The Apostasia genome and the evolution of orchids (2024)

Zhang, G. Q., Liu, K. W., Li, Z., Lohaus, R., Hsiao, Y. Y., Niu, S. C., Wang, J. Y., Lin, Y. C., Xu, Q., Chen, L. J., Yoshida, K., Fujiwara, S., Wang, Z. W., Zhang, Y. Q., Mitsuda, N., Wang, M., Liu, G. H., Pecoraro, L., Huang, H. X., ... Liu, Z. J. (2017). The Apostasia genome and the evolution of orchids. Nature, 549(7672), 379-383. https://doi.org/10.1038/nature23897

Zhang, Guo Qiang ; Liu, Ke Wei ; Li, Zhen et al. / The Apostasia genome and the evolution of orchids. In: Nature. 2017 ; Vol. 549, No. 7672. pp. 379-383.

@article{2c0e3c971c1144cda1cde44006c8c1e9,

title = "The Apostasia genome and the evolution of orchids",

abstract = "Constituting approximately 10% of flowering plant species, orchids (Orchidaceae) display unique flower morphologies, possess an extraordinary diversity in lifestyle, and have successfully colonized almost every habitat on Earth. Here we report the draft genome sequence of Apostasia shenzhenica, a representative of one of two genera that form a sister lineage to the rest of the Orchidaceae, providing a reference for inferring the genome content and structure of the most recent common ancestor of all extant orchids and improving our understanding of their origins and evolution. In addition, we present transcriptome data for representatives of Vanilloideae, Cypripedioideae and Orchidoideae, and novel third-generation genome data for two species of Epidendroideae, covering all five orchid subfamilies. A. shenzhenica shows clear evidence of a whole-genome duplication, which is shared by all orchids and occurred shortly before their divergence. Comparisons between A. shenzhenica and other orchids and angiosperms also permitted the reconstruction of an ancestral orchid gene toolkit. We identify new gene families, gene family expansions and contractions, and changes within MADS-box gene classes, which control a diverse suite of developmental processes, during orchid evolution. This study sheds new light on the genetic mechanisms underpinning key orchid innovations, including the development of the labellum and gynostemium, pollinia, and seeds without endosperm, as well as the evolution of epiphytism; reveals relationships between the Orchidaceae subfamilies; and helps clarify the evolutionary history of orchids within the angiosperms.",

author = "Zhang, {Guo Qiang} and Liu, {Ke Wei} and Zhen Li and Rolf Lohaus and Hsiao, {Yu Yun} and Niu, {Shan Ce} and Wang, {Jie Yu} and Lin, {Yao Cheng} and Qing Xu and Chen, {Li Jun} and Kouki Yoshida and Sumire Fujiwara and Wang, {Zhi Wen} and Zhang, {Yong Qiang} and Nobutaka Mitsuda and Meina Wang and Liu, {Guo Hui} and Lorenzo Pecoraro and Huang, {Hui Xia} and Xiao, {Xin Ju} and Min Lin and Wu, {Xin Yi} and Wu, {Wan Lin} and Chen, {You Yi} and Chang, {Song Bin} and Shingo Sakamoto and Masaru Ohme-Takagi and Masafumi Yagi and Zeng, {Si Jin} and Shen, {Ching Yu} and Yeh, {Chuan Ming} and Luo, {Yi Bo} and Tsai, {Wen Chieh} and {Van De Peer}, Yves and Liu, {Zhong Jian}",

note = "Publisher Copyright: {\textcopyright} 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved.",

year = "2017",

month = sep,

day = "21",

doi = "10.1038/nature23897",

language = "English",

volume = "549",

pages = "379--383",

journal = "Nature",

issn = "0028-0836",

publisher = "Nature Publishing Group",

number = "7672",

}

Zhang, GQ, Liu, KW, Li, Z, Lohaus, R, Hsiao, YY, Niu, SC, Wang, JY, Lin, YC, Xu, Q, Chen, LJ, Yoshida, K, Fujiwara, S, Wang, ZW, Zhang, YQ, Mitsuda, N, Wang, M, Liu, GH, Pecoraro, L, Huang, HX, Xiao, XJ, Lin, M, Wu, XY, Wu, WL, Chen, YY, Chang, SB, Sakamoto, S, Ohme-Takagi, M, Yagi, M, Zeng, SJ, Shen, CY, Yeh, CM, Luo, YB, Tsai, WC, Van De Peer, Y & Liu, ZJ 2017, 'The Apostasia genome and the evolution of orchids', Nature, vol. 549, no. 7672, pp. 379-383. https://doi.org/10.1038/nature23897

The Apostasia genome and the evolution of orchids. / Zhang, Guo Qiang; Liu, Ke Wei; Li, Zhen et al.
In: Nature, Vol. 549, No. 7672, 21.09.2017, p. 379-383.

