Genome Biology and Evolution

Article	Citations
Mitonuclear Coevolution in Bumblebees (Bombus): Genomic Signatures and Its Role in Climatic Niche Adaptation	86
Genomic Resources and Annotations for a Colonial Ascidian, the Light-Bulb Sea Squirt Clavelina lepadiformis	77
Genome Evolution and Introgression in the New Zealand mud Snails Potamopyrgus estuarinus and Potamopyrgus kaitunuparaoa	66
A Simulation Framework for Modeling the Within-Patient Evolutionary Dynamics of SARS-CoV-2	57
Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus Somion occarium	57
Cis-regulatory Variation in Relation to Sex and Sexual Dimorphism in Drosophila melanogaster	52
Impact of Phylogenetic Method Choice on Indel Analyses in HIV-1 Subtype B	52
Divergence in theSaccharomycesSpecies’ Heat Shock Response Is Indicative of Their Thermal Tolerance	52
Palaeognaths Reveal Evolutionary Ancestry of the Avian Major Histocompatibility Complex Class II	52
Genealogical Analyses of 3 Cultivated and 1 Wild Specimen of Vitis vinifera from Greece	46
Correction to: Genome-Scale Data Reveal Deep Lineage Divergence and a Complex Demographic History in the Texas Horned Lizard (Phrynosoma cornutum) throughout the Southwestern and Central United	43
Highlight: Gene Cluster Reshuffling Drives Natural Sunscreen Evolution in Lichens	41
The Nitroplast and Its Relatives Support a Universal Model of Features Predicting Gene Retention in Endosymbiont and Organelle Genomes	38
Ancient Sheep Genomes Reveal Four Millennia of North European Short-Tailed Sheep in the Baltic Sea Region	37
OrthoPhy: A Program to Construct Ortholog Data Sets Using Taxonomic Information	36
Technological Development and Advances for Constructing and Analyzing Plant Pangenomes	34
Genetic Analysis of Mingrelians Reveals Long-Term Continuity of Populations in Western Georgia (Caucasus)	34
Detecting Positive Selection by Modeling Structure Within Images of Genetic Variation	33
Archaic introgression shapes genetic variation at loci associated with DNA virus load in modern humans	33
An Ocean of Opsins	33
Diversity of Sex Chromosomes in Vertebrates: Six Novel Sex Chromosomes in Basal Haplochromines (Teleostei: Cichlidae)	32
“Correcting” Gene Trees to be More Like Species Trees Frequently Increases Topological Error	31
Origin and Evolution of Key Enzymes in the Anammox Pathway Revisited	30
Testing the Mother's Curse Hypothesis in Human Mitochondrial Genome Evolution	30
Highlight: The “Wild West” of Mitochondrial Genome Evolution in the Gastrotricha	29

Filtration of Gene Trees From 9,000 Exons, Introns, and UCEs Disentangles Conflicting Phylogenomic Relationships in Tree Frogs (Hylidae)	28
Egg Yolk Protein Homologs Identified in Live-Bearing Sharks: Co-Opted in the Lecithotrophy-to-Matrotrophy Shift?	28
Evolution of Plant Conserved microRNAs After Whole-Genome Duplications	27
High Polymorphism Levels of De Novo ORFs in a Yoruba Human Population	27
Discovery of New Genomic Configuration of Mating-Type Loci in the Largest Lineage of Lichen-Forming Fungi	26
Population Genomics of Japanese Macaques (Macaca fuscata): Insights Into Deep Population Divergence and Multiple Merging Histories	26
Does Effective Population Size Govern Evolutionary Differences in Telomere Length?	26
Myxozoans (Cnidaria) do not Retain Key Oxygen-Sensing and Homeostasis Toolkit Genes	26
Comprehensive Phylogenomics of Methylobacterium Reveals Four Evolutionary Distinct Groups and Underappreciated Phyllosphere Diversity	25
Multiple Domestication Centers of the Indian Pig Population	25
Ohnologs and SSD Paralogs Differ in Genomic and Expression Features Related to Dosage Constraints	24
Editor's Note on: Can a Y chromosome degenerate in an evolutionary instant? A commentary on Fong et al. 2023	24
