{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,25]],"date-time":"2026-06-25T11:50:46Z","timestamp":1782388246758,"version":"3.54.5"},"reference-count":53,"publisher":"Wiley","issue":"2","license":[{"start":{"date-parts":[[2026,4,12]],"date-time":"2026-04-12T00:00:00Z","timestamp":1775952000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"},{"start":{"date-parts":[[2026,4,12]],"date-time":"2026-04-12T00:00:00Z","timestamp":1775952000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/doi.wiley.com\/10.1002\/tdm_license_1.1"}],"content-domain":{"domain":["acsess.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["The Plant Genome"],"published-print":{"date-parts":[[2026,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>\n                    <jats:italic>Cannabis sativa<\/jats:italic>\n                    has undergone over 10,000 years of domestication, resulting in extensive genetic and phenotypic diversity among cultivated chemotypes. Increased medical and recreational use of specialized metabolites accumulating in cannabis glandular trichomes\u2014primarily the cannabinoids \u22069\u2010tetrahydrocannabinol (THC) and cannabidiol (CBD)\u2014has amplified research interest and a need to develop supporting genomic tools. Here, we present PacBio Iso\u2010Seq\u2010based transcriptome assemblies for two contrasting cannabis drug\u2010type chemotypes (THC\u2010 and CBD\u2010dominant) and their characterization. These assemblies encompass approximately 60% of the annotated loci in the cs10 reference genome, consistent with the commonly expressed fraction of the genome, and identify 1145 novel transcribed loci not present in the cs10 reference. Each assembly defines &gt;50,000 transcripts and 15,000 alternative splicing events. Their accuracy is exemplified by confirming the conservation of alternative splicing events for Rubisco activase and a serine\/argine\u2010rich protein (SR45). We further highlight their utility by characterizing a novel cis\u2010regulatory long non\u2010coding RNA associated with the transcription factor NITRATE REGULATORY GENE 2. In addition, alternative splicing events for\n                    <jats:italic>SPX DOMAIN 4<\/jats:italic>\n                    , a key regulator of phosphate homeostasis, identified expression of transcripts encoding proteins with altered domain structure. Quantification of transcript abundances of these genes across different organs and varying phosphate supplies revealed isoform\u2010specific expression patterns that differ between chemotypes, suggesting novel regulatory mechanisms for nitrogen and phosphate acquisition not previously described in either model or crop plant species. Our transcriptome assemblies provide a rich resource for the functional characterization of transcript and protein diversity in cannabis.\n                  <\/jats:p>","DOI":"10.1002\/tpg2.70240","type":"journal-article","created":{"date-parts":[[2026,4,13]],"date-time":"2026-04-13T05:55:50Z","timestamp":1776059750000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Transcriptome assemblies for two drug\u2010type cannabis chemotypes by long\u2010read RNA sequencing"],"prefix":"10.1002","volume":"19","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7671-6983","authenticated-orcid":false,"given":"Oliver","family":"Berkowitz","sequence":"first","affiliation":[{"name":"Australian Research Council Research Hub for Medicinal Agriculture, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"La Trobe Institute for Sustainable Agriculture and Food Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Research Council Research Hub for Protected Cropping, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Plant Phenomics Network La Trobe University  Bundoora Victoria Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3819-6358","authenticated-orcid":false,"given":"Ricarda","family":"Jost","sequence":"additional","affiliation":[{"name":"Australian Research Council Research Hub for Medicinal Agriculture, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"La Trobe Institute for Sustainable Agriculture and Food Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Research Council Research Hub for Protected Cropping, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Plant Phenomics Network La Trobe University  Bundoora Victoria Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1677-863X","authenticated-orcid":false,"given":"Sophia","family":"Ng","sequence":"additional","affiliation":[{"name":"Australian Research Council Research Hub for Medicinal Agriculture, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"La Trobe Institute for Sustainable Agriculture and Food Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7483-8605","authenticated-orcid":false,"given":"Antony","family":"Bacic","sequence":"additional","affiliation":[{"name":"Australian Research Council Research Hub for Medicinal Agriculture, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"La Trobe Institute for Sustainable Agriculture and Food Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Research Council Research Hub for Protected Cropping, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5754-025X","authenticated-orcid":false,"given":"James","family":"Whelan","sequence":"additional","affiliation":[{"name":"Australian Research Council Research Hub for Medicinal Agriculture, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"College of Life Science Zhejiang University  Hangzhou P. R. China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2631-4337","authenticated-orcid":false,"given":"Mathew G.","family":"Lewsey","sequence":"additional","affiliation":[{"name":"Australian Research Council Research Hub for Medicinal Agriculture, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"La Trobe Institute for Sustainable Agriculture and Food Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Research Council Research Hub for Protected Cropping, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Plant Phenomics Network La Trobe University  Bundoora Victoria Australia"},{"name":"Australian Research Council Centre of Excellence in Plants for Space, Department of Ecological Plant and Animal Sciences, School of Agriculture, Biomedicine and Environment La Trobe University  Bundoora Victoria Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2026,4,12]]},"reference":[{"key":"e_1_2_10_2_1","doi-asserted-by":"publisher","DOI":"10.1146\/annurev\u2010arplant\u2010083123\u2010090055"},{"key":"e_1_2_10_3_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13059\u2010020\u20101935\u20105"},{"key":"e_1_2_10_4_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-540-76776-3_5"},{"key":"e_1_2_10_5_1","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.3519"},{"key":"e_1_2_10_6_1","doi-asserted-by":"publisher","DOI":"10.1104\/pp.112.213348"},{"key":"e_1_2_10_7_1","volume-title":"Cannabis: Evolution and ethnobotany","author":"Clarke 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Whelan J. &Jost R.(2025).Metabolic and transcriptomic analyses identify coordinated resource reallocation in response to phosphate supply in hemp.bioRxiv.https:\/\/doi.org\/10.1101\/2025.09.18.677093","DOI":"10.1101\/2025.09.18.677093"},{"key":"e_1_2_10_49_1","doi-asserted-by":"publisher","DOI":"10.1105\/tpc.1.8.815"},{"key":"e_1_2_10_50_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.aad9858"},{"key":"e_1_2_10_51_1","doi-asserted-by":"publisher","DOI":"10.3390\/ijms222111989"},{"key":"e_1_2_10_52_1","doi-asserted-by":"publisher","DOI":"10.1105\/tpc.15.00567"},{"key":"e_1_2_10_53_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.96.16.9438"},{"key":"e_1_2_10_54_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13059\u2010022\u201002711\u20100"}],"container-title":["The Plant Genome"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/acsess.onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/tpg2.70240","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/acsess.onlinelibrary.wiley.com\/doi\/full-xml\/10.1002\/tpg2.70240","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/acsess.onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/tpg2.70240","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,6,25]],"date-time":"2026-06-25T11:33:09Z","timestamp":1782387189000},"score":1,"resource":{"primary":{"URL":"https:\/\/acsess.onlinelibrary.wiley.com\/doi\/10.1002\/tpg2.70240"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,4,12]]},"references-count":53,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2026,6]]}},"alternative-id":["10.1002\/tpg2.70240"],"URL":"https:\/\/doi.org\/10.1002\/tpg2.70240","archive":["Portico"],"relation":{},"ISSN":["1940-3372","1940-3372"],"issn-type":[{"value":"1940-3372","type":"print"},{"value":"1940-3372","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,4,12]]},"assertion":[{"value":"2025-11-24","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-03-23","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-04-12","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e70240"}}