{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,6]],"date-time":"2026-05-06T10:16:49Z","timestamp":1778062609723,"version":"3.51.4"},"reference-count":31,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2025,11,25]],"date-time":"2025-11-25T00:00:00Z","timestamp":1764028800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"funder":[{"name":"Shannon Murphy and Dhaval Vyas 392","award":["NSF-DEB 2030753"],"award-info":[{"award-number":["NSF-DEB 2030753"]}]},{"name":"Gina Wimp","award":["NSF-DEB 2030743"],"award-info":[{"award-number":["NSF-DEB 2030743"]}]},{"name":"National Science Foundation grants awarded to Mayra Vidal","award":["NSF-DEB 2030691"],"award-info":[{"award-number":["NSF-DEB 2030691"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,5,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Fall webworm (Hyphantria cunea) is a widespread, highly polyphagous moth in the family Erebidae, whose native range spans much of North America and invasive range includes Asia and Europe. The species uses over 600 plant species as a larval host, making it among the most generalized insect herbivores described. Its variable host use, wide range, and genetic diversity make fall webworm an attractive emerging model system for the study of diet breadth, but studies have been limited by the lack of a high-quality annotated reference genome. Here we report an annotated, chromosome-scale genome of much improved continuity and completeness over the previously available unannotated fall webworm reference genome. We used PacBioHiFi long reads and Omni-C proximity ligation sequencing technology to produce a de novo assembled genome. Our genome assembly, the first for any species in the genus and third in the family, contains 321 scaffolds spanning 0.572 gigabases with a N50 of 14.6\u00a0Mb and BUSCO complete score of 99.1%. This genome will represent a valuable resource for research into the ecology, evolution, and genetics of dietary generalism and diet breadth in insect herbivores.<\/jats:p>","DOI":"10.1093\/jhered\/esaf099","type":"journal-article","created":{"date-parts":[[2025,11,25]],"date-time":"2025-11-25T12:56:43Z","timestamp":1764075403000},"page":"577-582","source":"Crossref","is-referenced-by-count":1,"title":["Improved, annotated reference genome for the highly polyphagous moth\n                    <i>Hyphantria cunea<\/i>\n                    (Fall webworm)"],"prefix":"10.1093","volume":"117","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7962-9092","authenticated-orcid":false,"given":"William","family":"Maguire","sequence":"first","affiliation":[{"name":"Department of Biology, University of Massachusetts Boston , Boston, MA ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1444-365X","authenticated-orcid":false,"given":"Mattheau","family":"Comerford","sequence":"additional","affiliation":[{"name":"Department of Biology, University of Massachusetts Boston , Boston, MA ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4480-8920","authenticated-orcid":false,"given":"Lily","family":"Shiue","sequence":"additional","affiliation":[{"name":"Cantata Bio, Scotts Valley, CA, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Qianyu","family":"Jin","sequence":"additional","affiliation":[{"name":"Cantata Bio, Scotts Valley, CA, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6255-109X","authenticated-orcid":false,"given":"Gina","family":"Wimp","sequence":"additional","affiliation":[{"name":"Department of Biology, Georgetown University , Washington, DC ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5746-6536","authenticated-orcid":false,"given":"Shannon","family":"Murphy","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Denver , Denver, CO ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0340-9488","authenticated-orcid":false,"given":"Brook","family":"Moyers","sequence":"additional","affiliation":[{"name":"Department of Biology, University of Massachusetts Boston , Boston, MA ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3374-8050","authenticated-orcid":false,"given":"Mayra C","family":"Vidal","sequence":"additional","affiliation":[{"name":"Department of Biology, University of Massachusetts Boston , Boston, MA ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2025,11,25]]},"reference":[{"issue":"8","key":"2026050605513441900_ref1","doi-asserted-by":"publisher","first-page":"1269","DOI":"10.1101\/gr.88502","article-title":"Automated de novo identification of repeat sequence families in sequenced genomes","volume":"12","author":"Bao","year":"2002","journal-title":"Genome Res"},{"issue":"1","key":"2026050605513441900_ref2","doi-asserted-by":"publisher","first-page":"188","DOI":"10.1101\/gr.6743907","article-title":"MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes","volume":"18","author":"Cantarel","year":"2008","journal-title":"Genome