Molecular Ecology

Article	Citations
Issue Information	182
Genetic Adaptation to Brackish Water and Spawning Season in European Cisco	99
Extremes of snow and temperature affect patterns of genetic diversity and differentiation in the alpine butterfly Parnassius smintheus	90
Adaptive cellular evolution or cellular system drift in hares	80
Diving into the diversity of colour patterns in reef fishes	77
Community‐wide correlations between species richness, abundance and population genomic diversity in a freshwater biodiversity hotspot	74
Understanding the role of temperature in seasonal timing: Effects on behavioural, physiological and molecular phenotypes	73
Association between parasite microbiomes and caste development and colony structure in a social trematode	69
Demographic modelling helps track the rapid and recent divergence of a conifer species pair from Central Mexico	66
The effect of divergent and parallel selection on the genomic landscape of divergence	63
Cryptic Barriers to Gene Flow Driven by Deep‐Sea Reproductive Strategy in Direct‐Developing Pandalid Shrimp	60
Issue Information	59
Massive Genomic and Transcriptomic Changes Within a Young Inversion Polymorphism in the Absence of Degeneration	58
Evolutionary roles of polyploidization‐derived structural variations in the phenotypic diversification of Panax species	55
The transcriptional state and chromatin landscape of cichlid jaw shape variation across species and environments	53
Positive selection in gamete interaction proteins in Carnivora	50
The impacts of positive selection on genomic variation in Drosophila serrata: Insights from a deep learning approach	49
Combined Evidence Reveals the Origin of a Rapid Range Expansion Despite Retained Genetic Diversity and a Weak Founder Effect	48
Out of the Qinghai‐Tibet plateau: Genomic biogeography of the alpine monospecific genus Megadenia (Biscutelleae, Brassicaceae)	47
Bacterial communities in a subarctic stream network: Spatial and seasonal patterns of benthic biofilm and bacterioplankton	46
DNA Methylation Dynamics Reflect Sex and Status Differences in Mortality Rates in a Polygynous Bat	45
DNA Metabarcoding Reveals Unexpected Predator–Prey–Microbial Dynamics in the Southern Right Whale ( Eubalaena australis )	45
Evolutionary History and Rhizosphere Microbial Community Composition in Domesticated Hops ( Humulus lupulus L .	45
Organellar DNA continues to provide a rich source of information in the genomics era	45
Genomic, morphological and physiological data support fast ecotypic differentiation and incipient speciation in an alpine diving beetle	44

	44
Discovery of XY Sex Chromosomes in Mauremys mutica Provides Insights Into the Role of KDM6B Gene in Coexistence of Temperature‐Dependent and Genetic Sex Determination	42
More complex than you think: Taxonomic and temporal patterns of plant–pollinator networks of caraway (Carum carvi L.)	41
Clones on the run: The genomics of a recently expanded partially clonal species	40
Museomics Sheds Light on Evolutionary Diversity in a Critically Endangered Cockatoo Species From Wallacea	40
Long‐read sequencing in ecology and evolution: Understanding how complex genetic and epigenetic variants shape biodiversity	38
A genomic assessment of the marine‐speciation paradox within the toothed whale superfamily Delphinoidea	38
Ecology Not Genetic Covariance Explains Correlated Trait Divergence During Speciation	38
Acclimatory gene expression of primed clams enhances robustness to elevated pCO2	37
Experimental evidence that root‐associated fungi improve plant growth at high altitude	37
Genome‐wide SNP assessment of contemporary European red deer genetic structure highlights the distinction of peripheral populations and the main admixture zones in Europe	37
Decoding plant‐induced transcriptomic variability and consistency in two related polyphagous mites differing in host ranges	37
Effect of urbanization and parasitism on the gut microbiota of Darwin's finch nestlings	36
Spatial and Temporal Structure of Environmentally‐Acquired Caballeronia Symbionts of a Leaffooted Bug	35
Grassland ecosystem type drives AM fungal diversity and functional guild distribution in North American grasslands	35
