Molecular Ecology Resources最新文献

{"title":"VoronaGasyCodes: A Public Database of Mitochondrial Barcodes for Malagasy Birds.","authors":"Sushma Reddy, Kristen Wacker, Mai Fahmy, Evon Hekkala, John M Bates, Steven M Goodman, Shannon J Hackett, Marie J Raherilalao, J Dylan Maddox","doi":"10.1111/1755-0998.70027","DOIUrl":"https://doi.org/10.1111/1755-0998.70027","url":null,"abstract":"<p><p>Molecular tools are increasingly being used to survey the presence of biodiversity and their interactions within ecosystems. Indirect methods, like environmental DNA (eDNA) and invertebrate-derived DNA (iDNA), are dependent on sequence databases with accurate and sufficient taxonomic representation. These methods are increasingly being used in regions and habitats where direct detection or observations can be difficult for a variety of reasons. Madagascar is a biodiversity hotspot with a high proportion of endemic species, many of which are threatened or endangered. Here we describe a new resource, VoronaGasyCodes, a curated database of newly published genetic sequences from Malagasy birds. Our database is currently populated with six mitochondrial genes or DNA barcodes for 142 species including 70% of the birds endemic to the island and will be periodically updated as new data become available. We demonstrate the utility of our database with an iDNA study of leech blood meals where we successfully identified 77% of the hosts to species. These types of resources for characterising biodiversity are critical for insights into species distribution, discovery of new taxa, novel ecological connections and advancing conservation and restoration measures.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":" ","pages":"e70027"},"PeriodicalIF":5.5,"publicationDate":"2025-08-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144793103","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Methylome Profiling of a Deuterostome Invertebrate Using Oxford Nanopore Technology (ONT).","authors":"Sarah Lok Ting Kwong, Alyssa Maree Budd, Julia Yun-Hsuan Hung, Cecilia Villacorta-Rath, Sven Uthicke","doi":"10.1111/1755-0998.70026","DOIUrl":"https://doi.org/10.1111/1755-0998.70026","url":null,"abstract":"<p><p>DNA methylation is crucial for genome regulation and provides key insights into the interaction between genetics and environmental factors, offering valuable perspectives for ecological research. However, knowledge of DNA methylation patterns in nonmodel invertebrates remains limited. The present study addresses this knowledge gap by conducting the first methylome profiling of the Pacific crown-of-thorns seastar (CoTS; Acanthaster cf. solaris), a coral-eating species that aggravates the decline of Indo-Pacific coral reefs. Using Oxford Nanopore Technology (ONT) we generated long-read sequences, covering over 90% of CpG dinucleotides in the CoTS genome. Our analysis revealed a mosaic methylation landscape with moderate genome-wide methylation levels of 37.7%. Comparative analysis highlights the intermediate methylation state observed in other deuterostome invertebrates, positioning them between the hypomethylated genomes of protostomes and the hypermethylated genomes of vertebrates. Methylation in CoTS was predominantly localised within gene bodies, especially in intronic regions, enabling modulation of gene expression and potentially supporting fitness in dynamic marine environments. Additionally, elevated methylation in repetitive elements suggests a role in genome defence. This study demonstrates the effectiveness of ONT for comprehensive methylome analysis in ecologically important nonmodel species and deepens our understanding of the epigenetic landscape in deuterostome invertebrates. We also present a detailed laboratory and bioinformatics workflow, including modified phenol-chloroform protocols that address the challenge of extracting high molecular weight DNA from marine invertebrates. Together with the methylome profiles, these resources serve as a foundation for future research, enabling investigations into DNA methylation functions, applications for CoTS outbreak management and comparative studies across diverse lineages.