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
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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