Genetic and telomeric variability: Insights from a tropical avian hybrid zone	35
On the origin and structure of haplotype blocks	34
Ultraconserved Elements Reveal the Relationship Between Facultative Keratinophagy and Synanthropic Evolution in Clothes Moths	33
Brazilian marine phylogeography: A literature synthesis and analysis of barriers	33
Issue Information	33
Infection by the Lungworm Rhabdias pseudosphaerocephala Affects the Expression of Immune‐Related microRNAs by Its Co‐Evolved Host, the Cane Toad Rhinella marina	33
Genomic divergence and introgression between cryptic species of a widespread North American songbird	33
The effect of a temperature‐sensitive prophage on the evolution of virulence in an opportunistic bacterial pathogen	32
Dissolved Organic Carbon Shapes Sediment Bacterial Diversity in Continental Lakes	32
Issue Information	32
	32
Evolutionary ecology of denitrifying methanotrophic NC10 bacteria in the deep‐sea biosphere	32
Genome‐wide phylogeography reveals cryptic speciation in the circumglobal planktonic calcifier Limacina bulimoides	32
Differential Bottom‐Up Control of Planktonic and Sedimentary Bacterial Communities by Phytoplankton and Extracellular Enzymes in an Asymmetric River Confluence	32
Phylogenetic diversity only weakly mitigates climate‐change‐driven biodiversity loss in insect communities	32
Highly Expressed Odorant Receptor Orthologs Detect the Aggregation Pheromone Lineatin in Trypodendron Ambrosia Beetles	32
Gene Expression Associated With Behaviour Manipulation in Wood Ants Infected With Larval Lancet Fluke, Dicrocoelium dendriticum	31
Expansion and Temporal Expression Regulation of Cuticle‐Associated Gene Families: Molecular Basis of Adaptive Evolution of Moulting in Decapods	31
Reticulate and Hybrid Speciation is Promoted by Environmental Instability in an Indo‐Pacific Species Complex of Whistlers (Aves: Pachycephala )	31
Regulation of host gene expression by gastrointestinal tract microbiota in Chinook Salmon (Oncorhynchus tshawytscha)	31
An Early‐Life Disruption of Gut Microbiota Has Opposing Effects on Parasite Resistance in Two Host Species	31
	31
Tracking population structure and phenology through time using ancient genomes from waterlogged white oak wood	31
Geographic Divergence and the Genomic Basis of Reproductive Diapause in Drosophila triauraria	30
Microbiomes associated with avian malaria survival differ between susceptible Hawaiian honeycreepers and sympatric malaria‐resistant introduced birds	30
Genetic mixing in conservation translocations increases diversity of a keystone threatened species, Bettongia lesueur	30
Genomic variation across Chinook salmon populations reveals effects of a duplication on migration alleles and supports fine scale structure	29
Tidal gradients, fine‐scale homing and a potential cryptic ecotype of wild spawning pink salmon ( Oncorhynchus gorbuscha )	29
Combined genome and transcriptome provides insight into the genetic evolution of an edible halophyte Suaeda salsa adaptation to high salinity	29
Genome‐wide variant analyses reveal new patterns of admixture and population structure in Australian dingoes	29
Environmental heterogeneity structures root‐associated fungal communities in Daphne arbuscula (Thymelaeaceae), a shrub adapted to extreme rocky habitats	29
Convergent Evolutionary Dead‐End and Breakdown of Hard Chorion in Parental‐Egg‐Care Fish Reproductive Strategies	29
Limited introgression from non‐native commercial strains and signatures of adaptation in the key pollinator Bombus terrestris	29
Social Structure and Interactions Differentially Shape Aerotolerant and Anaerobic Gut Microbiomes in a Cooperative Breeding Species	29
Variation in phenotypic plasticity across age‐at‐maturity genotypes in wild Atlantic salmon	27

Heterogeneous patterns of heterozygosity loss in isolated populations of the threatened eastern barred bandicoot ( Perameles gunnii )	27
Genetic responses in sexual diploid and unisexual triploid goldfish (Carassius auratus) introduced into a high‐altitude environment	27
Nestling sex and behaviour determine the host preference of insect vectors in avian nests	27
A ‘Bermuda Triangle’ Effect Shaping Reef Fish Connectivity Across the Western Atlantic	27