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":" ","pages":"e70026"},"PeriodicalIF":5.5,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144783112","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"gmmDenoise: A New Method and R Package for High-Confidence Sequence Variant Filtering in Environmental DNA Amplicon Analysis.","authors":"Yusuke Koseki, Hirohiko Takeshima, Ryuji Yoneda, Kaito Katayanagi, Gen Ito, Hiroki Yamanaka","doi":"10.1111/1755-0998.70023","DOIUrl":"https://doi.org/10.1111/1755-0998.70023","url":null,"abstract":"<p><p>Assessing and monitoring genetic diversity is vital for understanding the ecology and evolution of natural populations but is often challenging in animal and plant species due to technically and physically demanding tissue sampling. Although environmental DNA (eDNA) metabarcoding is a promising alternative to the traditional population genetic monitoring based on biological samples, its practical application remains challenging due to spurious sequences present in the amplicon data, even after data processing with the existing sequence filtering and denoising (error correction) methods. Here we developed a novel amplicon filtering approach that can effectively eliminate such spurious amplicon sequence variants (ASVs) in eDNA metabarcoding data. A simple simulation of eDNA metabarcoding processes was performed to understand the patterns of read count (abundance) distributions of true ASVs and their polymerase chain reaction (PCR)-generated artefacts (i.e., false-positive ASVs). Based on the simulation results, the approach was developed to estimate the abundance distributions of true and false-positive ASVs using Gaussian mixture models and to determine a statistically based threshold between them. The developed approach was implemented as an R package, gmmDenoise and evaluated using single-species metabarcoding datasets in which all or some true ASVs (i.e., haplotypes) were known. Example analyses using community (multi-species) metabarcoding datasets were also performed to demonstrate how gmmDenoise can be used to derive reliable intraspecific diversity estimates and population genetic inferences from noisy amplicon sequencing data. The gmmDenoise package is freely available in the GitHub repository (https://github.com/YSKoseki/gmmDenoise).</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":" ","pages":"e70023"},"PeriodicalIF":5.5,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144774396","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"An All-in-One Metabarcoding Approach to Mosquito and Arbovirus Xenosurveillance.","authors":"Brian J Johnson, Melissa C Graham, Elina Panahi, Carla Julia S P Vieira, Nisa Suraj Nath, Paul Mason, Jamie Gleadhill, Darran Thomas, Michael B Onn, Martin A Shivas, Damien Shearman, Jonathan M Darbro, Gregor J Devine","doi":"10.1111/1755-0998.70022","DOIUrl":"https://doi.org/10.1111/1755-0998.70022","url":null,"abstract":"<p><p>Next-generation sequencing (NGS) has the potential to transform mosquito-borne disease surveillance but remains under-utilised. This study introduces a comprehensive multi-loci metabarcoding-based MX (molecular xenomonitoring) approach to mosquito and arbovirus surveillance, enabling parallel identification of mosquito vectors, circulating arboviruses, and vertebrate hosts from bulk mosquito collections. The feasibility of this approach was demonstrated through its application to a large set (n = 110) of bulk field collections. This set was complemented by a number (n = 28) of single-species mosquito pools that had previously been screened for viruses using quantitative reverse transcription PCR (RT-qPCR) and metatranscriptomics. Universal alphavirus and flavivirus primer sets were used to screen for arboviruses in the resulting metabarcoding library. Viral amplicons were then indexed and combined with mosquito-specific (ITS2), universal invertebrate (COI), and vertebrate (Cyt b) barcode amplicons prior to sequencing. This approach confirmed the presence of all previously identified mosquito species, as well as those commonly misidentified morphologically, and enabled a degree of quantification regarding their relative physical abundance in each collection. Additionally, the developed approach identified a diverse vertebrate host community (18 species), demonstrating its potential for defining host preferences and, in tandem with the viral screens and associated vector data, understanding disease transmission pathways. Importantly, metabarcoding detected a diversity of regionally prevalent arboviruses and insect-specific viruses, with all three viral diagnostics demonstrating a similar sensitivity and specificity in detecting Ross River virus and Barmah Forest virus, Australia's most common arboviruses. In summary, multi-loci metabarcoding is an affordable and efficient MX tool that enables complete mosquito-borne disease surveillance.