Molecular Ecology

Article	Citations
Issue Information	214
More complex than you think: Taxonomic and temporal patterns of plant–pollinator networks of caraway (Carum carvi L.)	192
Genetic Adaptation to Brackish Water and Spawning Season in European Cisco	140
The transcriptional state and chromatin landscape of cichlid jaw shape variation across species and environments	93
Genetic and telomeric variability: Insights from a tropical avian hybrid zone	64
Brazilian marine phylogeography: A literature synthesis and analysis of barriers	57
Interspecies genome divergence is predominantly due to frequent small scale rearrangements in Eucalyptus	56
Genomic, morphological and physiological data support fast ecotypic differentiation and incipient speciation in an alpine diving beetle	54
Clones on the run: The genomics of a recently expanded partially clonal species	54
The effect of divergent and parallel selection on the genomic landscape of divergence	52
Evolutionary roles of polyploidization‐derived structural variations in the phenotypic diversification of Panax species	50
Whole‐genome resequencing confirms reproductive isolation between sympatric demes of brown trout (Salmo trutta) detected with allozymes	49
Bacterial communities in a subarctic stream network: Spatial and seasonal patterns of benthic biofilm and bacterioplankton	48
DNA Methylation Dynamics Reflect Sex and Status Differences in Mortality Rates in a Polygynous Bat	47
Ecology Not Genetic Covariance Explains Correlated Trait Divergence During Speciation	47
The impacts of positive selection on genomic variation in Drosophila serrata: Insights from a deep learning approach	46
Long‐read sequencing in ecology and evolution: Understanding how complex genetic and epigenetic variants shape biodiversity	45
A genomic assessment of the marine‐speciation paradox within the toothed whale superfamily Delphinoidea	45
Organellar DNA continues to provide a rich source of information in the genomics era	45
Evolutionary History and Rhizosphere Microbial Community Composition in Domesticated Hops (Humulus lupulus L.)	43
Grassland ecosystem type drives AM fungal diversity and functional guild distribution in North American grasslands	43
Positive selection in gamete interaction proteins in Carnivora	42
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
Museomics Sheds Light on Evolutionary Diversity in a Critically Endangered Cockatoo Species From Wallacea	42
Diving into the diversity of colour patterns in reef fishes	41

Combined Evidence Reveals the Origin of a Rapid Range Expansion Despite Retained Genetic Diversity and a Weak Founder Effect	40
Genomic analysis of a parasite invasion: Colonization of the Americas by the blood fluke Schistosoma mansoni	40
Out of the Qinghai‐Tibet plateau: Genomic biogeography of the alpine monospecific genus Megadenia (Biscutelleae, Brassicaceae)	39
Decoding plant‐induced transcriptomic variability and consistency in two related polyphagous mites differing in host ranges	39
Traits and tradeoffs among non‐native ectomycorrhizal fungal symbionts affect pine seedling establishment in a Hawaiian coinvasion landscape	38
Hybrid enrichment of adaptive variation revealed by genotype–environment associations in montane sedges	38
Adaptive cellular evolution or cellular system drift in hares	38
Association between parasite microbiomes and caste development and colony structure in a social trematode	38
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
Experimental evidence that root‐associated fungi improve plant growth at high altitude	37
Acclimatory gene expression of primed clams enhances robustness to elevated pCO2	36
Understanding the role of temperature in seasonal timing: Effects on behavioural, physiological and molecular phenotypes	36
Hypoxia as a physiological cue and pathological stress for coral larvae	35
Demographic modelling helps track the rapid and recent divergence of a conifer species pair from Central Mexico	35
Community‐wide correlations between species richness, abundance and population genomic diversity in a freshwater biodiversity hotspot	35
Effect of urbanization and parasitism on the gut microbiota of Darwin's finch nestlings	34
Extremes of snow and temperature affect patterns of genetic diversity and differentiation in the alpine butterfly Parnassius smintheus	34
Genomic divergence and introgression between cryptic species of a widespread North American songbird	34
On the origin and structure of haplotype blocks	34
Issue Information	33
Ultraconserved Elements Reveal the Relationship Between Facultative Keratinophagy and Synanthropic Evolution in Clothes Moths	33
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Convergent Evolutionary Dead‐End and Breakdown of Hard Chorion in Parental‐Egg‐Care Fish Reproductive Strategies	33
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Demographic changes in Pleistocene sea turtles were driven by past sea level fluctuations affecting feeding habitat availability	33
Infection by the Lungworm Rhabdias pseudosphaerocephala Affects the Expression of Immune‐Related microRNAs by Its Co‐Evolved Host, the Cane Toad Rhinella marina	32