Gut Microbiome‐Metabolome Reconfiguration Associates With Phenotypic Plasticity of Daphnia Under Predation Risk	27
Characterizing feral swine movement across the contiguous United States using neural networks and genetic data	27
Large effective population size masks population genetic structure in Hirondellea amphipods within the deepest marine ecosystem, the Mariana Trench	27
Phylogeography of the blacklegged tick (Ixodes scapularis) throughout the USA identifies candidate loci for differences in vectorial capacity	26
Cophylogeny and specificity between cryptic coral species ( Pocillopora spp.) at Mo′orea and their symbionts (Symbiodiniaceae)	26
Recurrent Hybridisations During Diversification of One Rhododendron Species Complex	26
A Comparative Analysis of Long‐Term Effective Population Sizes Across Eukaryotes	26
Integrative biological analyses of responses to food deprivation reveal resilience mechanisms in sea urchin larvae	26
Primrose homostyles: A classic case of possible balancing selection revisited	26
Historical Lead Contamination Linked to Atmospheric Deposition is Associated With Declines in Ectomycorrhizal Diversity and Shifts in Fungal Community Composition	26
Immune genotypes, immune responses, and survival in a wild bird population	25
	25
Do Snow‐Adapted Prey Facilitate Coexistence of the Sierra Nevada Red Fox With Sympatric Carnivores?	25
Issue Information	25
Issue Information	25
	25
Integrating Population Genomics and Historical Occurrence Data to Assess the Impact of Land‐Use Changes on Centris Oil Bees in the Brazilian Cerrado	24
Indirect Environmental Effects on the Gut‐Brain Axis in a Wild Mammal	24
Parentage influence on gene expression under acidification revealed through single‐embryo sequencing	24
Plasticity for the win: Flexible transcriptional response to host plant switches in the comma butterfly (Polygonia c‐album)	24
Ephemeral Speciation in a New Guinean Honeyeater Complex ( Aves : Melidectes )	24
Issue Information	24
Parental breeding decisions and genetic quality predict social structure of independent offspring	24
	24
Long‐term biogeographical processes dominate patterns of genetic diversity in a wingless grasshopper despite substantial recent habitat fragmentation	23
Phenotypic cross‐species conservation and cross‐generation directionality switching in epigenetic inheritance	23
Investigating the genetic basis of vertebrate dispersal combining RNA‐seq, RAD‐seq and quantitative genetics	23
	23
Evolved and Plastic Gene Expression in Adaptation of a Specialist Fly to a Novel Niche	23
Approximate Bayesian Computation applied to time series of population genetic data disentangles rapid genetic changes and demographic variations in a pathogen population	23
Plastic Responses and Standing Genetic Variation in Salinity‐Responsive Genes Under Projected Salinisation in Freshwater Fish	23
Genetic analysis reveals the putative native range and widespread double‐clonal reproduction in the invasive longhorn crazy ant	23
The challenge of demonstrating contemporary natural selection on polygenic quantitative traits in the wild	23
Longitudinal gut microbiome dynamics in relation to age and senescence in a wild animal population	23
Sex chromosome heteromorphism and the Fast‐X effect in poeciliids	23
The genomic basis of reproductive and migratory behaviour in a polymorphic salmonid	22
Genetic adaptation despite high gene flow in a range‐expanding population	22
Comparative population genomics of manta rays has global implications for management	22
Molecular ecology of microbiomes in the wild: Common pitfalls, methodological advances and future directions	22
Balancing Selection on a Single Locus Controls Colour Polymorphism in a Reptile via Tubulin Modification	22
Phylogenomics and phylogeographic model testing using convolutional neural networks reveal a history of recent admixture in the Canarian Kleinia neriifolia	22
Inferring the ecological and evolutionary determinants of community genetic diversity	22
Relic DNA obscures DNA‐based profiling of multiple microbial taxonomic groups in a river‐reservoir ecosystem	22
DNA methylation markers of age(ing) in non‐model animals	21