Genome Dynamics and Temperature Adaptation During Experimental Evolution of Obligate Intracellular Bacteria	23
The Evolution of Bees: Insights from ‘Omic Studies	23
New Genome Assemblies for Poeciliidae: A Foundation for Adaptation Studies	23
Population Genetics of Reproductive Genes in Haplodiploid Species	23
Genomic Insights into Fertilization: Tracing PLCZ1 Orthologs Across Amphibian Lineages	23
Genetic Drift and Host-Adaptive Features Likely Underlie the Cladogenesis of Insect-Associated Lachnospiraceae	23
T Residues Preceded by Runs of G Are Hotspots of T→G Mutation in Bacteria	22
Analyses of Transposable Elements in Arbuscular Mycorrhizal Fungi Support Evolutionary Parallels With Filamentous Plant Pathogens	22
A Chromosome-Level Genome Assembly ofToona ciliata(Meliaceae)	22
Chromosome-Level Genome Assembly of the Viviparous Eelpout Zoarces viviparus	22
Fine-Scale Map Reveals Highly Variable Recombination Rates Associated with Genomic Features in the Eurasian Blackcap	22
Characterizing a Novel Symbiopectobacterium purcellii MEX Strain at the Early Stages of Establishing a Symbiotic Relationship	22
Evolution of the Growth Hormone Gene Duplication in Passerine Birds	22
Highlight: Tardigrades and the Science of Extreme Survival	22
Allelic Variation at tRNA Genes in Three Nematode Species Indicates Mutation Load Despite Strong Purifying Selection	22
ZW Sex Chromosome Differentiation in Palaeognathous Birds Is Associated with Mitochondrial Effective Population Size but Not Mitochondrial Genome Size or Mutation Rate	21
Calling Structural Variants with Confidence from Short-Read Data in Wild Bird Populations	21
Genetic Signatures of Positive Selection in Human Populations Adapted to High Altitude in Papua New Guinea	21
On the Origin and Evolution of Microbial Mercury Methylation	21
It Took Me a While to Figure out What Science I Really Wanted to Do	20
ORFans in Mitochondrial Genomes of Marine Polychaete Polydora	20
De Novo Genome Assemblies From Two Indigenous Americans from Arizona Identify New Polymorphisms in Non-Reference Sequences	20
A High Frequency of Chromosomal Duplications in Unicellular Algae Is Compensated by Translational Regulation	20
Chromosome-Scale Genomes of the Flightless Caterpillar Hunter Beetles Calosoma tepidum and Calosoma wilkesii From British Columbia (Coleoptera: Carabidae)	20
Highlight: The Surprising Endurance of DNA's Smallest Repeats	20
Haplotype-Resolved, Chromosome-Level Assembly of White Clover (Trifolium repens L., Fabaceae)	20
The Genomics of Convergent Adaptation to Intertidal Gravel Beaches in Mediterranean Clingfishes	19
The Evolution and Characterization of the RNA Interference Pathways in Lophotrochozoa	19
Parameter Scaling in Population Genetics Simulations may Introduce Unintended Background Selection: Considerations for Scaled Simulation Design	19
Orphan and de novo Genes in Fungi and Animals: Identification, Origins and Functions	19
Genomic Adaptations to an Endoparasitic Lifestyle in the Morphologically Atypical CrustaceanSacculina carcini(Cirripedia: Rhizocephala)	19
Selection on the Fly: Short-Term Adaptation to an Altered Sexual Selection Regime in Drosophila pseudoobscura	19
Evolution of an Alternative Genetic Code in the Providencia Symbiont of the Hematophagous Leech Haementeria acuecueyetzin	19
The Structure of Simple Satellite Variation in the Human Genome and Its Correlation With Centromere Ancestry	19
Extensive Recombination-driven Coronavirus Diversification Expands the Pool of Potential Pandemic Pathogens	19
Alternative Mutational Architectures Producing Identical M-Matrices can Lead to Different Patterns of Evolutionary Divergence	19