Genetic responses in sexual diploid and unisexual triploid goldfish (Carassius auratus) introduced into a high‐altitude environment	32
Environmental heterogeneity structures root‐associated fungal communities in Daphne arbuscula (Thymelaeaceae), a shrub adapted to extreme rocky habitats	32
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Heterogeneous patterns of heterozygosity loss in isolated populations of the threatened eastern barred bandicoot (Perameles gunnii)	32
Integrative biological analyses of responses to food deprivation reveal resilience mechanisms in sea urchin larvae	32
Identification of a rapidly‐spreading triple mutant for high‐level metabolic insecticide resistance in Anopheles gambiae provides a real‐time molecular diagnostic for antimalarial intervention	31
Genome‐wide phylogeography reveals cryptic speciation in the circumglobal planktonic calcifier Limacina bulimoides	31
Larger, more connected societies of ants have a higher prevalence of viruses	31
Highly Expressed Odorant Receptor Orthologs Detect the Aggregation Pheromone Lineatin in Trypodendron Ambrosia Beetles	31
Tidal gradients, fine‐scale homing and a potential cryptic ecotype of wild spawning pink salmon (Oncorhynchus gorbuscha)	31
Genomic variation across Chinook salmon populations reveals effects of a duplication on migration alleles and supports fine scale structure	31
Evolutionary ecology of denitrifying methanotrophic NC10 bacteria in the deep‐sea biosphere	30
Primrose homostyles: A classic case of possible balancing selection revisited	30
Large effective population size masks population genetic structure in Hirondellea amphipods within the deepest marine ecosystem, the Mariana Trench	30
Satellite DNA evolution in Corvoidea inferred from short and long reads	29
Issue Information	29
Genome‐wide variant analyses reveal new patterns of admixture and population structure in Australian dingoes	29
Historical Lead Contamination Linked to Atmospheric Deposition is Associated With Declines in Ectomycorrhizal Diversity and Shifts in Fungal Community Composition	28
Nestling sex and behaviour determine the host preference of insect vectors in avian nests	28
When do autopolyploids need poly‐sequencing data?	28
Environmental conditions drive zooplankton community structure in the epipelagic oceanic water of the southern Gulf of Mexico: A molecular approach	28
Regulation of host gene expression by gastrointestinal tract microbiota in Chinook Salmon (Oncorhynchus tshawytscha)	27
An Early‐Life Disruption of Gut Microbiota Has Opposing Effects on Parasite Resistance in Two Host Species	27
Characterizing feral swine movement across the contiguous United States using neural networks and genetic data	27

Gene Expression Associated With Behaviour Manipulation in Wood Ants Infected With Larval Lancet Fluke, Dicrocoelium dendriticum	27
Combined genome and transcriptome provides insight into the genetic evolution of an edible halophyte Suaeda salsa adaptation to high salinity	27
The effect of a temperature‐sensitive prophage on the evolution of virulence in an opportunistic bacterial pathogen	26
Reticulate and Hybrid Speciation is Promoted by Environmental Instability in an Indo‐Pacific Species Complex of Whistlers (Aves: Pachycephala )	26
Phylogeography of the blacklegged tick (Ixodes scapularis) throughout the USA identifies candidate loci for differences in vectorial capacity	26
Variation in phenotypic plasticity across age‐at‐maturity genotypes in wild Atlantic salmon	26
Recurrent Hybridisations During Diversification of One Rhododendron Species Complex	26
Tracking population structure and phenology through time using ancient genomes from waterlogged white oak wood	26
Phylogenetic diversity only weakly mitigates climate‐change‐driven biodiversity loss in insect communities	26
Cophylogeny and specificity between cryptic coral species (Pocillopora spp.) at Mo′orea and their symbionts (Symbiodiniaceae)	26
Genetic mixing in conservation translocations increases diversity of a keystone threatened species, Bettongia lesueur	26
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Microbiomes associated with avian malaria survival differ between susceptible Hawaiian honeycreepers and sympatric malaria‐resistant introduced birds	25
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Molecular mechanisms underlying plasticity in a thermally varying environment	25
Semi‐quantitative metabarcoding reveals how climate shapes arthropod community assembly along elevation gradients on Hawaii Island	25
Recent genetic exchanges and admixture shape the genome and population structure of the zoonotic pathogen Cryptosporidium parvum	25
The first steps toward a global pandemic: Reconstructing the demographic history of parasite host switches in its native range	25
Limited introgression from non‐native commercial strains and signatures of adaptation in the key pollinator Bombus terrestris	25
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Plasticity for the win: Flexible transcriptional response to host plant switches in the comma butterfly (Polygonia c‐album)	24