Research output: Contribution to journal › Article › peer-review

TY - JOUR

T1 - The Apostasia genome and the evolution of orchids

AU - Zhang, Guo Qiang

AU - Liu, Ke Wei

AU - Li, Zhen

AU - Lohaus, Rolf

AU - Hsiao, Yu Yun

AU - Niu, Shan Ce

AU - Wang, Jie Yu

AU - Lin, Yao Cheng

AU - Xu, Qing

AU - Chen, Li Jun

AU - Yoshida, Kouki

AU - Fujiwara, Sumire

AU - Wang, Zhi Wen

AU - Zhang, Yong Qiang

AU - Mitsuda, Nobutaka

AU - Wang, Meina

AU - Liu, Guo Hui

AU - Pecoraro, Lorenzo

AU - Huang, Hui Xia

AU - Xiao, Xin Ju

AU - Lin, Min

AU - Wu, Xin Yi

AU - Wu, Wan Lin

AU - Chen, You Yi

AU - Chang, Song Bin

AU - Sakamoto, Shingo

AU - Ohme-Takagi, Masaru

AU - Yagi, Masafumi

AU - Zeng, Si Jin

AU - Shen, Ching Yu

AU - Yeh, Chuan Ming

AU - Luo, Yi Bo

AU - Tsai, Wen Chieh

AU - Van De Peer, Yves

AU - Liu, Zhong Jian

N1 - Publisher Copyright:© 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved.

PY - 2017/9/21

Y1 - 2017/9/21

N2 - Constituting approximately 10% of flowering plant species, orchids (Orchidaceae) display unique flower morphologies, possess an extraordinary diversity in lifestyle, and have successfully colonized almost every habitat on Earth. Here we report the draft genome sequence of Apostasia shenzhenica, a representative of one of two genera that form a sister lineage to the rest of the Orchidaceae, providing a reference for inferring the genome content and structure of the most recent common ancestor of all extant orchids and improving our understanding of their origins and evolution. In addition, we present transcriptome data for representatives of Vanilloideae, Cypripedioideae and Orchidoideae, and novel third-generation genome data for two species of Epidendroideae, covering all five orchid subfamilies. A. shenzhenica shows clear evidence of a whole-genome duplication, which is shared by all orchids and occurred shortly before their divergence. Comparisons between A. shenzhenica and other orchids and angiosperms also permitted the reconstruction of an ancestral orchid gene toolkit. We identify new gene families, gene family expansions and contractions, and changes within MADS-box gene classes, which control a diverse suite of developmental processes, during orchid evolution. This study sheds new light on the genetic mechanisms underpinning key orchid innovations, including the development of the labellum and gynostemium, pollinia, and seeds without endosperm, as well as the evolution of epiphytism; reveals relationships between the Orchidaceae subfamilies; and helps clarify the evolutionary history of orchids within the angiosperms.

AB - Constituting approximately 10% of flowering plant species, orchids (Orchidaceae) display unique flower morphologies, possess an extraordinary diversity in lifestyle, and have successfully colonized almost every habitat on Earth. Here we report the draft genome sequence of Apostasia shenzhenica, a representative of one of two genera that form a sister lineage to the rest of the Orchidaceae, providing a reference for inferring the genome content and structure of the most recent common ancestor of all extant orchids and improving our understanding of their origins and evolution. In addition, we present transcriptome data for representatives of Vanilloideae, Cypripedioideae and Orchidoideae, and novel third-generation genome data for two species of Epidendroideae, covering all five orchid subfamilies. A. shenzhenica shows clear evidence of a whole-genome duplication, which is shared by all orchids and occurred shortly before their divergence. Comparisons between A. shenzhenica and other orchids and angiosperms also permitted the reconstruction of an ancestral orchid gene toolkit. We identify new gene families, gene family expansions and contractions, and changes within MADS-box gene classes, which control a diverse suite of developmental processes, during orchid evolution. This study sheds new light on the genetic mechanisms underpinning key orchid innovations, including the development of the labellum and gynostemium, pollinia, and seeds without endosperm, as well as the evolution of epiphytism; reveals relationships between the Orchidaceae subfamilies; and helps clarify the evolutionary history of orchids within the angiosperms.

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U2 - 10.1038/nature23897

DO - 10.1038/nature23897

M3 - Article

C2 - 28902843

AN - SCOPUS:85029795485

SN - 0028-0836

VL - 549

SP - 379

EP - 383

JO - Nature

JF - Nature

IS - 7672

ER -

Zhang GQ, Liu KW, Li Z, Lohaus R, Hsiao YY, Niu SC et al. The Apostasia genome and the evolution of orchids. Nature. 2017 Sept 21;549(7672):379-383. doi: 10.1038/nature23897