{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,4]],"date-time":"2026-11-04T12:24:50Z","timestamp":1793795090536,"version":"4.6.1"},"reference-count":131,"publisher":"Oxford University Press (OUP)","issue":"11","license":[{"start":{"date-parts":[[2026,8,25]],"date-time":"2026-08-25T00:00:00Z","timestamp":1787616000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,11,4]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Agarikon (Laricifomes officinalis syn. Fomitopsis officinalis) is an endangered fungus belonging to a unique lineage in the Polyporales (Basidiomycota) with a growing body of evidence supporting its medicinal value. In this study, we report the hybrid de novo assembly and annotation of the nuclear and mitochondrial genomes of L. officinalis, with a nuclear genome size of 28.76 Mb assembled across 66 contigs (51.96% GC content; BUSCO completeness of 99.4%) and a complete core mitochondrial genome size of 197.67 kb. Structural and functional annotation of the nuclear genome yielded 8,717 predicted genes including 8,604 protein-coding genes, with 287 genes in 27 candidate biosynthetic gene clusters. We characterized the mating type loci matA and matB, consistent with a tetrapolar mating system, and identified genes encoding key enzymes involved in triterpenoid and polyketide biosynthetic pathways that lead to the production of a diverse array of secondary metabolites. Additionally, we conducted maximum likelihood phylogenomic analysis to confirm the taxonomic position of L. officinalis among other species in the Polyporales using protein sequences for 730 shared BUSCO genes. This high-quality annotated genome of L. officinalis will serve as a foundation for further investigations into its evolutionary history, provide a reference for future population genomic analyses, and elucidate mechanisms underlying the synthesis of the bioactive compounds responsible for agarikon's wide-ranging medicinal benefits.<\/jats:p>","DOI":"10.1093\/g3journal\/jkag237","type":"journal-article","created":{"date-parts":[[2026,8,25]],"date-time":"2026-08-25T20:06:41Z","timestamp":1787688401000},"source":"Crossref","is-referenced-by-count":2,"title":["Genomic characterization of the endangered medicinal polypore agarikon (\n                    <i>Laricifomes officinalis<\/i>\n                    syn.\n                    <i>Fomitopsis officinalis<\/i>\n                    )"],"prefix":"10.1093","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1042-2157","authenticated-orcid":false,"given":"Patrick I","family":"Bennett","sequence":"first","affiliation":[{"name":"Department of Research and Development, Fungi Perfecti, LLC , PO Box 7634, Olympia, WA 98507 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0006-3215-8971","authenticated-orcid":false,"given":"Zolton J","family":"Bair","sequence":"additional","affiliation":[{"name":"Department of Research and Development, Fungi Perfecti, LLC , PO Box 7634, Olympia, WA 98507 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexander J","family":"Bradshaw","sequence":"additional","affiliation":[{"name":"Biology Department, Lasry Center for Bioscience, Clark University , 15 Maywood Street, Worcester, MA 01610 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paul","family":"Stamets","sequence":"additional","affiliation":[{"name":"Department of Research and Development, Fungi Perfecti, LLC , PO Box 7634, Olympia, WA 98507 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,8,25]]},"reference":[{"key":"2026110406242950300_jkag237-B1","doi-asserted-by":"publisher","first-page":"gkaf1419","DOI":"10.1093\/nar\/gkaf1419","article-title":"Comparative mitogenomics of kingdom Fungi\u2014evolutionary insights and metagenomic applications","volume":"54","author":"Ahrendt","year":"2026","journal-title":"Nucleic Acids Res"},{"key":"2026110406242950300_jkag237-B2","author":"Andrews","year":"2010"},{"key":"2026110406242950300_jkag237-B3","doi-asserted-by":"publisher","first-page":"1350","DOI":"10.3852\/13-003","article-title":"Phylogenetic and phylogenomic overview of the Polyporales","volume":"105","author":"Binder","year":"2013","journal-title":"Mycologia"},{"key":"2026110406242950300_jkag237-B4","doi-asserted-by":"publisher","first-page":"119","DOI":"10.1080\/00275514.1992.12026114","article-title":"Nineteenth century shaman grave guardians are carved Fomitopsis officinalis sporophores","volume":"84","author":"Blanchette","year":"1992","journal-title":"Mycologia"},{"key":"2026110406242950300_jkag237-B5","doi-asserted-by":"publisher","first-page":"W32","DOI":"10.1093\/nar\/gkaf334","article-title":"antiSMASH 8.0: Extended gene cluster detection capabilities and analyses of chemistry, enzymology, and regulation","volume":"53","author":"Blin","year":"2025","journal-title":"Nucleic Acids Res"},{"key":"2026110406242950300_jkag237-B6","doi-asserted-by":"publisher","first-page":"001254","DOI":"10.1099\/mgen.0.001254","article-title":"How low can you go? 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