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The first high-quality chromosomal genome assembly of a medicinal and edible plant Arctium lappa
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  • Liang Xu,
  • Shengnan Li,
  • Yanyun Yang,
  • Yanping Xing,
  • Zhongren Zhang,
  • Tao Liu,
  • Wuliji Ao,
  • Guihua Bao,
  • Zhilai Zhan,
  • Rong Zhao,
  • Tingting Zhang,
  • Dachuang Zhang,
  • Tingguo Kang,
  • Yueyue Song,
  • Che Bian
Shengnan Li
Liaoning University of Traditional Chinese Medicine - Dalian Campus
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Yanyun Yang
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Yanping Xing
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Zhongren Zhang
Novogene Bioinformatics Institute
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Guihua Bao
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Zhilai Zhan
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Tingting Zhang
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Dachuang Zhang
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Tingguo Kang
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Yueyue Song
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Abstract

Arctium lappa has a long medicinal and edible history with great economic importance. We combined Illumina and PacBio sequences to generate the first high-quality chromosome-level draft genome of A. lappa. The assembled genome is approximately 1.79 Gb with a N50 contig size of 6.88 Mb. Approximately 1.70 Gb (95.4%) of the contig sequences were anchored onto 18 chromosomes using Hi-C data; the scaffold N50 was improved to be 91.64 Mb. Furthermore, we obtained 1.12 Gb (68.46%) of repetitive sequences and 32,771 protein-coding genes; 616 positively selected candidate genes were identified. Additionally, we compared the transcriptomes of A. lappa roots at three different developmental stages and identified 8,943 differentially expressed genes (DEGs) in these tissues. Among candidate genes related to lignan biosynthesis, the following were found to be highly correlated with the accumulation of arctiin: 4-coumarate-CoA ligase (4CL), dirigent protein (DIR), and hydroxycinnamoyl transferase (HCT). These data can be utilized to identify genes related to A. lappa quality or provide a basis for molecular identification and comparative genomics among related species.

Peer review status:UNDER REVIEW

01 Mar 2021Submitted to Molecular Ecology Resources
03 May 2021Assigned to Editor
03 May 2021Submission Checks Completed
04 May 2021Reviewer(s) Assigned