The chromosome-level reference genome of Coptis chinensis provides insights into genomic evolution and berberine biosynthesis  

作　　者：Da-xia Chen Yuan Pan Yu Wang Yan-Ze Cui Ying-Jun Zhang Rang-yu Mo Xiao-li Wu Jun Tan Jian Zhang Lian-an Guo Xiao Zhao Wenkai Jiang Tian-lin Sun Xiao-Di Hu Long-yun Li 

机构地区：[1]Chongqing Academy of Chinese Materia Medica,400065 Chongqing,China [2]Chongqing Engineering Research Center for Fine Variety Breeding Techniques of Chinese Materia Medica,400065 Chongqing,China [3]Chongqing Sub-center of National Resource Center for Chinese Materia Medica,China Academy of Chinese Medical Science,400065 Chongqing,China [4]Novogene Bioinformatics Institute,Building 301,Zone A10 Jiuxianqiao North 13 Road,Chaoyang District,100083 Beijing,China

出　　处：《Horticulture Research》2021年第1期1632-1642,共11页园艺研究（英文）

基　　金：the Basic Research Projects of Chongqing Province(No.cstc2017jxjl-jbky-120013);China National Science and Technology Project of the 12th 5-Year Plan(2011BAI13B02-1);Chongqing Platform and Base Construction Project(cstc2014ptjd10001).

摘　　要：Coptis chinensis Franch, a perennial herb, is mainly distributed in southeastern China. The rhizome of C. chinensis hasbeen used as a traditional medicine for more than 2000 years in China and many other Asian countries. Thepharmacological activities of C. chinensis have been validated by research. Here, we present a de novo high-qualitygenome of C. chinensis with a chromosome-level genome of ~958.20 Mb, a contig N50 of 1.58 Mb, and a scaffold N50of 4.53 Mb. We found that the relatively large genome size of C. chinensis was caused by the amplification of longterminal repeat (LTR) retrotransposons. In addition, a whole-genome duplication event in ancestral Ranunculales wasdiscovered. Comparative genomic analysis revealed that the tyrosine decarboxylase (TYDC) and (S)-norcoclaurinesynthase (NCS) genes were expanded and that the aspartate aminotransferase gene (ASP5) was positively selected inthe berberine metabolic pathway. Expression level and HPLC analyses showed that the berberine content was highestin the roots of C. chinensis in the third and fourth years. The chromosome-level reference genome of C. chinensisprovides important genomic data for molecular-assisted breeding and active ingredient biosynthesis.

关 键 词：BERBERINE Coptis INSIGHT 

分 类 号：S567.52[农业科学—中草药栽培]