Res"},{"issue":"4","key":"2026050605513441900_ref3","doi-asserted-by":"publisher","first-page":"1361","DOI":"10.1534\/g3.119.400908","article-title":"BlobToolKit\u2013interactive quality assessment of genome assemblies","volume":"10","author":"Challis","year":"2020","journal-title":"G3: Genes, Genomes, Genetics"},{"issue":"2","key":"2026050605513441900_ref4","doi-asserted-by":"publisher","first-page":"170","DOI":"10.1038\/s41592-020-01056-5","article-title":"Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm","volume":"18","author":"Cheng","year":"2021","journal-title":"Nat Methods"},{"issue":"9","key":"2026050605513441900_ref5","doi-asserted-by":"publisher","first-page":"1332","DOI":"10.1038\/s41587-022-01261-x","article-title":"Haplotype-resolved assembly of diploid genomes without parental data","volume":"40","author":"Cheng","year":"2022","journal-title":"Nat Biotechnol"},{"issue":"1","key":"2026050605513441900_ref6","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","article-title":"STAR: ultrafast universal RNA-seq aligner","volume":"29","author":"Dobin","year":"2013","journal-title":"Bioinformatics"},{"issue":"17","key":"2026050605513441900_ref7","doi-asserted-by":"publisher","first-page":"9451","DOI":"10.1073\/pnas.1921046117","article-title":"RepeatModeler2 for automated genomic discovery of transposable element families","volume":"117","author":"Flynn","year":"2020","journal-title":"Proc Natl Acad Sci"},{"issue":"9","key":"2026050605513441900_ref8","doi-asserted-by":"publisher","first-page":"2896","DOI":"10.1093\/bioinformatics\/btaa025","article-title":"Identifying and removing haplotypic duplication in primary genome assemblies","volume":"36","author":"Guan","year":"2020","journal-title":"Bioinformatics"},{"issue":"3","key":"2026050605513441900_ref9","doi-asserted-by":"publisher","first-page":"516","DOI":"10.11646\/zootaxa.4189.3.4","article-title":"A historical review of the classification of Erebinae (Lepidoptera: Erebidae)","volume":"4189","author":"Homziak","year":"2016","journal-title":"Zootaxa"},{"issue":"3","key":"2026050605513441900_ref10","doi-asserted-by":"publisher","first-page":"157","DOI":"10.1303\/aez.8.157","article-title":"Status of black-headed and red-headed types of Hyphantria cunea (DRURY) (Lepidoptera: Arctiidae): I. Biology of two types and results of crossing experiment","volume":"8","author":"Ito","year":"1973","journal-title":"Appl Entomol Zool"},{"key":"2026050605513441900_ref11","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2105-5-59","article-title":"Gene finding in novel genomes","volume":"5","author":"Korf","year":"2004","journal-title":"BMC bioinformatics"},{"key":"2026050605513441900_ref12","article-title":"Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM","author":"Li","year":"2013"},{"issue":"3","key":"2026050605513441900_ref13a","doi-asserted-by":"crossref","first-page":"580","DOI":"10.1093\/beheco\/arr017","article-title":"Direction and strength of selection by predators for the color of the aposematic wood tiger moth","volume":"22","author":"Lindstedt","year":"2011","journal-title":"Behavioral Ecology"},{"issue":"3","key":"2026050605513441900_ref12a","doi-asserted-by":"crossref","first-page":"196","DOI":"10.18473\/lepi.v67i3.a6","volume":"67","author":"Loewy","year":"2013","journal-title":"The Journal of the Lepidopterists' Society"},{"issue":"5","key":"2026050605513441900_ref14","doi-asserted-by":"publisher","first-page":"955","DOI":"10.1093\/nar\/25.5.955","article-title":"tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence","volume":"25","author":"Lowe","year":"1997","journal-title":"Nucleic Acids Res"},{"key":"2026050605513441900_ref15","first-page":"425","volume-title":"The NCBI handbook","author":"Madden","year":"2013"},{"issue":"10","key":"2026050605513441900_ref17","doi-asserted-by":"publisher","first-page":"1509","DOI":"10.1111\/j.1600-0706.2011.19053.x","article-title":"Abundance trumps quality: bi-trophic performance and parasitism risk fail to explain host use in the fall webworm","volume":"120","author":"Mason","year":"2011","journal-title":"Oikos"},{"issue":"3","key":"2026050605513441900_ref17a","doi-asserted-by":"crossref","first-page":"741","DOI":"10.1007\/s00442-015-3373-8","article-title":"Trade-offs in host choice of an herbivorous insect based on parasitism and larval performance","volume":"179","author":"Murphy","year":"2015","journal-title":"Oecologia"},{"issue":"2","key":"2026050605513441900_ref18","doi-asserted-by":"publisher","first-page":"192","DOI":"10.1093\/aesa\/57.2.192","article-title":"A behavioral study of two races of the