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":" ","pages":"e70022"},"PeriodicalIF":5.5,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144774395","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"An Optimised Method to Identify Reintroduced Swift Foxes (Vulpes velox) Through SNP Genotyping of Non-Invasively Collected Scat Samples Using In-Solution Hybridisation Capture","authors":"L. D. Parker,&nbsp;K. R. Todd,&nbsp;D. L. Nelson,&nbsp;N. Songsasen,&nbsp;M. G. Campana,&nbsp;W. J. McShea,&nbsp;M. Songer,&nbsp;T. Messerly,&nbsp;H. Shamon,&nbsp;J. E. Maldonado","doi":"10.1111/1755-0998.70017","DOIUrl":"10.1111/1755-0998.70017","url":null,"abstract":"<div>\u0000 \u0000 <p>Genomic methods have become increasingly common in wildlife population studies over the past two decades. While noninvasive genetic sampling has been prevalent since the 1990s, the field has lagged in the adoption of high-throughput sequencing methods. In-solution hybridisation capture offers an efficient way to enrich and sequence degraded, low-quantity DNA with a large percentage of exogenous content (e.g., scat samples) for specific targets of interest. Despite their frequent use in ancient and historical DNA applications, hybridisation capture techniques have not been widely adopted for noninvasive genetic samples. Previous studies demonstrated that capture enrichment of single-nucleotide polymorphism (SNP) loci enables genotyping of field-collected kit fox and coyote scats to effectively identify species, individuals and sex. Here, we expanded on this work by (1) investigating whether probes designed for kit foxes can generate multi-locus SNP genotypes and identify sex in closely related swift foxes (<i>Vulpes velox</i>), (2) assessing the capability of the resulting genotypes to differentiate among swift foxes by calculating identity-by-state values between samples from the same individual, (3) exploring the impact of replicate index polymerase chain reactions (PCRs) on genotyping success, and (4) exploring the performance of the marker set for inference of population genetic structure. We applied these methods to samples from swift foxes reintroduced to the Fort Belknap Indian Reservation, Montana, and showed a success rate of 85%. Our developed methodology can be applied to monitor the success of swift fox reintroduction efforts by estimating dispersal, survival, and reproduction. We also showed that probes designed and optimised for one species can produce informative genotypes from closely related species, highlighting their versatility for broader applications in wildlife population studies.</p>\u0000 </div>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":"25 7","pages":""},"PeriodicalIF":5.5,"publicationDate":"2025-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144740759","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effects of Vacuum-Heat-Assisted Sample Desiccation on Microbiome Surveys","authors":"Stilianos Louca,&nbsp;Claire E. Mullin","doi":"10.1111/1755-0998.70020","DOIUrl":"10.1111/1755-0998.70020","url":null,"abstract":"<p>Sample preservation in the field and during transport can be a logistical challenge for microbiome surveys, particularly in remote areas. Sample desiccation eliminates the need for complicated cold chains and dangerous preservatives. However, the effects of desiccation on modern microbiome workflows such as gene-centric metagenomic profiling and metagenome-assembled genome (MAG) binning, remain poorly understood. In addition, most common desiccation tools such as lyophilisation cannot easily be deployed in the field. Here, we describe a proof-of-principle sample desiccator using vacuum and heat, specifically built for deployment in the field and exhibiting low power consumption and cost. We then test the effects of vacuum-heat-assisted sample desiccation followed by storage at room temperature, in comparison to conventional freezing, on multiple soil and animal faecal samples, via metagenomic and 16S rRNA amplicon sequencing. We consider multiple metrics related to the success of DNA extraction, sequencing, contig assembly, OTU clustering, gene annotation and MAG construction, as well as effects on inferred microbial community composition. We find that the impact of drying on considered success metrics was almost always either minor, non-significant or positive. For a subset of source materials we observed moderate but statistically significant differences in terms of inferred microbial taxonomic and genetic composition. We conclude that vacuum- and heat-assisted desiccation can be a useful, practical and cost-effective tool for microbiome field surveys, when a high consistency with frozen samples is not required.