Sexy fingers: Pheromones in the glands of male dendrobatid frogs	24
Evolutionary variation in gene conversion at the avian MHC is explained by fluctuating selection, gene copy numbers and life history	24
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Comparative population genomics of manta rays has global implications for management	24
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Approximate Bayesian Computation applied to time series of population genetic data disentangles rapid genetic changes and demographic variations in a pathogen population	24
The Genetic Architecture of Local Adaptation and Reproductive Character Displacement in Scutiger boulengeri Complex (Anura: Megophryidae)	24
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Host preference explains the high endemism of ectomycorrhizal fungi in a dipterocarp rainforest	23
Heat‐stress memory enhances the acclimation of a migratory insect pest to global warming	23
Investigating the genetic basis of vertebrate dispersal combining RNA‐seq, RAD‐seq and quantitative genetics	23
DNA methylation markers of age(ing) in non‐model animals	23
Seasonal dynamics of the wild rodent faecal virome	23
Sex chromosome heteromorphism and the Fast‐X effect in poeciliids	23
Do Snow‐Adapted Prey Facilitate Coexistence of the Sierra Nevada Red Fox With Sympatric Carnivores?	23
Inferring the ecological and evolutionary determinants of community genetic diversity	23
Geographical distance, host evolutionary history and diet drive gut microbiome diversity of fish across the Yellow River	23
Relic DNA obscures DNA‐based profiling of multiple microbial taxonomic groups in a river‐reservoir ecosystem	23
The genomic basis of reproductive and migratory behaviour in a polymorphic salmonid	23
Evolved and Plastic Gene Expression in Adaptation of a Specialist Fly to a Novel Niche	23
Genetic adaptation despite high gene flow in a range‐expanding population	23
Issue Information	23
Phenotypic cross‐species conservation and cross‐generation directionality switching in epigenetic inheritance	22
Longitudinal gut microbiome dynamics in relation to age and senescence in a wild animal population	22
The challenge of demonstrating contemporary natural selection on polygenic quantitative traits in the wild	22
Wild sunflower goes viral: Citizen science and comparative genomics allow tracking the origin and establishment of invasive sunflower in the Levant	22
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Parental breeding decisions and genetic quality predict social structure of independent offspring	22
Defence by duplication: The relation between phenotypic glyphosate resistance and EPSPS gene copy number variation in Amaranthus palmeri	22
Seascape genomics of coastal bottlenose dolphins along strong gradients of temperature and salinity	22
Phylogenomics and phylogeographic model testing using convolutional neural networks reveal a history of recent admixture in the Canarian Kleinia neriifolia	22
Omics to Study and Manage Aquatic Environments: A Snapshot From the AquaEcOmics Meeting (Evian‐les‐Bains, 2025)	22
Parentage influence on gene expression under acidification revealed through single‐embryo sequencing	22
Lineage and role in integrative taxonomy of a heterotrophic orchid complex	22
Population genomic structure of a widespread, urban‐dwelling mammal: The eastern grey squirrel (Sciurus carolinensis)	22
Genetic analysis reveals the putative native range and widespread double‐clonal reproduction in the invasive longhorn crazy ant	21
Integrating Population Genomics and Historical Occurrence Data to Assess the Impact of Land‐Use Changes on Centris Oil Bees in the Brazilian Cerrado	21
Long‐term biogeographical processes dominate patterns of genetic diversity in a wingless grasshopper despite substantial recent habitat fragmentation	21
Ectoparasite presence and brood size manipulation interact to accelerate telomere shortening in nestling jackdaws	21
Immune genotypes, immune responses, and survival in a wild bird population	21
Molecular ecology of microbiomes in the wild: Common pitfalls, methodological advances and future directions	21
Combining GWAS and population genomic analyses to characterize coevolution in a legume‐rhizobia symbiosis	21
Ephemeral Speciation in a New Guinean Honeyeater Complex ( Aves : Melidectes )	21
Whole‐genome sequencing illuminates multifaceted targets of selection to humic substances in Eurasian perch	21
Revisiting old truths: The evolution of male coloration in guppies as a function of predation	21
Brettanomyces bruxellensis: Overview of the genetic and phenotypic diversity of an anthropized yeast	21
Cryptic hybridization between the ancient lineages of Natterer's bat (Myotis nattereri)	21
Indirect Environmental Effects on the Gut‐Brain Axis in a Wild Mammal	21
Genomic health is dependent on long‐term population demographic history	21
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Strategies to identify and dissect trade‐offs in plants	20
Whole‐genome sequencing reveals fine‐scale environment‐associated divergence near the range limits of a temperate reef fish	20
