Extensive Hybridization

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (4)

Southeastern Canada is inhabited by an amalgam of hybridizing wolf-like canids, raising fundamental questions regarding their taxonomy, origins, and t......

Two Forms of Sexual Dimorphism in Gene Expression in Drosophila melanogaster: Their Coincidence and Evolutionary Genetics

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (5)

Phenotypic sexual dimorphism can be mediated by sex differences in gene expression. We examine two forms of sexual dimorphism in gene expression in Dr......

Natural Selection Signatures in the Hondo and Ryukyu Japanese Subpopulations

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (10)

Natural selection signatures across Japanese subpopulations are under-explored. Here we conducted genome-wide selection scans with 622,926 single nucl......

The Scorpionfly (Panorpa cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (12)

Many insects carry an ancient X chromosome-the Drosophila Muller element F-that likely predates their origin. Interestingly, the X has undergone turno......

DNA Conserved in Diverse Animals Since the Precambrian Controls Genes for Embryonic Development

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (12)

DNA that controls gene expression (e.g. enhancers, promoters) has seemed almost never to be conserved between distantly related animals, like vertebra......

Improving Orthologous Signal and Model Fit in Datasets Addressing the Root of the Animal Phylogeny

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (1)

There is conflicting evidence as to whether Porifera (sponges) or Ctenophora (comb jellies) comprise the root of the animal phylogeny. Support for eit......

MitoFish, MitoAnnotator, and MiFish Pipeline: Updates in 10 Years

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (3)

MitoFish, MitoAnnotator, and MiFish Pipeline are comprehensive databases of fish mitochondrial genomes (mitogenomes), accurate annotation software of ......

Ancient and Nonuniform Loss of Olfactory Receptor Expression Renders the Shark Nose a De Facto Vomeronasal Organ

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (4)

Cartilaginous fishes are renowned for a keen sense of smell, a reputation based on behavioral observations and supported by the presence of large and ......

Bivalves Present the Largest and Most Diversified Repertoire of Toll-Like Receptors in the Animal Kingdom, Suggesting Broad-Spectrum Pathogen Recognition in Marine Waters

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (6)

Toll-like receptors (TLRs) are the most widespread class of membrane-bound innate immune receptors, responsible of specific pathogen recognition and p......

Pithoviruses Are Invaded by Repeats That Contribute to Their Evolution and Divergence from Cedratviruses

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (11)

Pithoviridae are amoeba-infecting giant viruses possessing the largest viral particles known so far. Since the discovery of Pithovirus sibericum, reco......

Interactomics: Dozens of Viruses, Co-evolving With Humans, Including the Influenza A Virus, may Actively Distort Human Aging

期刊: MOLECULAR BIOLOGY AND EVOLUTION, 2023; 40 (2)

Some viruses (e.g., human immunodeficiency virus 1 and severe acute respiratory syndrome coronavirus 2) have been experimentally proposed to accelerat......

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