Highlight: Unraveling the Origins of LUCA and LECA on the Tree of Life	19
Chromosome-Level Sex-Specific Genome Assemblies of Onthophagus binodis Provide Insight into Scarab Sex Chromosomes	18

Recurrent Chromosome Destabilization Through Repeat-Mediated Rearrangements in a Fungal Pathogen	18
Comparative Analysis of Transposable Element Evolution in Crustaceans	18
Genome-wide Evidence of Host Specialization in Wild and Farmland Populations of the Fungal Leaf Spot Pathogen, Cercospora beticola	18
Examining the Effects of Hibernation on Germline Mutation Rates in Grizzly Bears	18
Convergent Evolution and Predictability of Gene Copy Numbers Associated with Diets in Mammals	18
Genomic Data Reveal Diverse Biological Characteristics of Scleractinian Corals and Promote Effective Coral Reef Conservation	18
Phylogenomic Analysis of Deep-Branching Telonemid	18
Chromosome-Level Assemblies of Three Candidatus Liberibacter solanacearum Vectors: Dyspersa apicalis (Förster, 1848), Dyspersa pallida (Burckhardt, 1986), and Trioza urticae	17
Extensive Loss and Gain of Conserved Noncoding Elements During Early Teleost Evolution	17
Emilia Huerta-Sanchez	17
Nanopore Sequencing of Amoebophrya Species Reveals Novel Collection of Bacteria Putatively Associated With Karlodinium veneficum	17
Identification of Y-chromosome Turnover in Newts Fails to Support a Sex Chromosome Origin for the Triturus Balanced Lethal System	17
The Genome Sequence of the Hemlock Woolly Adelgid, Adelges tsugae Annand 1924	17
From Genomes to Hives: ‘Omics Perspectives on Eusocial Evolution and the Ecology of Bees	17
Challenges in Assembling the Dated Tree of Life	17
Nonsystematic Reporting Biases of the SARS-CoV-2 Variant Mu Could Impact Our Understanding of the Epidemiological Dynamics of Emerging Variants	17
Convergent Evolution Has Led to the Loss of Claw Proteins in Snakes and Worm Lizards	16
Where Are the Formerly Y-linked Genes in the Ryukyu Spiny Rat that has Lost its Y Chromosome?	16
Linked-Read Sequencing of Eight Falcons Reveals a Unique Genomic Architecture in Flux	16
Complex Patterns of Hitchhiking Mutation Load Among Stickleback Populations	16
Conserved Noncoding Elements Evolve Around the Same Genes Throughout Metazoan Evolution	16
A Chromosome-Level Genome Assembly and Annotation for the Clouded Apollo Butterfly (Parnassius mnemosyne): A Species of Global Conservation Concern	16
Signatures of Selection on Mitonuclear Integrated Genes Uncover Hidden Mitogenomic Variation in Fur Seals	16
Cytogenetic Analysis of the Fish Genus Carassius Indicates Divergence, Fission, and Segmental Duplication as Drivers of Tandem Repeat and Microchromosome Evolution	16
Lessons from Extremophiles: Functional Adaptations and Genomic Innovations across the Eukaryotic Tree of Life	16
Impact of Heat Stress on Transposable Element Expression and Derived Small RNAs in Drosophila subobscura	16
Exploring the Relationship Between Gene Expression and Low-Frequency Somatic Mutations in Arabidopsis with Duplex Sequencing	16
Arthropod Phylotranscriptomics With a Special Focus on the Basal Phylogeny of the Myriapoda	15
Low Mutation Rate and Atypical Mutation Spectrum in Prasinoderma coloniale: Insights From an Early Diverging Green Lineage	15
The Impact of Sample Size and Population History on Observed Mutational Spectra: A Case Study in Human and Chimpanzee Populations	15
Unveiling the Virome of Wild Birds: Exploring CRESS-DNA Viral Dark Matter	15
Size Matters: Genome Size Dynamics Driven by Copy Number Variation in a Green Alga	15
Characterization of Single-Cell Cis-regulatory Elements Informs Implications for Cell Differentiation	15
Selection and Gene Duplication Associated With High-Elevation Diversification in Pristimantis, the Largest Terrestrial Vertebrate Genus	15
