The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway

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The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway. / Fan, Yannan; Sahu, Sunil Kumar; Yang, Ting; Mu, Weixue; Wei, Jinpu; Cheng, Le; Yang, Jinlong; Liu, Jie; Zhao, Yuxian; Lisby, Michael; Liu, Huan.

In: Genomics, Vol. 113, No. 6, 2021, p. 3696-3704.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Fan, Y, Sahu, SK, Yang, T, Mu, W, Wei, J, Cheng, L, Yang, J, Liu, J, Zhao, Y, Lisby, M & Liu, H 2021, 'The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway', Genomics, vol. 113, no. 6, pp. 3696-3704. https://doi.org/10.1016/j.ygeno.2021.09.007

APA

Fan, Y., Sahu, S. K., Yang, T., Mu, W., Wei, J., Cheng, L., Yang, J., Liu, J., Zhao, Y., Lisby, M., & Liu, H. (2021). The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway. Genomics, 113(6), 3696-3704. https://doi.org/10.1016/j.ygeno.2021.09.007

Vancouver

Fan Y, Sahu SK, Yang T, Mu W, Wei J, Cheng L et al. The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway. Genomics. 2021;113(6):3696-3704. https://doi.org/10.1016/j.ygeno.2021.09.007

Author

Fan, Yannan ; Sahu, Sunil Kumar ; Yang, Ting ; Mu, Weixue ; Wei, Jinpu ; Cheng, Le ; Yang, Jinlong ; Liu, Jie ; Zhao, Yuxian ; Lisby, Michael ; Liu, Huan. / The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway. In: Genomics. 2021 ; Vol. 113, No. 6. pp. 3696-3704.

Bibtex

@article{fb822e11a4ea498e80212bd424c57da9,
title = "The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway",
abstract = "Clausena lansium (Lour.) Skeels (Rutaceae), recognized as wampee, is a widely distributed fruit tree which is utilized as a folk-medicine for treatment of several common diseases. However, the genomic information about this medicinally important species is still lacking. Therefore, we assembled the first genome of Clausena genus with a total length of 310.51 Mb and scaffold N50 of 2.24 Mb by using 10× Genomics technology. Further annotation revealed a total of 34,419 protein-coding genes, while repetitive elements covered 39.08% (121.36 Mb) of the genome. The Clausena and Citrus genus were found to diverge around 22 MYA, and also shared an ancient whole-genome triplication event with Vitis. Furthermore, multi-tissue transcriptomic analysis enabled the identification of genes involved in the synthesis of carbazole alkaloids. Altogether, these findings provided new insights into the genome evolution of Wampee species and highlighted the possible role of key genes involved in the carbazole alkaloids biosynthetic pathway.",
keywords = "Carbazole alkaloids, Clausena, Evolution, Genome assembly, Wampee",
author = "Yannan Fan and Sahu, {Sunil Kumar} and Ting Yang and Weixue Mu and Jinpu Wei and Le Cheng and Jinlong Yang and Jie Liu and Yuxian Zhao and Michael Lisby and Huan Liu",
note = "Publisher Copyright: {\textcopyright} 2021",
year = "2021",
doi = "10.1016/j.ygeno.2021.09.007",
language = "English",
volume = "113",
pages = "3696--3704",
journal = "Genomics",
issn = "0888-7543",
publisher = "Academic Press",
number = "6",

}

RIS

TY - JOUR

T1 - The Clausena lansium (Wampee) genome reveal new insights into the carbazole alkaloids biosynthesis pathway

AU - Fan, Yannan

AU - Sahu, Sunil Kumar

AU - Yang, Ting

AU - Mu, Weixue

AU - Wei, Jinpu

AU - Cheng, Le

AU - Yang, Jinlong

AU - Liu, Jie

AU - Zhao, Yuxian

AU - Lisby, Michael

AU - Liu, Huan

N1 - Publisher Copyright: © 2021

PY - 2021

Y1 - 2021

N2 - Clausena lansium (Lour.) Skeels (Rutaceae), recognized as wampee, is a widely distributed fruit tree which is utilized as a folk-medicine for treatment of several common diseases. However, the genomic information about this medicinally important species is still lacking. Therefore, we assembled the first genome of Clausena genus with a total length of 310.51 Mb and scaffold N50 of 2.24 Mb by using 10× Genomics technology. Further annotation revealed a total of 34,419 protein-coding genes, while repetitive elements covered 39.08% (121.36 Mb) of the genome. The Clausena and Citrus genus were found to diverge around 22 MYA, and also shared an ancient whole-genome triplication event with Vitis. Furthermore, multi-tissue transcriptomic analysis enabled the identification of genes involved in the synthesis of carbazole alkaloids. Altogether, these findings provided new insights into the genome evolution of Wampee species and highlighted the possible role of key genes involved in the carbazole alkaloids biosynthetic pathway.

AB - Clausena lansium (Lour.) Skeels (Rutaceae), recognized as wampee, is a widely distributed fruit tree which is utilized as a folk-medicine for treatment of several common diseases. However, the genomic information about this medicinally important species is still lacking. Therefore, we assembled the first genome of Clausena genus with a total length of 310.51 Mb and scaffold N50 of 2.24 Mb by using 10× Genomics technology. Further annotation revealed a total of 34,419 protein-coding genes, while repetitive elements covered 39.08% (121.36 Mb) of the genome. The Clausena and Citrus genus were found to diverge around 22 MYA, and also shared an ancient whole-genome triplication event with Vitis. Furthermore, multi-tissue transcriptomic analysis enabled the identification of genes involved in the synthesis of carbazole alkaloids. Altogether, these findings provided new insights into the genome evolution of Wampee species and highlighted the possible role of key genes involved in the carbazole alkaloids biosynthetic pathway.

KW - Carbazole alkaloids

KW - Clausena

KW - Evolution

KW - Genome assembly

KW - Wampee

U2 - 10.1016/j.ygeno.2021.09.007

DO - 10.1016/j.ygeno.2021.09.007

M3 - Journal article

C2 - 34520805

AN - SCOPUS:85114940052

VL - 113

SP - 3696

EP - 3704

JO - Genomics

JF - Genomics

SN - 0888-7543

IS - 6

ER -

ID: 281646037