Supporting data for "The genome of Tripterygium wilfordii and characterization of the celastrol biosynthesis pathway"

Dataset type: Genomic, Transcriptomic
Data released on February 26, 2021

Pei T; Yan M; Kong Y; Fan H; Liu J; Cui M; Fang Y; Ge B; Yang J; Zhao Q (2021): Supporting data for "The genome of Tripterygium wilfordii and characterization of the celastrol biosynthesis pathway" GigaScience Database. http://dx.doi.org/10.5524/100864

DOI10.5524/100864

Tripterygium wilfordii is a vine from the Celastraceae family that is used in traditional Chinese medicine (TCM). The active ingredient, celastrol, is a friedelane-type pentacyclic triterpenoid with putative roles as an antitumor, immunosuppressive, and anti-obesity agent. Here, we report a reference genome assembly of T. wilfordii with high-quality annotation using a hybrid sequencing strategy. The total genome size obtained is 340.12 Mb, with a contig N50 value of 3.09 Mb. We successfully anchored 91.02% of sequences into 23 pseudochromosomes using high-throughput chromosome conformation capture (Hi-C) technology. The super-scaffold N50 value was 13.03 Mb. We also annotated 31,593 structural genes, with a repeat percentage of 44.31%. These data demonstrate that T. wilfordii diverged from Malpighiales species approximately 102.4 million years ago. By integrating genome, transcriptome and metabolite analyses, as well as in vivo and in vitro enzyme assays of two cytochrome P450 (CYP450) genes, TwCYP712K1 and TwCYP712K2, it is possible to investigate the second biosynthesis step of celastrol and demonstrate that this was derived from a common ancestor. These data provide insights and resources for further investigation of pathways related to celastrol, and valuable information to aid the conservation of resources, as well as understand the evolution of Celastrales.

Additional details

Accessions (data generated as part of this study):

BioProject: PRJNA640746
MetaboLights: MTBLS1080





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
TW1458696  Tripterygium wilfordii Description:DNA extracted from the leaves of Tript...
Alternative accession-BioSample:SAMN15331941
Alternative accession-BioProject:PRJNA640746
...
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Tw_F458696  Tripterygium wilfordii Description:RNA extracted from the flower of Tript...
Alternative accession-BioSample:SAMN15331505
Alternative accession-BioProject:PRJNA640746
...
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Tw_FB458696  Tripterygium wilfordii Description:RNA extracted from the bud of Triptery...
Alternative accession-BioSample:SAMN15331506
Alternative accession-BioProject:PRJNA640746
...
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Tw_L458696  Tripterygium wilfordii Description:RNA extracted from the mature leaf of ...
Alternative accession-BioSample:SAMN15331503
Alternative accession-BioProject:PRJNA640746
...
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Tw_R458696  Tripterygium wilfordii Description:RNA extracted from the root of Tripter...
Alternative accession-BioSample:SAMN15331501
Alternative accession-BioProject:PRJNA640746
...
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Tw_S458696  Tripterygium wilfordii Description:RNA extracted from the stem of Tripter...
Alternative accession-BioSample:SAMN15331504
Alternative accession-BioProject:PRJNA640746
...
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Tw_YL458696  Tripterygium wilfordii Description:RNA extracted from the young leaf of T...
Alternative accession-BioSample:SAMN15331502
Alternative accession-BioProject:PRJNA640746
...
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Displaying 1-7 of 7 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
AlignmentsBAM37.28 GB2021-02-25
AnnotationGFF61.94 MB2021-02-25
AnnotationGFF43.08 MB2021-02-25
AnnotationGFF35.79 MB2021-02-25
Coding sequenceFASTA36.77 MB2021-02-25
protein sequenceFASTA14.07 MB2021-02-25
transcriptomeFASTA24.77 MB2021-02-25
Expression dataCSV6.99 MB2021-02-25
ImagePNG161.44 KB2021-02-28
AlignmentsFASTA111.83 KB2021-02-25
Displaying 1-10 of 19 File(s).
Funding body Awardee Award ID Comments
Chenshan Special Fund for Shanghai Landscaping Administration Bureau Program Zhao Q G182401
Chenshan Special Fund for Shanghai Landscaping Administration Bureau Program Yang J G192413
Chenshan Special Fund for Shanghai Landscaping Administration Bureau Program Zhao Q G192419
Chenshan Special Fund for Shanghai Landscaping Administration Bureau Program Yang J G192414
Chenshan Special Fund for Shanghai Landscaping Administration Bureau Program Yang J G182402
Youth Innovation Promotion Association of the Chinese Academy of Sciences Zhao Q
Youth Innovation Promotion Association of the Chinese Academy of Sciences Yang J
National Natural Science Foundation of China Zhao Q 31700268
National Natural Science Foundation of China Zhao Q 31870282
National Key Research and Development Program of China Zhao Q 2018YFC1706202
National Key Research and Development Program of China Yang J 2019YFD1000703
National Key Research and Development Program of China Yang J 2018YFD1000701
National Key Research and Development Program of China Fan H 2020YFA0907901
SA-SIBS Scholarship Program Zhao Q
Chenshan Special Fund for Shanghai Landscaping Administration Bureau Program Yang J G202402
The Shanghai Youth Talent Support Program Zhao Q
Date Action
February 26, 2021 Dataset publish