Accurate Detection of Convergent Mutations in Large Protein Alignments With ConDor	15
Paralogous Gene Recruitment in Multiple Families Constitutes Genetic Architecture and Robustness of Pod Dehiscence in Legumes	15
Highlight: Microbial Manipulators of Insect Sexual Reproduction	15
Diverse Gene Regulatory Mechanisms Alter Rattlesnake Venom Gene Expression at Fine Evolutionary Scales	15
Small but Mitey: A Gapless Telomere-to-Telomere Assembly of an Unidentified Mite With a Streamlined Genome	15
Adaptive Potential of Epigenetic Switching During Adaptation to Fluctuating Environments	15
Discovery of Paralogous GnRH and Corazonin Signaling Systems in an Invertebrate Chordate	15
Chromosome-Scale Genome Assembly and Annotation of Allotetraploid Annual Bluegrass (Poa annua L.)	15
Cell Compartment is a Predictor of Protein Rate of Evolution, but not in the Manner Expected: Evidence Against the Extended Complexity Hypothesis	14
Evolutionary Genomics of Sister Species Differing in Effective Population Sizes and Recombination Rates	14
Inferring the Selective History of CNVs Using a Maximum Likelihood Model	14
The Effect of the Presence and Absence of DNA Repair Genes on the Rate and Pattern of Mutation in Bacteria	14
Genome-Wide Demographic Analyses of Balaenid Whales Revealed Complex History of Gene Flow Associated with Past Climate Oscillation	14
Population Genomics of Giant Mice from the Faroe Islands: Hybridization, Colonization, and a Novel Challenge to Identifying Genomic Targets of Selection	14
One Sea, Different Whales: Genomics Sheds Light on a Small Population of Fin Whales	14
Recent Microbial Evolutionary Insights From Metagenomics	14
Correction to: Before the East African radiation: sex chromosome systems in basal haplotilapiine cichlids	14
Can a Y Chromosome Degenerate in an Evolutionary Instant? A Commentary on Fong et al. 2023	14
Novel High-Quality Amoeba Genomes Reveal Widespread Codon Usage Mismatch Between Giant Viruses and Their Hosts	14
Draft Genome of Entamoeba marina Provides Insights Into the Attenuation of Pathogenicity and Adaptation to the Marine Environment	14
Chromosome-Scale Assembly of Capsella orientalis, Maternal Progenitor of Cosmopolitan Allotetraploid C. bursa-pastoris	13
Opportunistic Bacteria of Grapevine Crown Galls Are Equipped with the Genomic Repertoire for Opine Utilization	13
The Effect of Methodological Considerations on the Construction of Gene-Based Plant Pan-genomes	13
Genome-Scale Analysis Reveals Extensive Diversification of Voltage-Gated K+ Channels in Stem Cnidarians	13
Discovering Intron Gain Events in Humans Through Large-Scale Evolutionary Comparisons	13
Genetic Variation in Jamaican Populations of the Coffee Berry Borer, Hypothenemus hampei	13
Gene Duplication, Shifting Selection, and Dosage Balance of Silicon Transporter Proteins in Marine and Freshwater Diatoms	13
Ancient Loss of Catalytic Selenocysteine Spurred Convergent Adaptation in a Mammalian Oxidoreductase	13
Sexual Antagonism and Sex Determination in Three Syngnathid Species Alongside a Male Pregnancy Gradient	13
Experimental Evaluation of a Direct Fitness Effect of the De Novo Evolved Mouse Gene Pldi	13
Examining the Effects of Temperature on the Evolution of Bacterial tRNA Pools	13
Correlated Evolutionary Rates Reveal Novel Components and Cross-Compartment Connectivity in Plant Proteostasis Systems	13
A Genome for Edith’s Checkerspot Butterfly: An Insect with Complex Host-Adaptive Suites and Rapid Evolutionary Responses to Environmental Changes	13
Correction to: Editorial 2024	13
LukProt: A Database of Eukaryotic Predicted Proteins Designed for Investigations of Animal Origins	13
