Subject: New issue: Molecular Biology and Evolution, Volume 42, Issue 10, October 2025

Volume 42, Issue 10, October 2025

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Highlights

10,000 Years of Agriculture-driven Human Evolution Through the Lens of a Single Gene

Pedro Andrade

Discoveries

Detecting Introgression in Shallow Phylogenies: How Minor Molecular Clock Deviations Lead to Major Inference Errors

Xiao-Xu Pang and others

Flexibility in Gene Coexpression at Developmental and Evolutionary Timescales

Eva K Fischer and others

From Binding to Catalysis: Emergence of a Rudimentary Enzyme Conferring Intrinsic Antibiotic Resistance

ClaudÃ¨le Lemay-St-Denis and others

Arthropod Pax Gene Evolution: A Role for Vanessa Cardui Twin of Eyeless in Eye Development

Ximena GutiÃ©rrez Ramos and Leslie Pick

Distinct Evolutionary Signatures of Human Parainfluenza Viruses 2 and 4 Reveal Host Antagonism Divergence and Phylogenetic Discordance

Stephanie Goya and Alexander L Greninger

Large-scale Genome Analyses Provide Insights into Hymenoptera Evolution

Chun He and others

Seasonal Influenza Viruses Show Distinct Adaptive Dynamics During Growth in Chicken Eggs

Kathryn Kistler and Trevor Bedford

Largest-Scale Genomic Resource Reconstructing the Genetic Origin, Population Structure, and Biological Adaptations of the Hui People

Guanglin He and others

Multiomic Analyses Reveal the Molecular Mechanisms of Arid Adaptation in a Desert Rodent Species

Shuai Yuan and others

Deciphering the Impact of Temperature on Pleiotropic Consequences of RNA Polymerase Mutations

Deniz Ozbilek and others

Genotype by Environment Interactions in Gene Regulation Underlie the Response to Soil Drying in the Model Grass Brachypodium distachyon

Jie Yun and others

Temperature and Pressure Shaped the Evolution of Antifreeze Proteins in Polar and Deep Sea Zoarcoid Fishes

Samuel N Bogan and others

Transposable Element-Mediated Cis-Regulation Drives the Evolution of dmrt1 as a Candidate Master Sex-Determining Gene in Black Carp

Jiamin Guo and others

Organism-Specific Sequence Motifs Link Ribosomal RNAs to Brain Disorders

Isidore Rigoutsos and others

Wide Diversity and Complex Evolution of M42 Aminopeptidases With Contrasted Functional Properties in Archaea

Emilie Chagny and others

Importance of De Novo Gene Evolution to Emerging Viral Threats: The ORF10 Strain-Restricted Orphan Gene of SARS-CoV-2 Promotes Pathogenesis

Jeffrey A Haltom and others

Evolution of Sex-Biased Gene Expression During Transitions to Separate Sexes in the Silene Genus

Djivan Prentout and others

Evolutionary Refinement of Mitochondrial and Plastid Targeting Sequences Coincides with the Late Diversification of Land Plants

Parth K Raval and others

From Rabl-like Architecture to Chromosome Territories: A Conserved Developmental Transition in Animal Genomes

Jing Liu

Functional Determinants and Evolutionary Consequences of Pleiotropy in Complex and Mendelian Traits

Yury A Barbitoff and others

Resolving the Stasis-Dynamism Paradox: Genome Evolution in Tree Ferns

Zuoying Wei and others

Natural Selection of a Virus-Protective FUT2 Variant Following the Transition to Agriculture

Johan Nordgren and others

High Conservation of Translation-Enabling RNA Editing Sites in Hyper-editing Ferns Implies They Are Not Selectively Neutral

Farley M Kwok van der Giezen and others

Genomic Drivers of Pyrethroid Resistance Escalation in the Malaria Vector Anopheles funestus Across Africa

Mahamat Gadji and others

Rapid Radiations Outweigh Reticulations During the Evolution of a 750-Million-Year-Old Lineage of Cyanobacteria

Carlos J Pardo-De la Hoz and others

Comprehensive Mutational Landscape of Yeast Mutator Strains Reveals the Genetic Basis of Mutational Signatures in Cancer

Lei Liu and others

Functional and Structural Determinants of Long- and Short-Term Evolution of Herpesvirus Proteins

Rotem Fuchs and others

Genomic Insights Into Convergent Evolution: Adaptation to Rocky Habitats in Rock-Inhabiting Fungi

Rong Fu and others

Methods

Introducing the Y-chromosomal Ancestral-like Reference Sequence'Improving the Capture of Human Evolutionary Information

Zehra KÃ¶ksal and others

SegMantX: A Novel Tool for Detecting DNA Duplications Uncovers Prevalent Duplications in Plasmids

Dustin M Hanke and Tal Dagan

Resources

eccDNABase: A Comprehensive and High-Quality Database for Extrachromosomal Circular DNA

Jin-Hao Zhang and others

Chromosome-Level Genome Assembly of Eden's Whale Clarifies the Taxonomy and Speciation of Bryde's Whale Complex

Yi-Tao Lin and others

Brief Communications

Tandem Gene Clusters as Phylogenetic Anchors Reveal the Hidden History of Vertebrate Visual Opsins

David Lagman and others

MyESL: A Software for Evolutionary Sparse Learning in Molecular Phylogenetics and Genomics

Maxwell Sanderford and others

Interpreting Supervised Machine Learning Inferences in Population Genomics Using Haplotype Matrix Permutations

Linh N Tran and others

Society for Molecular Biology and Evolution

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