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It is time for ancient DNA to sweat the small stuff	20
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Repeated Mitochondrial Capture With Limited Genomic Introgression in a Lizard Group	20
Brain and antennal transcriptomes of host ants reveal potential links between behaviour and the functioning of socially parasitic colonies	20

Parental effects in a filamentous fungus: Phenotype, fitness and mechanism	20
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Defence‐relevant gene expression differences in hatchlings among wild Newfoundland and farmed European and North American Atlantic salmon and their hybrids	19
A Test of the Long‐Term Efficiency of Genetic Rescue With Drosophila melanogaster	19
The faecal metabolome of black howler monkeys (Alouatta pigra) varies in response to seasonal dietary changes	19
Complex dynamics of coral gene expression responses to low pH across species	19
High promiscuity among females of the invasive pest species Drosophila suzukii	19
Genetic legacies of mega‐landslides: Cycles of isolation and contact across flank collapses in an oceanic island	19
Pleistocene parades of carnivores into North America	19
Multiple genomic solutions for local adaptation in two closely related species (sheep and goats) facing the same climatic constraints	19
Age‐ and caste‐independent piRNAs in the germline and miRNA profiles linked to caste and fecundity in the ant Temnothorax rugatulus	19
Expression of Elongase‐ and Desaturase‐Encoding Genes Shapes the Cuticular Hydrocarbon Profiles of Honey Bees	19
Adaptive divergence in bill morphology and other thermoregulatory traits is facilitated by restricted gene flow in song sparrows on the California Channel Islands	19
Social Complexity During Early Development has Long‐Term Effects on Neuroplasticity in the Social Decision‐Making Network	19
Speciation patterns of related species under the hybrid zone: A case study of three sclerophyllous oaks in the east Himalaya–Hengduan Mountains	19
Genomic architecture underlying morphological and physiological adaptation to high elevation in a songbird	19
Genomic and phenotypic changes associated with alterations of migratory behaviour in a songbird	19
The structure of tropical bat–plant interaction networks during an extreme El Niño‐Southern Oscillation event	19
Fitness consequences of population bottlenecks in an invasive blowfly	19
Complex adaptive architecture underlies adaptation to quantitative host resistance in a fungal plant pathogen	19
Selection for Tameness in Red Junglefowl Recapitulates Genetic Loci Associated With Domestication‐Related Brain Composition	19
Correction to “The Opposed Forces of Differentiation and Admixture Across Glacial Cycles in the Butterfly Aglais urticae”	19
Whole genome population structure of North Atlantic kelp confirms high‐latitude glacial refugia	19
Genomics reveal population structure, evolutionary history, and signatures of selection in the northern bottlenose whale, Hyperoodon ampullatus	19
Fire shapes fungal guild diversity and composition through direct and indirect pathways	19
Divergence of alternative sugar preferences through modulation of the expression and activity of the Gal3 sensor in yeast	19
Population genomics and sexual signals support reproductive character displacement in Uperoleia (Anura: Myobatrachidae) in a contact zone	19
Phylogeography of horseshoe bat sarbecoviruses in Vietnam and neighbouring countries. Implications for the origins of SARS‐CoV and SARS‐CoV‐2	18
Pathogen invasion increases the abundance of predatory protists and their prey associations in the plant microbiome	18
Robust Sensory Traits Across Light Habitats: Visual Signals but Not Receptors Vary in Centrarchids Inhabiting Distinct Photic Environments	18
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Different molecular changes underlie the same phenotypic transition: Origins and consequences of independent shifts to homostyly within species	18
High‐Throughput Absolute Quantification Sequencing Advances Characterisation of Microbial Community Ecology	18
Synthesizing environmental, epidemiological and vector and parasite genetic data to assist decision making for disease elimination	18
Seq’ and ARMS shall find: DNA (meta)barcoding of Autonomous Reef Monitoring Structures across the tree of life uncovers hidden cryptobiome of tropical urban coral reefs	18
Environmental DNA unveils deep phylogeographic structure of a freshwater fish	18
Repeatome evolution across space and time: Unravelling repeats dynamics in the plant genus Erythrostemon Klotzsch (Leguminosae Juss)	18
Frequent Hybridisation Between Parapatric Lekking Bird‐of‐Paradise Species	18
Fifty Years of Conservation Genetics: A Personal Perspective	18
Divergent island hybrids mixed waves of ancient gene flow	18
Long live the host! Proteomic analysis reveals possible strategies for parasitic manipulation of its social host	18
Turnip Mosaic Virus Infection in a Perennial Arabidopsis Reduces Aphid Fecundity in the Natural Environment	18