The Legacy of Infectious Disease Exposure on the Genomic Diversity of Indigenous Southern Mexicans	13
Making a Pathogen? Evaluating the Impact of Protist Predation on the Evolution of Virulence in Serratia marcescens	13
Plethora of New Marsupial Genomes Informs Our Knowledge of Marsupial MHC Class II	13
Sequencing Bait: Nuclear and Mitogenome Assembly of an Abundant Coastal Tropical and Subtropical Fish,Atherinomorus stipes	13
Epigenetic and Genetic Differentiation Between Coregonus Species Pairs	12
Retrotransposition Events Shape the Evolution of the Ataxin-3 Gene Family in Primates	12
Draft Genome of Akame (Lates Japonicus) Reveals Possible Genetic Mechanisms for Long-Term Persistence and Adaptive Evolution with Low Genetic Diversity	12
Mitogenomics and mitochondrial gene phylogeny decipher the evolution of Saccharomycotina yeasts	12
Piecing Together the History of Protein Folds From a Fragmented Evolutionary Record	12
Conserved Genes in Highly Regenerative Metazoans Are Associated with Planarian Regeneration	12
Mitochondrial Variation in Anopheles gambiae and Anopheles coluzzii: Phylogeographic Legacy and Mitonuclear Associations With Metabolic Resistance to Pathogens and Insecticides	12

Elucidating the Molecular Mechanisms of Sex Ratio Distortion Mediated by Cytoplasmic Symbionts	12
Domestication Reduces Plant Immune Receptor Gene Repertoires Across Lineages	12
Modeling Substitution Rate Evolution across Lineages and Relaxing the Molecular Clock	12
Potential Role of DNA Methylation as a Driver of Plastic Responses to the Environment Across Cells, Organisms, and Populations	12
Comparative Genomics Reveals Multipartite Genomes Undergoing Loss in the Fungal Endosymbiotic Genus Mycetohabitans	12
Comparative Population Genomics of Arctic Sled Dogs Reveals a Deep and Complex History	12
THI1 Gene Evolutionary Trends: A Comprehensive Plant-Focused Assessment via Data Mining and Large-Scale Analysis	11
Chromosome Structural Rearrangements in Invasive Haplodiploid Ambrosia Beetles Revealed by the Genomes of Euwallacea fornicatus (Eichhoff) and Euwallacea similis (Ferrari) (Coleoptera, C	11
Phylotranscriptomic Analyses of Mycoheterotrophic Monocots Show a Continuum of Convergent Evolutionary Changes in Expressed Nuclear Genes From Three Independent Nonphotosynthetic Lineages	11
Rapid Adaptation Often Occurs through Mutations to the Most Highly Conserved Positions of the RNA Polymerase Core Enzyme	11
Divergence and Selection in a Cryptic Species Complex ( Geonoma undata : Arecaceae) in the Northern Andes of Colombia	11
Tracing Homopolymers in Oikopleura dioica's Mitogenome	11
Contrasting Genomic Evolution Between Domesticated and Wild Kluyveromyces lactis Yeast Populations	11
Emergence and Tandem Repeat-Mediated Elongation of a Translated De Novo Open Reading Frame in Human Oncogenic RNA Gene VPS9D1-AS1 (MYU)	11
Highlight: Running Circles Around Genome Architecture	11
Insertion–Deletion Events Are Depleted in Protein Regions with Predicted Secondary Structure	11
History of Diversification and Adaptation from North to South Revealed by Genomic Data: Guanacos from the Desert to Sub-Antarctica	11
C. Brandon Ogbunu(gafor)	11
Evolution of Metabolome and Transcriptome Supports a Hierarchical Organization of Adaptive Traits	11
RNA-sequencing Analysis of Hybrid Females Reveals a Dominance of Expression of Alleles From Outcrossing Species Over Those From Selfing Species	11
Phylogenomic Analyses of 2,786 Genes in 158 Lineages Support a Root of the Eukaryotic Tree of Life between Opisthokonts and All Other Lineages	11
Campylobacter fetus Plasmid Diversity: Comparative Analysis of Fully Sequenced Plasmids and Proposed Classification Scheme	11