Genetic and Environmental Similarities Drive Repeated Genomic Evolution in Island Lizards	21
Host preference explains the high endemism of ectomycorrhizal fungi in a dipterocarp rainforest	21
Evolutionary variation in gene conversion at the avian MHC is explained by fluctuating selection, gene copy numbers and life history	21
Genomic health is dependent on long‐term population demographic history	21
Species‐Specific Bacterial Associations Emerge From Stochastically Assembled Microbiomes in Northeastern American Fireflies	21
Omics to Study and Manage Aquatic Environments: A Snapshot From the AquaEcOmics Meeting (Evian‐les‐Bains, 2025)	21
Heat‐stress memory enhances the acclimation of a migratory insect pest to global warming	21
Cryptic hybridization between the ancient lineages of Natterer's bat (Myotis nattereri)	21
The Genetic Architecture of Local Adaptation and Reproductive Character Displacement in Scutiger boulengeri Complex (Anura: Megophryidae)	21
Population genomic structure of a widespread, urban‐dwelling mammal: The eastern grey squirrel (Sciurus carolinensis)	21
Ectoparasite presence and brood size manipulation interact to accelerate telomere shortening in nestling jackdaws	21
Geographical distance, host evolutionary history and diet drive gut microbiome diversity of fish across the Yellow River	21
Seasonal dynamics of the wild rodent faecal virome	21
Sexy fingers: Pheromones in the glands of male dendrobatid frogs	21
	20
	20
Turnip Mosaic Virus Infection in a Perennial Arabidopsis Reduces Aphid Fecundity in the Natural Environment	20
Parental effects in a filamentous fungus: Phenotype, fitness and mechanism	20
Defence‐relevant gene expression differences in hatchlings among wild Newfoundland and farmed European and North American Atlantic salmon and their hybrids	20
It is time for ancient DNA to sweat the small stuff	20
	20
Issue Information	20
Correction to “The Opposed Forces of Differentiation and Admixture Across Glacial Cycles in the Butterfly Aglais urticae ”	20
Pleistocene parades of carnivores into North America	20
	20
	20
Genomic architecture underlying morphological and physiological adaptation to high elevation in a songbird	20
Genomic and phenotypic changes associated with alterations of migratory behaviour in a songbird	20
Selection for Tameness in Red Junglefowl Recapitulates Genetic Loci Associated With Domestication‐Related Brain Composition	20
Multiple genomic solutions for local adaptation in two closely related species (sheep and goats) facing the same climatic constraints	19
Fire shapes fungal guild diversity and composition through direct and indirect pathways	19
Repeatable Genomic Outcomes Along the Speciation Continuum: Insights From Pine Hybrid Zones (Genus Pinus )	19

Watershed Fingerprints in Reservoir Sediments: Microeukaryotic Sedimentary DNA Tracks Decades of Anthropogenic Disturbance	19
Rhizobium nodule diversity and composition are influenced by clover host selection and local growth conditions	19
Genetic legacies of mega‐landslides: Cycles of isolation and contact across flank collapses in an oceanic island	19
Neutral Additivity Dominates the Outcome of Soil Microbial Community Coalescence	19
Age‐ and caste‐independent piRNAs in the germline and miRNA profiles linked to caste and fecundity in the ant Temnothorax rugatulus	19
Whole‐genome sequencing reveals fine‐scale environment‐associated divergence near the range limits of a temperate reef fish	19
High promiscuity among females of the invasive pest species Drosophila suzukii	19
Genomic, Phenotypic and Environmental Correlates of Speciation in the Midwife Toads ( Alytes )	19
Repeatome evolution across space and time: Unravelling repeats dynamics in the plant genus Erythrostemon Klotzsch (Leguminosae Juss)	19
Environmental Gradients Decouple Demographic and Adaptive Connectivity in a Highly Mobile Coastal Marine Species	19
Domestication and evolutionary histories of specialized gut symbionts across cephalotine ants	19
Kinship Analysis Confirms Tolerant Galapagos Mockingbirds Are a Source of Nest Flies That Threaten Darwin's Finches	19
Genetic Diversity of Polymyxin Resistance Genes in Klebsiella pneumoniae Clinical Isolates	19