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":"25 7","pages":""},"PeriodicalIF":5.5,"publicationDate":"2025-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1755-0998.70020","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144726278","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Linkage Mapping vs. Association: A Comparison of Two RADseq-Based Approaches to Identify Markers for Homomorphic Sex Chromosomes in Large Genomes","authors":"James France,&nbsp;Wiesław Babik,&nbsp;Katarzyna Dudek,&nbsp;Marzena Marszałek,&nbsp;Ben Wielstra","doi":"10.1111/1755-0998.70019","DOIUrl":"10.1111/1755-0998.70019","url":null,"abstract":"<p>Reliable tools for the identification of genetic sex are invaluable in many fields of biology, but their design requires knowledge of sex-linked sequences, which is lacking in many taxa. Restriction-site-associated DNA sequencing (RADseq) is widely used to identify sex-linked markers, but multiple distinct strategies are employed, and it is often not obvious which is most suitable. In this study, we compare two approaches for using RADseq to identify sex-linked markers. We use the common newt, <i>Lissotriton vulgaris</i>, as our study system, providing a challenging combination of homomorphic sex chromosomes and an exceptionally large genome. We attempt an associative approach, sequencing 60 adult newts of known-sex individuals, and compare this to a linkage mapping approach utilising a family of 146 offspring with unknown sex. After optimisation for a highly paralogous genome, the associative approach identifies five Y-chromosome-linked markers in <i>L. vulgaris</i>, and we design a robust PCR protocol for molecular sexing of four more related species. Via the linkage approach, we construct a high-density map featuring 10,763 markers, matching the observed karyotype of <i>L. vulgaris</i> and showing broad synteny with the Iberian ribbed newt (<i>Pleurodeles waltl</i>). However, without incorporating the markers identified via the association-based approach, we cannot confidently distinguish a sex-determining region in the linkage map, either by analysing marker density or by identifying clusters of paternal markers. We conclude that linkage mapping alone is unlikely to yield sex-linked markers in organisms with very small sex-determining regions, whereas association-based RADseq can still be effective under these conditions.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":"25 7","pages":""},"PeriodicalIF":5.5,"publicationDate":"2025-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1755-0998.70019","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144697221","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative Analyses of Four Reference Genomes Reveal Exceptional Diversity and Weak Linked Selection in the Yellow Monkeyflower (Mimulus guttatus) Complex.","authors":"John T Lovell, Rachel Walstead, Amelia Lawrence, Evan Stark-Dykema, Matthew C Farnitano, Avril Harder, Tomáš Brůna, Kerrie Barry, David Goodstein, Jerry Jenkins, Anna Lipzen, LoriBeth Boston, Jenell Webber, Mansi Chovatia, Joanne Eichenberger, Jayson Talag, Jane Grimwood, Jeremy Schmutz, John K Kelly, Andrea L Sweigart, Lila Fishman, John H Willis","doi":"10.1111/1755-0998.70012","DOIUrl":"https://doi.org/10.1111/1755-0998.70012","url":null,"abstract":"<p><p>Yellow monkeyflowers (Mimulus guttatus complex, Phrymaceae) are a powerful system for studying ecological adaptation, reproductive variation, and genome evolution. To initiate pan-genomics in this group, we present four chromosome-scale assemblies and annotations of accessions spanning a broad evolutionary spectrum: two from a single M. guttatus population, one from the closely related selfing species M. nasutus, and one from a more divergent species M. tilingii. All assemblies are highly complete and resolve centromeric and repetitive regions. Comparative analyses reveal such extensive structural variation in repeat-rich, gene-poor regions that large portions of the genome are unalignable across accessions. As a result, this Mimulus pan-genome is primarily informative in genic regions, underscoring limitations of resequencing approaches in such polymorphic taxa. We document gene presence-absence, investigate the recombination landscape using high-resolution linkage data, and quantify nucleotide diversity. Surprisingly, pairwise differences at fourfold synonymous sites are exceptionally high-even in regions of very low recombination-reaching ~3.2% within a single M. guttatus population, ~7% within the interfertile M. guttatus species complex (approximately equal to SNP divergence between great apes and Old World monkeys), and ~7.4% between that complex and the reproductively isolated M. tilingii. Genome-wide patterns of nucleotide variation show little evidence of linked selection, and instead suggest that the concentration of genes (and likely selected sites) in high-recombination regions may buffer diversity loss. These assemblies, annotations, and comparative analyses provide a robust genomic foundation for Mimulus research and offer new insights into the interplay of recombination, structural variation, and molecular evolution in highly diverse plant genomes.