{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,2]],"date-time":"2026-09-02T09:23:44Z","timestamp":1788341024412,"version":"build-2803163510"},"reference-count":86,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2026,7,2]],"date-time":"2026-07-02T00:00:00Z","timestamp":1782950400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"QMUL PhD scholarship"},{"DOI":"10.13039\/100013562","name":"Genetics Society","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100013562","id-type":"DOI","asserted-by":"publisher"}]},{"name":"QMUL and NERC Environmental Omics Facility","award":["NEOF1704"],"award-info":[{"award-number":["NEOF1704"]}]},{"name":"UKRI Future Leaders Fellowship to VO","award":["MR\/V024744\/2"],"award-info":[{"award-number":["MR\/V024744\/2"]}]},{"name":"Wild Green Future"},{"name":"Poland","award":["NCN2021\/43\/B\/NZ8\/00966"],"award-info":[{"award-number":["NCN2021\/43\/B\/NZ8\/00966"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,9,2]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Catonephele acontius (Nymphalidae:Biblidinae:Epicalinii) is a butterfly species with a wide distribution across the Neotropics including the Amazon. Here, we present a long-read high-coverage reference genome for this species to serve as a genomic resource for future studies on Biblidinae butterflies, a group that is the subject of ongoing studies of seasonal adaptation under climate change. We used PacBio HiFi and IsoSeq reads to generate a highly contiguous and well-annotated reference genome. Five libraries were constructed, 4 using RNA from different tissues and 1 using high molecular weight (HMW) DNA from a wild-caught female. The DNA was sequenced using PacBio HiFi technology, and the RNA was sequenced using long read PacBio IsoSeq technology. About 20 Gb of raw HiFi data were generated and assembled to an initial size of 520.7 Mb (39 \u00d7 homozygous coverage) in 90 contigs. The assembly was then polished and decontaminated into 40 contigs with an N50 of 19.927 Mb (BUSCO completeness: 99.0%; duplication: 0.5%; fragmentation: 0.7%; and missing: 0.3%). Final assembly size was 519.2 Mb. Repeats were annotated, showing that the genome consisted of 40.4% transposable elements. IsoSeq transcriptome data from antennae, leg, ovary, and digestive tissue was then used to structurally and functionally annotate gene models for the softmasked genome, uncovering \u223c18,500 genes, with 70% of them given functional annotation. This reference assembly joins many published genomes in the Nymphalidae family but represents one of the first high-quality genomes from the Biblidinae subfamily. It provides a valuable resource to study the evolution of plastic and seasonal traits and will help investigate the genetic processes that may influence these species' responses to rapid climate change.<\/jats:p>","DOI":"10.1093\/g3journal\/jkag174","type":"journal-article","created":{"date-parts":[[2026,7,2]],"date-time":"2026-07-02T18:54:05Z","timestamp":1783018445000},"source":"Crossref","is-referenced-by-count":0,"title":["Long-read, high-coverage reference genome of the nymphalid butterfly\n                    <i>Catonephele acontius<\/i>\n                    (Nymphalidae: Biblidinae)"],"prefix":"10.1093","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0009-0003-1447-4338","authenticated-orcid":false,"given":"Marcus","family":"Hicks","sequence":"first","affiliation":[{"name":"School of Biological and Behavioural Sciences, Queen Mary University of London , London, Greater London E1 4NS ,","place":["United Kingdom"]},{"name":"NERC Environmental Omics Facility, NEOF Visitor Facility, School of Biosciences, University of Sheffield , Alfred Denny Building, Western Bank, Sheffield S10 2TN ,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7093-9211","authenticated-orcid":false,"given":"Tan","family":"Nhat Pham","sequence":"additional","affiliation":[{"name":"Department of Systematic Zoology, Faculty of Biology, Institute of Environmental Biology, Adam Mickiewicz University , Poznan, Greater Poland 61-712 ,","place":["Poland"]},{"name":"Vietnam Forest Museum, Forest Inventory and Planning Institute , Hanoi 11707 ,","place":["Vietnam"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Oc\u00e9ane","family":"Seudre","sequence":"additional","affiliation":[{"name":"School of Biological and Behavioural Sciences, Queen Mary University of London , London, Greater London E1 4NS ,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zunilda","family":"Escalante-Arteaga","sequence":"additional","affiliation":[{"name":"Alianza Para una Amazon\u00eda Sostenible Per\u00fa, Las Piedras , Madre de Dios 17100, Per\u00fa"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lucy","family":"S. Knowles","sequence":"additional","affiliation":[{"name":"NERC Environmental Omics Facility, NEOF Visitor Facility, School of Biosciences, University of Sheffield , Alfred Denny Building, Western Bank, Sheffield S10 2TN ,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Geoffrey","family":"Gallice","sequence":"additional","affiliation":[{"name":"Pontificia Universidad Cat\u00f3lica del Per\u00fa Departamento de Ingenier\u00eda, , Lima 15088, Per\u00fa"},{"name":"Alliance for a Sustainable Amazon , Potomac, MD 20854 ,","place":["United States"]},{"name":"Department of Natural History, Florida Museum of Natural History, University of Florida , Gainesville, FL 32611 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1273-1906","authenticated-orcid":false,"given":"Vicencio","family":"Oostra","sequence":"additional","affiliation":[{"name":"School of Biological and Behavioural Sciences, Queen Mary University of London , London, Greater London E1 4NS ,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,7,2]]},"reference":[{"key":"2026090205040108400_jkag174-B1","doi-asserted-by":"publisher","first-page":"1329","DOI":"10.1093\/BIOINFORMATICS\/BTP084","article-title":"TEclass--a tool for automated classification of unknown eukaryotic transposable elements","volume":"25","author":"Abrus\u00e1n","year":"2009","journal-title":"Bioinformatics"},{"key":"2026090205040108400_jkag174-B2","doi-asserted-by":"publisher","first-page":"4737","DOI":"10.1038\/ncomms5737","article-title":"The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera","volume":"5","author":"Ahola","year":"2014","journal-title":"Nat Commun."},{"key":"2026090205040108400_jkag174-B3","doi-asserted-by":"publisher","first-page":"209","DOI":"10.1016\/j.ympev.2016.09.024","article-title":"Accurate annotation of protein-coding genes in mitochondrial genomes","volume":"106","author":"Al Arab","year":"2017","journal-title":"Mol Phylogenet Evol."},{"key":"2026090205040108400_jkag174-B4","first-page":"157","article-title":"Notes on the life cycle and natural history of butterflies of El Salvador. 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