A Test of the Long‐Term Efficiency of Genetic Rescue With Drosophila melanogaster	19
Speciation patterns of related species under the hybrid zone: A case study of three sclerophyllous oaks in the east Himalaya–Hengduan Mountains	18
Genomic Introgressions May Affect Hybridogenetic Reproduction in Water Frog Hybrids	18
Genomic Prediction of Disease Resistance Provides a Path to Marker Assisted Restoration in a Wetland Foundation Tree Species	18
Different trematode parasites in the same snail host: Species‐specific or shared microbiota?	18
Social Complexity During Early Development has Long‐Term Effects on Neuroplasticity in the Social Decision‐Making Network	18
Metabarcoding for biodiversity inventory blind spots: A test case using the beetle fauna of an insular cloud forest	18
High‐Throughput Absolute Quantification Sequencing Advances Characterisation of Microbial Community Ecology	18
Strategies to identify and dissect trade‐offs in plants	18
Urbanization Shapes Dietary Composition and Snout Morphology of Salamanders	18
Fitness consequences of population bottlenecks in an invasive blowfly	18
Ecosystem Sequencing of the Boreal Forest Mycobiome Reveals High Substrate Specificity	18
Diet in phenotypically divergent sympatric species of African weakly electric fish (genus: Campylomormyrus)—A hybrid capture/HTS metabarcoding approach	18
Long live the host! Proteomic analysis reveals possible strategies for parasitic manipulation of its social host	18
Complex dynamics of coral gene expression responses to low pH across species	18
Brain and antennal transcriptomes of host ants reveal potential links between behaviour and the functioning of socially parasitic colonies	18
Whole genome population structure of North Atlantic kelp confirms high‐latitude glacial refugia	18
Expression of Elongase‐ and Desaturase‐Encoding Genes Shapes the Cuticular Hydrocarbon Profiles of Honey Bees	18
Connectivity and Age of Restored Atlantic Forest Fragments Drives Composition and Functionality of the Fungal Community in the Leaf Litter Layer	18
Divergence of alternative sugar preferences through modulation of the expression and activity of the Gal3 sensor in yeast	18
Genomics reveal population structure, evolutionary history, and signatures of selection in the northern bottlenose whale, Hyperoodon ampullatus	18
Repeated Mitochondrial Capture With Limited Genomic Introgression in a Lizard Group	18
Genetic Mapping of Resistance: ddRADseq ‐Based QTL and Associated Polymorphism Conferring Resistan	17
Sporecasting Biogeography Across Scales: Continental Patterns and Local Constraints on Macrofungal Dispersal	17
Mind the Gaps: Shortfalls in Studies of the Intraspecific Genetic Diversity of Plants Across the Gran Chaco	17
Genetic Diversity and Population Structure in Cities Is Not Consistent Among Cosmopolitan Plant Species	17
Escalation by duplication: Milkweed bug trumps Monarch butterfly	17
Variable hybridization between two Lake Tanganyikan cichlid species in recent secondary contact	17
Issue Information	17
Issue Information	17
Environmental DNA unveils deep phylogeographic structure of a freshwater fish	17
Gene expression differentiation in the reproductive tissues of Drosophila willistoni subspecies and their hybrids	17
PoolSeq Genome‐Wide Association Studies and Microbial Signature Analyses Identify Novel Candidates Associated With Pyrethroid Resistance Evolution in Anopheles funestus	17
Robust Sensory Traits Across Light Habitats: Visual Signals but Not Receptors Vary in Centrarchids Inhabiting Distinct Photic Environments	17
Genomic and Morphological Divergence Under Extreme Environments: Insights Into the Adaptation and Speciation of Lepus yarkandensis and	17
Host genotype and microbiome associations in co‐occurring clonal and non‐clonal kelp, Ecklonia radiata	17
Extensive Multi‐Species Hybridization Between Leuciscidae Minnow Species	17
When South Meets North: A Joint Contact Zone Coinciding With Environmental Gradients in Three Boreal Tree Species	17
Phylogeography of horseshoe bat sarbecoviruses in Vietnam and neighbouring countries. Implications for the origins of SARS ‐	17
Issue Information	17
Expansion From Lowland Pleistocene Refugia Followed by Cryptic Introgression in an African Elevational Generalist Bird	17