The First Annotated Genome Assembly of Macrophomina tecta Associated with Charcoal Rot of Sorghum	11
Duplications and Retrogenes Are Numerous and Widespread in Modern Canine Genomic Assemblies	11
Chromosomal Rearrangements and Transposable Elements in Locally Adapted Island Drosophila	11
Chromosome-scale Genome Assembly of the Most Abundant Ectomycorrhizal Fungus Cenococcum Geophilum Reveals Massive TE Expansion and RIP Defense Mechanism	11
Comparing Small and Large Genomes Within Monogonont Rotifers	11
Correction to: Genetic Diversity in Chimpanzee Transcriptomics Does Not Represent Wild Populations	11
Telomere-to-telomere Genome Assembly of the Clubroot Pathogen Plasmodiophora Brassicae	11
Small Genome Size Ensures Adaptive Flexibility for an Alpine Ginger	10
Epigenetic and Genetic Population Structure is Coupled in a Marine Invertebrate	10
Contrasting Modes of Mitochondrial Genome Evolution in Sister Taxa of Wood-Eating Marine Bivalves (Teredinidae and Xylophagaidae)	10
Chromosome-Level Genome Assembly of the Asian Tramp Snail Bradybaena similaris (Stylommatophora: Camaenidae)	10
The Chromosome-Scale Genome Assembly of the Redlip Blenny, Ophioblennius macclurei (Blenniidae)	10
Assessing the Presence of Recent Adaptation in the Human Genome With Mixture Density Regression	10
Chromosome-Scale Genome Assembly of the Solitary Parasitoid Wasp Microplitis manilae Ashmead, 1904 (Braconidae: Microgastrinae)	10
Flatworm Transcriptomes Reveal Widespread Parasitism by Histophagous Ciliates	10
Chromosome-Level Assembly and Annotation of the Genome of the Endangered Giant Patagonian Bumble Bee Bombus dahlbomii	10
Signals of Ancestry-Specific Selection in Gentle Africanized Honey Bees	10
The Genome of Plasmodium gonderi: Insights into the Evolution of Human Malaria Parasites	10
De Novo Genome Assembly and Annotation for the Synanthropic Webbing Clothes Moth ( Tineola bisselliella ): A Globally Distributed, Economically Important	10
Unraveling the Genome of Epidendrum Fulgens : Demographic History and Gene Family Dynamics in a Resilient Neotropical Orchid	10
Demographic History of Indigenous Populations in Mexico Explored Through Whole Mitogenome Analysis	10
Genome Assembly of the Nematode Rhabditoides Inermis From a Complex Microbial Community	10
Alternative Modes of Introgression-Mediated Selection Shaped Crop Adaptation to Novel Climates	10
Aminoacyl-tRNA Synthetase Evolution within the Dynamic Tripartite Translation System of Plant Cells	10
Neo-sex Chromosomes Track the Mitochondrial Phylogeny and Exhibit an Extensive Added Stratum of Recombination Suppression in Honeyeaters (Aves: Meliphagidae)	9
Brain Gene Expression of Foraging Behavior and Social Environment inCeratina calcarata	9
A Short-Term View of Protein Sequence Evolution from Salmonella	9
Chromosome-Level Assembly and Annotation of the Grey Reef Shark (Carcharhinus amblyrhynchos) Genome	9
Functional Compensation of Mouse Duplicates by their Paralogs Expressed in the Same Tissues	9
De Novo Chromosome-Level Assembly of the Endangered Pilocarpus Microphyllus Highlights Genomic Resources for Conservation and	9
Molecular Basis of Eusocial Complexity: The Case of Worker Reproductivity in Bees	9
Exploring the Relationship of Transposable Elements and Ageing: Causes and Consequences	9
Dynamic Birth and Death of Argonaute Gene Family Functional Repertoire Across Caenorhabditis Nematodes	9
Habitat-associated Genomic Variation in a Wall Lizard from an Oceanic Island	9
TIdeS: A Comprehensive Framework for Accurate Open Reading Frame Identification and Classification in Eukaryotic Transcriptomes	9
The Early Evolution of Tudor Genes in Holozoa and How Their Distribution Was Influenced by Life History Traits in Metazoa	9
