The Cycas genome and the early evolution of seed plants
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The Cycas genome and the early evolution of seed plants. / Liu, Yang; Wang, Sibo; Li, Linzhou; Yang, Ting; Dong, Shanshan; Wei, Tong; Wu, Shengdan; Liu, Yongbo; Gong, Yiqing; Feng, Xiuyan; Ma, Jianchao; Chang, Guanxiao; Huang, Jinling; Yang, Yong; Wang, Hongli; Liu, Min; Xu, Yan; Liang, Hongping; Yu, Jin; Cai, Yuqing; Zhang, Zhaowu; Fan, Yannan; Mu, Weixue; Sahu, Sunil Kumar; Liu, Shuchun; Lang, Xiaoan; Yang, Leilei; Li, Na; Habib, Sadaf; Yang, Yongqiong; Lindstrom, Anders J.; Liang, Pei; Goffinet, Bernard; Zaman, Sumaira; Wegrzyn, Jill L.; Li, Dexiang; Liu, Jian; Cui, Jie; Sonnenschein, Eva C.; Wang, Xiaobo; Ruan, Jue; Xue, Jia-Yu; Shao, Zhu-Qing; Song, Chi; Fan, Guangyi; Li, Zhen; Zhang, Liangsheng; Liu, Jianquan; Liu, Zhong-Jian; Jiao, Yuannian; Wang, Xiao-Quan; Wu, Hong; Wang, Ertao; Lisby, Michael; Yang, Huanming; Wang, Jian; Liu, Xin; Xu, Xun; Li, Nan; Soltis, Pamela S.; Van de Peer, Yves; Soltis, Douglas E.; Gong, Xun; Liu, Huan; Zhang, Shouzhou.
In: Nature Plants, Vol. 8, No. 4, 2022, p. 389-401.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - The Cycas genome and the early evolution of seed plants
AU - Liu, Yang
AU - Wang, Sibo
AU - Li, Linzhou
AU - Yang, Ting
AU - Dong, Shanshan
AU - Wei, Tong
AU - Wu, Shengdan
AU - Liu, Yongbo
AU - Gong, Yiqing
AU - Feng, Xiuyan
AU - Ma, Jianchao
AU - Chang, Guanxiao
AU - Huang, Jinling
AU - Yang, Yong
AU - Wang, Hongli
AU - Liu, Min
AU - Xu, Yan
AU - Liang, Hongping
AU - Yu, Jin
AU - Cai, Yuqing
AU - Zhang, Zhaowu
AU - Fan, Yannan
AU - Mu, Weixue
AU - Sahu, Sunil Kumar
AU - Liu, Shuchun
AU - Lang, Xiaoan
AU - Yang, Leilei
AU - Li, Na
AU - Habib, Sadaf
AU - Yang, Yongqiong
AU - Lindstrom, Anders J.
AU - Liang, Pei
AU - Goffinet, Bernard
AU - Zaman, Sumaira
AU - Wegrzyn, Jill L.
AU - Li, Dexiang
AU - Liu, Jian
AU - Cui, Jie
AU - Sonnenschein, Eva C.
AU - Wang, Xiaobo
AU - Ruan, Jue
AU - Xue, Jia-Yu
AU - Shao, Zhu-Qing
AU - Song, Chi
AU - Fan, Guangyi
AU - Li, Zhen
AU - Zhang, Liangsheng
AU - Liu, Jianquan
AU - Liu, Zhong-Jian
AU - Jiao, Yuannian
AU - Wang, Xiao-Quan
AU - Wu, Hong
AU - Wang, Ertao
AU - Lisby, Michael
AU - Yang, Huanming
AU - Wang, Jian
AU - Liu, Xin
AU - Xu, Xun
AU - Li, Nan
AU - Soltis, Pamela S.
AU - Van de Peer, Yves
AU - Soltis, Douglas E.
AU - Gong, Xun
AU - Liu, Huan
AU - Zhang, Shouzhou
N1 - Publisher Copyright: © 2022, The Author(s).
PY - 2022
Y1 - 2022
N2 - Cycads represent one of the most ancient lineages of living seed plants. Identifying genomic features uniquely shared by cycads and other extant seed plants, but not non-seed-producing plants, may shed light on the origin of key innovations, as well as the early diversification of seed plants. Here, we report the 10.5-Gb reference genome of Cycas panzhihuaensis, complemented by the transcriptomes of 339 cycad species. Nuclear and plastid phylogenomic analyses strongly suggest that cycads and Ginkgo form a clade sister to all other living gymnosperms, in contrast to mitochondrial data, which place cycads alone in this position. We found evidence for an ancient whole-genome duplication in the common ancestor of extant gymnosperms. The Cycas genome contains four homologues of the fitD gene family that were likely acquired via horizontal gene transfer from fungi, and these genes confer herbivore resistance in cycads. The male-specific region of the Y chromosome of C. panzhihuaensis contains a MADS-box transcription factor expressed exclusively in male cones that is similar to a system reported in Ginkgo, suggesting that a sex determination mechanism controlled by MADS-box genes may have originated in the common ancestor of cycads and Ginkgo. The C. panzhihuaensis genome provides an important new resource of broad utility for biologists.
AB - Cycads represent one of the most ancient lineages of living seed plants. Identifying genomic features uniquely shared by cycads and other extant seed plants, but not non-seed-producing plants, may shed light on the origin of key innovations, as well as the early diversification of seed plants. Here, we report the 10.5-Gb reference genome of Cycas panzhihuaensis, complemented by the transcriptomes of 339 cycad species. Nuclear and plastid phylogenomic analyses strongly suggest that cycads and Ginkgo form a clade sister to all other living gymnosperms, in contrast to mitochondrial data, which place cycads alone in this position. We found evidence for an ancient whole-genome duplication in the common ancestor of extant gymnosperms. The Cycas genome contains four homologues of the fitD gene family that were likely acquired via horizontal gene transfer from fungi, and these genes confer herbivore resistance in cycads. The male-specific region of the Y chromosome of C. panzhihuaensis contains a MADS-box transcription factor expressed exclusively in male cones that is similar to a system reported in Ginkgo, suggesting that a sex determination mechanism controlled by MADS-box genes may have originated in the common ancestor of cycads and Ginkgo. The C. panzhihuaensis genome provides an important new resource of broad utility for biologists.
U2 - 10.1038/s41477-022-01129-7
DO - 10.1038/s41477-022-01129-7
M3 - Journal article
C2 - 35437001
AN - SCOPUS:85128326850
VL - 8
SP - 389
EP - 401
JO - Nature Plants
JF - Nature Plants
SN - 2055-026X
IS - 4
ER -
ID: 310560133