{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,7]],"date-time":"2026-10-07T01:52:43Z","timestamp":1791337963970,"version":"4.3.1"},"reference-count":73,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2026,6,10]],"date-time":"2026-06-10T00:00:00Z","timestamp":1781049600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Key Laboratory for Tropical Crop Breeding","award":["NKLTCBCXTD13"],"award-info":[{"award-number":["NKLTCBCXTD13"]}]},{"name":"the Key project at central government level: The ability establishment of sustainable use for valuable Chinese medicine resources","award":["2060302"],"award-info":[{"award-number":["2060302"]}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["82425059, 32470245, 82009Y6999, 32570274, 32400192, and 32300223"],"award-info":[{"award-number":["82425059, 32470245, 82009Y6999, 32570274, 32400192, and 32300223"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2023YFA0914101"],"award-info":[{"award-number":["2023YFA0914101"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Callicarpa nudiflora is a medicinal plant rich in phenylethanoid glycosides (PhGs), particularly verbascoside, but the genetic basis of PhG biosynthesis and natural variation in its content remain largely unexplored. Here, we assembled a chromosome-level genome of C. nudiflora (511\u00a0Mb, contig N50\u2009=\u200912.78\u00a0Mb) with 39\u2009317 annotated protein-coding genes and 99.5% Benchmarking Universal Single-Copy Orthologs completeness and quantified its bioactive compounds and gene expression across multiple tissues. Using the dataset, we elucidated the complete biosynthetic pathway of verbascoside and demonstrated multiple paralogous enzymes catalyzing one step, a functional redundancy that may contribute to the high verbascoside accumulation observed in this species. Population genomic analysis, together with quantification of verbascoside content of 95 samples grown in a common garden over three consecutive years, revealed that Southcentral Hainan was identified as the genetic diversity center and exhibited the highest content of verbascoside. Selective sweep analysis comparing high- and low-content individuals identified CnUGT79G7, a key glycosyltransferase in the verbascoside pathway, as being under positive selection. Two major haplotypes of CnUGT79G7 were identified: Hap1, a high-expression haplotype prevalent in the top-geoherb region (77% frequency), and Hap2, a low-expression haplotype fixed in other populations. Although the two haplotypes encode proteins with similar catalytic activity, Hap1 is associated with significantly higher CnUGT79G7 expression and elevated verbascoside content, suggesting that cis-regulatory variation underlies chemotypic differentiation. Collectively, this work identifies key molecular components for verbascoside biosynthesis, establishes a genomic and metabolic framework for understanding top-geoherb, and provides valuable resources for the conservation and molecular breeding of medicinal plants.<\/jats:p>","DOI":"10.1093\/hr\/uhag203","type":"journal-article","created":{"date-parts":[[2026,6,10]],"date-time":"2026-06-10T09:49:24Z","timestamp":1781084964000},"source":"Crossref","is-referenced-by-count":1,"title":["Deciphering genetic basis of phenylethanoid glycoside production through integrative multiomics analysis in\n                    <i>Callicarpa nudiflora<\/i>"],"prefix":"10.1093","volume":"13","author":[{"given":"Fulai","family":"Yu","sequence":"first","affiliation":[{"name":"State Key Laboratory of Tropical Crop Breeding, Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Key Laboratory of Biology and Cultivation of Herb Medicine (Haikou), Ministry of Agriculture and Rural Affairs, Key Laboratory of Tropical Crops Germplasm Resource Genetic Improvement and Innovation of Hainan Province , Sanya\/Haikou 572024\/571101 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-7050-7769","authenticated-orcid":false,"given":"Mingju","family":"Yao","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University , Beijing 100191 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mei","family":"Huang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Tropical Crop Breeding, Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences, Key Laboratory of Biology and Cultivation of Herb Medicine (Haikou), Ministry of Agriculture and Rural Affairs, Key Laboratory of Tropical Crops Germplasm Resource Genetic Improvement and Innovation of Hainan Province , Sanya\/Haikou 572024\/571101 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xunmeng","family":"Feng","sequence":"additional","affiliation":[{"name":"Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518120 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lanlan","family":"Zang","sequence":"additional","affiliation":[{"name":"Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518120 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Donghua","family":"Hu","sequence":"additional","affiliation":[{"name":"Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518120 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lanping","family":"Guo","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs , National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shichao","family":"Sun","sequence":"additional","affiliation":[{"name":"Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518120 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xue","family":"Qiao","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, Peking University , Beijing 100191 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2068-7535","authenticated-orcid":false,"given":"Li","family":"Wang","sequence":"additional","affiliation":[{"name":"Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518120 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