Domestication and evolutionary histories of specialized gut symbionts across cephalotine ants	18
Genomic, Phenotypic and Environmental Correlates of Speciation in the Midwife Toads (Alytes)	18
Gene expression differentiation in the reproductive tissues of Drosophila willistoni subspecies and their hybrids	18
Metabarcoding for biodiversity inventory blind spots: A test case using the beetle fauna of an insular cloud forest	18
Demography‐driven and adaptive introgression in a hybrid zone of the Armeria syngameon	18
Biodiversity Genomics Research Practices Require Harmonising to Meet Stakeholder Needs in Conservation	18
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Preserving Wild Pears: Using Genomic Data to Assess Species Boundaries, Interspecific Hybridization, and Genetic Diversity to Inform Conservation	18
Rhizobium nodule diversity and composition are influenced by clover host selection and local growth conditions	18
Repeatable Genomic Outcomes Along the Speciation Continuum: Insights From Pine Hybrid Zones (Genus Pinus)	18
No Evidence That Life History Strategies Shape Within‐Body Mosaics of Ageing	18
Different trematode parasites in the same snail host: Species‐specific or shared microbiota?	18
Diet in phenotypically divergent sympatric species of African weakly electric fish (genus: Campylomormyrus)—A hybrid capture/HTS metabarcoding approach	18
Understanding stochastic and deterministic assembly processes in microbial communities along temporal, spatial and environmental scales	17
Genome assembly, structural variants, and genetic differentiation between lake whitefish young species pairs (Coregonus sp.) with long and short reads	17
Expression patterns of melanin‐related genes are linked to crypsis and conspicuousness in a pumpkin toadlet	17
Do chromosome rearrangements fix by genetic drift or natural selection? Insights from Brenthis butterflies	17
Strong Bottlenecks Constrain Adaptive Coevolution in a Host–Parasite Metapopulation	17
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Linking large‐scale genetic structure of three Argynnini butterfly species to geography and environment	17
Escalation by duplication: Milkweed bug trumps Monarch butterfly	17
Living with chronic infection: Persistent immunomodulation during avirulent haemoparasitic infection in a wild rodent	17
Distinct patterns of inheritance shape life‐history traits in steelhead trout	17
Impact of disturbance and dietary shift on gastrointestinal bacterial community and its invertebrate host system	17
Epigenomic Changes in Ostrinia Moths Under Elevated Pupal and Adult Temperature	17
Differential temperature effects on photoperiodism in female voles: A possible explanation for declines in vole populations	17
Domestication obscures genomic estimates of population history	17
Hybrid‐derived weedy rice maintains adaptive combinations of alleles associated with seed dormancy	17
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Global flyway evolution in red knots Calidris canutus and genetic evidence for a Nearctic refugium	17
Social and paternal female choice for male MHC genes in golden snub‐nosed monkeys (Rhinopithecus roxellana)	17
Evaluating the persistence and utility of five wild Vitis species in the context of climate change	17
High Quality Diet Enhances Immune Response and Affects Gene Expression During Viral Infection in an Insect Herbivore	17
Immune gene regulation is associated with age and environmental adversity in a nonhuman primate	17
Genomic associations with poxvirus across divergent island populations in Berthelot's pipit	17
Habitat‐linked genetic variation supports microgeographic adaptive divergence in an island‐endemic bird species	17
Variable hybridization between two Lake Tanganyikan cichlid species in recent secondary contact	17
Not All Bark Beetles Smell the Same: Population‐Level Functional Olfactory Polymorphisms in Ips typographus Pheromone Receptor ItypOR33	17
Temporal dynamics of soil fungi in a pyrodiverse dry‐sclerophyll forest	17
Transgressive gene expression and expression plasticity under thermal stress in a stable hybrid zone	17
Population Genomics of Adaptive Radiation	16
Large X‐effects are absent in torrent frogs with nascent sex chromosomes	16
Land‐use type temporarily affects active pond community structure but not gene expression patterns	16
Species' attributes predict the relative magnitude of ecological and genetic recovery following mass mortality	16
Adaptive variation in homologue number within transcript families promotes expression divergence in reef‐building coral	16
Distinct routes to parallel adaptation in a mountain plant	16
Widespread gene flow following range expansion in Anna's Hummingbird	16
Genetic Architecture of Immune Cell DNA Methylation in the Rhesus Macaque	16
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Coping with antagonistic predation risks: Predator‐dependent unique responses are dominant in Ceriodaphnia cornuta	16
Genomes of Galápagos Mockingbirds Reveal the Impact of Island Size and Past Demography on Inbreeding and Genetic Load in Contemporary Populations	16