fall webworm, Hyphantria cunea, (Lepidoptera: Arctiidae) in Louisiana","volume":"57","author":"Oliver","year":"1964","journal-title":"Ann Entomol Soc Am"},{"issue":"suppl_1","key":"2026050605513441900_ref19","doi-asserted-by":"publisher","first-page":"i351","DOI":"10.1093\/bioinformatics\/bti1018","article-title":"De novo identification of repeat families in large genomes","volume":"21","author":"Price","year":"2005","journal-title":"Bioinformatics"},{"issue":"3","key":"2026050605513441900_ref20","doi-asserted-by":"publisher","first-page":"342","DOI":"10.1101\/gr.193474.115","article-title":"Chromosome-scale shotgun assembly using an in vitro method for long-range linkage","volume":"26","author":"Putnam","year":"2016","journal-title":"Genome Res"},{"issue":"1","key":"2026050605513441900_ref21","doi-asserted-by":"publisher","first-page":"245","DOI":"10.1186\/s13059-020-02134-9","article-title":"Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies","volume":"21","author":"Rhie","year":"2020","journal-title":"Genome Biol"},{"key":"2026050605513441900_ref22","volume-title":"DU Undergraduate Research Journal Archive","author":"Maelah"},{"issue":"suppl_2","key":"2026050605513441900_ref24","doi-asserted-by":"publisher","first-page":"W435","DOI":"10.1093\/nar\/gkl200","article-title":"AUGUSTUS: ab initio prediction of alternative transcripts","volume":"34","author":"Stanke","year":"2006","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"2026050605513441900_ref25","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1002\/0471250953.bi0410s25","article-title":"Using RepeatMasker to identify repetitive elements in genomic sequences","volume":"25","author":"Tarailo-Graovac","year":"2009","journal-title":"Curr Protoc Bioinformatics"},{"issue":"D1","key":"2026050605513441900_ref26","doi-asserted-by":"publisher","first-page":"D516","DOI":"10.1093\/nar\/gkae987","article-title":"OrthoDB and BUSCO update: annotation of orthologs with wider sampling of genomes","volume":"53","author":"Tegenfeldt","year":"2025","journal-title":"Nucleic Acids Res"},{"issue":"14","key":"2026050605513441900_ref27","doi-asserted-by":"publisher","first-page":"2202","DOI":"10.1093\/bioinformatics\/btx153","article-title":"GenomeScope: fast reference-free genome profiling from short reads","volume":"33","author":"Vurture","year":"2017","journal-title":"Bioinformatics"},{"issue":"2","key":"2026050605513441900_ref28","first-page":"194","article-title":"The fall webworm, Hyphantria cunea, its distribution and natural enemies: a world list (Lepidoptera: Arctiidae)","volume":"40","author":"Warren","year":"1967","journal-title":"J Kansas Entomol Soc"},{"issue":"1","key":"2026050605513441900_ref29","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1038\/s41559-018-0746-5","article-title":"Fall webworm genomes yield insights into rapid adaptation of invasive species","volume":"3","author":"Wu","year":"2019","journal-title":"Nat Eco Evol"},{"issue":"24","key":"2026050605513441900_ref30","doi-asserted-by":"publisher","first-page":"10592","DOI":"10.1002\/ece3.3334","article-title":"r\/K-like trade-off and voltinism discreteness: the implication to allochronic speciation in the fall webworm, Hyphantria cunea complex (Arctiidae)","volume":"7","author":"Yang","year":"2017","journal-title":"Ecol Evol"},{"issue":"8","key":"2026050605513441900_ref31","doi-asserted-by":"publisher","first-page":"giaa088","DOI":"10.1093\/gigascience\/giaa088","article-title":"A haplotype-resolved, de novo genome assembly for the wood tiger moth (Arctia plantaginis) through trio binning","volume":"9","author":"Yen","year":"2020","journal-title":"GigaScience"}],"container-title":["Journal of Heredity"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/jhered\/advance-article-pdf\/doi\/10.1093\/jhered\/esaf099\/65498739\/esaf099.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/jhered\/article-pdf\/117\/3\/577\/65498739\/esaf099.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/jhered\/article-pdf\/117\/3\/577\/65498739\/esaf099.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,5,6]],"date-time":"2026-05-06T09:51:37Z","timestamp":1778061097000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/jhered\/article\/117\/3\/577\/8342251"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,11,25]]},"references-count":31,"journal-issue":{"issue":"3","published-online":{"date-parts":[[2025,11,25]]},"published-print":{"date-parts":[[2026,5,6]]}},"URL":"https:\/\/doi.org\/10.1093\/jhered\/esaf099","relation":{},"ISSN":["0022-1503","1465-7333"],"issn-type":[{"value":"0022-1503","type":"print"},{"value":"1465-7333","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2026,5]]},"published":{"date-parts":[[2025,11,25]]}}}