Comparative Genomics and Phylogenomics of the Mustelinae Lineage (Mustelidae, Carnivora)	9
The Linkage-Disequilibrium and Recombinational Landscape in Daphnia pulex	9
Replication-Dependent Organization Constrains Positioning of Long DNA Repeats in Bacterial Genomes	9
A Machine Learning Framework Identifies Plastid-Encoded Proteins Harboring C3 and C4 Distinguishing Sequence Information	9
Spontaneous Mutations Occur More in Highly Transcribed Regions in Daphnia	9
Inferring the Demographic History of Aye-Ayes ( Daubentonia madagascariensis ) from High-Quality, Whole-Genome, Population-Level Data	9
Chromosome-Level Genome Assembly of the Australian Rainforest Tree Rhodamnia argentea (Malletwood)	9
Global Environmental Factors Impact the Evolution of Adult Hemoglobins in Squamata Reptiles (Lizards and Snakes) and Terrestrial Turtles	9
The Site/Group Extended Data Format and Tools	9
Gene Loss may have Shaped the Cnidarian and Bilaterian Hox and ParaHox Complement	9
Phylogenetic Methods Meet Deep Learning	9
Inside the Shark Nursery: The Evolution of Live Birth in Cartilaginous Fish	9
Dollo Parsimony Overestimates Ancestral Gene Content Reconstructions	9
Re-examining Correlations Between Synonymous Codon Usage and Protein Bond Angles in Escherichia coli	9
The Mutational Road not Taken: Using Ancestral Sequence Resurrection to Evaluate the Evolution of Plant Enzyme Substrate Preferences	9
Comparative Genomics Reveals Intra and Inter Species Variation in the Pathogenic Fungus Batrachochytrium dendrobatidis	9
Selection Shapes the Genomic Landscape of Introgressed Ancestry in a Pair of Sympatric Sea Urchin Species	9
Evidence of Relaxed Selection in the Mitochondrial Genomes of Phototrophic Paulinella Lineages	8
Correction to: The Genome of Plasmodium gonderi: Insights into the Evolution of Human Malaria Parasites	8
Genome Assembly and Population Sequencing Reveal Three Populations and Signatures of Insecticide Resistance ofTuta absolutain Latin America	8
De Novo Long-Read Genome Assembly and Annotation of the Mosquito Gut-Dwelling Fungus, Smittium minutisporum	8
MATEdb2, a Collection of High-Quality Metazoan Proteomes across the Animal Tree of Life to Speed Up Phylogenomic Studies	8
Genome Scans Reveal Species-Specific Selection in the Genus Lynx	8
IRplus: An Augmented Tool to Detect Inverted Repeats in Plastid Genomes	8
Rapid Evolution of the Embryonically Expressed Homeobox GeneLEUTXwithin Primates	8
Highlight: From Prey to Pathogen—The Role of Predation in Driving Virulence	8
Template Switching as a Driver of Promoter Evolution in Yeast: Case Study of the GRE2 Gene	8
A Deep Dive into the Globin Superfamily of Sharks, Skates, and Rays: Contrasting Patterns of Gene Loss and Retention Relative to Bony Vertebrates	8
Genomic analysis of Megalocytivirus genomes reveals widespread recombination	8
Maturases and Group II Introns in the Mitochondrial Genomes of the Deepest Jakobid Branch	8
Chromosome-Level Genome Assembly and Annotation of Corallium rubrum: A Mediterranean Coral Threatened by Overharvesting and Climate Change	8
Mutational Signatures in Wild Type Escherichia coli Strains Reveal Predominance of DNA Polymerase Errors	8
From Trees to Traits: A Review of Advances in PhyloG2P Methods and Future Directions	8
Evaluating the Performance of Widely Used Phylogenetic Models for Gene Expression Evolution	8
Cell Type Resolved Expression of Duplicate Genes Retained From Whole Genome Duplication in Atlantic salmon	8
Bridging Micro- and Macroevolution: Phylogenomic Evidence for the Nearly Neutral Theory in Mammals	8
Convergent Evolution in a Murine Intestinal Parasite Rapidly Created the TGM Family of Molecular Mimics to Suppress the Host Immune Response	8