Pigments, Chromatophore Structure, and Gene Expression Underlying Colour Polytypy of a Panamanian Poison Frog	17
Frequent Hybridisation Between Parapatric Lekking Bird‐of‐Paradise Species	17
Transgressive gene expression and expression plasticity under thermal stress in a stable hybrid zone	17
High Quality Diet Enhances Immune Response and Affects Gene Expression During Viral Infection in an Insect Herbivore	17
Living with chronic infection: Persistent immunomodulation during avirulent haemoparasitic infection in a wild rodent	17
Fifty Years of Conservation Genetics: A Personal Perspective	17
Preserving Wild Pears: Using Genomic Data to Assess Species Boundaries, Interspecific Hybridization, and Genetic Diversity to Inform Conservation	17
Issue Information	17
Synthesizing environmental, epidemiological and vector and parasite genetic data to assist decision making for disease elimination	17
No Evidence That Life History Strategies Shape Within‐Body Mosaics of Ageing	17
Population Genetics and Invasion History of the European Starling Across Aotearoa New Zealand	16
Strong Bottlenecks Constrain Adaptive Coevolution in a Host–Parasite Metapopulation	16
Demography‐driven and adaptive introgression in a hybrid zone of the Armeria syngameon	16
Do chromosome rearrangements fix by genetic drift or natural selection? Insights from Brenthis butterflies	16
Understanding stochastic and deterministic assembly processes in microbial communities along temporal, spatial and environmental scales	16
Social and paternal female choice for male MHC genes in golden snub‐nosed monkeys (Rhinopithecus roxellana)	16
Amazonian colonization from the Atlantic Forest: New perspectives on the connections of South American tropical forests	16
Niche Overlap of Soil Bacteria Drives Stress Gradient Hypothesis Dynamics in Dryland Biocrust Succession	16
Understanding Dynamic Molecular Responses Is Key to Designing Environmental Stress Experiments: A Review of Gene and Protein Expression in Cnidaria Under Stress	16
Divergent island hybrids mixed waves of ancient gene flow	16
	16
Temporal dynamics of soil fungi in a pyrodiverse dry‐sclerophyll forest	16
Functional Shifts in the Gut DNA Virome in a Long‐Distance Migratory Shorebird During the Pre‐Migratory Fattening	16
Hybrid‐derived weedy rice maintains adaptive combinations of alleles associated with seed dormancy	16
Immune gene regulation is associated with age and environmental adversity in a nonhuman primate	16
Distinct patterns of inheritance shape life‐history traits in steelhead trout	16
Deciphering the Patterns and Drivers of Tardigrade Diversity Along Altitudinal Gradients	16
Expression patterns of melanin‐related genes are linked to crypsis and conspicuousness in a pumpkin toadlet	16
Parallel duplication and loss of aquaporin‐coding genes during the “out of the sea” transition as potential key drivers of animal terrestrialization	16
Epigenomic Changes in Ostrinia Moths Under Elevated Pupal and Adult Temperature	16
Spatiotemporal Dynamics of Blood Parasite Infections and Impacts on Avian Health and Reproduction	16
	16
Impact of disturbance and dietary shift on gastrointestinal bacterial community and its invertebrate host system	16
Evaluating the persistence and utility of five wild Vitis species in the context of climate change	16
Pathogen invasion increases the abundance of predatory protists and their prey associations in the plant microbiome	16
Not All Bark Beetles Smell the Same : Population‐Level Functional Olfactory Polymorphisms in Ips typographus Pheromone Recepto	16
Genomic Evidence for Dual Introductions, Limited Gene Flow and Niche Preferences in the Invasive Wasp Vespula germanica in South Africa	16
Biodiversity Genomics Research Practices Require Harmonising to Meet Stakeholder Needs in Conservation	16
Differential Regulation of Apoptosis and Symbiodiniaceae Energy Transfer Mediate the Link Between Bleaching and Disease in Exaiptasia diaphana	16
Expression–environment associations in transcriptomic heat stress responses for a global plant lineage	16
Frozen in time: Rangewide genomic diversity, structure, and demographic history of relict American chestnut populations	15