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":" ","pages":"e70012"},"PeriodicalIF":5.5,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144688488","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"wholeskim: Utilising Genome Skims for Taxonomically Annotating Ancient DNA Metagenomes.","authors":"Lucas Elliott, Frédéric Boyer, Teo Lemane, Inger Greve Alsos, Eric Coissac","doi":"10.1111/1755-0998.70001","DOIUrl":"https://doi.org/10.1111/1755-0998.70001","url":null,"abstract":"<p><p>Inferring community composition from shotgun sequencing of environmental DNA is highly dependent on the completeness of reference databases used to assign taxonomic information as well as the pipeline used. While the number of complete, fully assembled reference genomes is increasing rapidly, their taxonomic coverage is generally too sparse to use them to build complete reference databases that span all or most of the target taxa. Low-coverage, whole genome sequencing, or skimming, provides a cost-effective and scalable alternative source of genome-wide information in the interim. Without enough coverage to assemble large contigs of nuclear DNA, much of the utility of a genome skim in the context of taxonomic annotation is found in its short read form. However, previous methods have not been able to fully leverage the data in this format. We demonstrate the utility of wholeskim, a pipeline for the indexing of k-mers present in genome skims and subsequent querying of these indices with short DNA reads. Wholeskim expands on the functionality of kmindex, a software which utilises Bloom filters to efficiently index and query billions of k-mers. Using a collection of thousands of plant genome skims, wholeskim is the only software that is able to index and query the skims in their unassembled form. It is able to correctly annotate 1.16× more simulated reads and 2.48× more true sedaDNA reads in 0.32× of the time required by Holi, another metagenomic pipeline that uses genome skims in their assembled form as its reference database input. We also explore the effects of taxonomic and genomic completeness of the reference database on the accuracy and sensitivity of read assignment. Increasing the genomic coverage of the genome skims used as reference increases the number of correctly annotated reads, but with diminishing returns after ~1× depth of coverage. Increasing taxonomic coverage clearly reduces the number of false negative taxa in the dataset, but we also demonstrate that it does not greatly impact false positive annotations.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":" ","pages":"e70001"},"PeriodicalIF":5.5,"publicationDate":"2025-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144673544","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"RETRACTION: Nonlethal Age Estimation of Three Threatened Fish Species Using DNA Methylation: Australian Lungfish, Murray Cod and Mary River Cod","authors":"","doi":"10.1111/1755-0998.70018","DOIUrl":"10.1111/1755-0998.70018","url":null,"abstract":"<p><b>RETRACTION:</b> B. Mayne, T. Espinoza, D. Roberts, G. L. Butler, S. Brooks, D. Korbie and S. Jarman, “Nonlethal Age Estimation of Three Threatened Fish Species Using DNA Methylation: Australian Lungfish, Murray Cod and Mary River Cod,” <i>Molecular Ecology Resources</i> 21, no. 7 (2021): 2324-2332, https://doi.org/10.1111/1755-0998.13440.</p><p>The above article, published online on 23 June 2021 in Wiley Online Library (wileyonlinelibrary.com), has been retracted by agreement between the journal Editors-in-Chief, Shawn Narum and Ben Sibbett; and John Wiley &amp; Sons Ltd. The retraction has been agreed upon following an alert from one of the authors, S. Jarman, identifying that the results shown in Figure 1 are inaccurate and do not represent a real relationship between age and DNA methylation. Consequently, the editors consider the results and conclusions invalid. The authors, S. Jarman, G. Butler and B. Mayne, agree with the decision to retract this article.</p>","PeriodicalId":211,"journal":{"name":"Molecular Ecology Resources","volume":"25 7","pages":""},"PeriodicalIF":5.5,"publicationDate":"2025-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/1755-0998.70018","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144673543","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}