Concomitant loss of NDH complex-related genes within chloroplast and nuclear genomes in some orchids

doi:10.1109/JSTARS.2017.2711482

	Concomitant loss of NDH complex-related genes within chloroplast and nuclear genomes in some orchids
	Lin, Choun-Sea ; Chen, Jeremy J. W.; Chiu, Chi-Chou ; Hsiao, Han C. W.; Yang, Chen-Jui ; Jin, Xiao-Hua; Leebens-Mack, James ; de Pamphilis, Claude W.; Huang, Yao-Ting ; Yang, Ling-Hung ; Chang, Wan-Jung ; Kui, Ling 9; Wong, Gane Ka-Shu ; Hu, Jer-Ming ; Wang, Wen 8; Shih, Ming-Che
	2017
发表期刊	PLANT JOURNAL
ISSN	0960-7412
卷号	90 期号:5 页码:994-1006
摘要	The chloroplast NAD(P)H dehydrogenase-like (NDH) complex consists of about 30 subunits from both the nuclear and chloroplast genomes and is ubiquitous across most land plants. In some orchids, such as Phalaenopsis equestris, Dendrobium officinale and Dendrobium catenatum, most of the 11 chloroplast genomeencoded ndh genes (cp-ndh) have been lost. Here we investigated whether functional cp-ndh genes have been completely lost in these orchids or whether they have been transferred and retained in the nuclear genome. Further, we assessed whether both cp-ndh genes and nucleus-encoded NDH-related genes can be lost, resulting in the absence of the NDH complex. Comparative analyses of the genome of Apostasia odor-ata, an orchid species with a complete complement of cp-ndh genes which represents the sister lineage to all other orchids, and three published orchid genome sequences for P. equestris, D. officinale and D. catenatum, which are all missing cp-ndh genes, indicated that copies of cp-ndh genes are not present in any of these four nuclear genomes. This observation suggests that the NDH complex is not necessary for some plants. Comparative genomic/transcriptomic analyses of currently available plastid genome sequences and nuclear transcriptome data showed that 47 out of 660 photoautotrophic plants and all the heterotrophic plants are missing plastid-encoded cp-ndh genes and exhibit no evidence for maintenance of a functional NDH complex. Our data indicate that the NDH complex can be lost in photoautotrophic plant species. Further, the loss of the NDH complex may increase the probability of transition from a photoautotrophic to a heterotrophic life history.
关键词	NDH complex orchid Apostasia odorata gene loss photoautotrophic plant
学科领域	Engineering ; Physical Geography ; Remote Sensing ; Imaging Science & Photographic Technology
DOI	10.1109/JSTARS.2017.2711482
收录类别	SCI
语种	英语
WOS关键词	CYCLIC ELECTRON FLOW ; PHOTOSYSTEM-I ; NAD(P)H DEHYDROGENASE ; PLASTID GENOMES ; SUPERCOMPLEX FORMATION ; DENDROBIUM-OFFICINALE ; PROVIDES INSIGHTS ; EVOLUTIONARY RATE ; PHOTOSYNTHESIS ; SEQUENCE
WOS记录号	WOS:000412626400034
出版者	WILEY
文献子类	Article
出版地	HOBOKEN
EISSN	1365-313X
资助机构	Agricultural Biotechnology Research Center, Academia Sinica of Taiwan ; Ministry of Science and Technology, TaiwanMinistry of Science and Technology, Taiwan [MOST 104-2311-B-006-001] ; Direct For Biological SciencesNational Science Foundation (NSF)NSF - Directorate for Biological Sciences (BIO) [0922742, 1442199] Funding Source: National Science Foundation
作者邮箱	cslin99@gate.sinica.edu.tw
作品OA属性	hybrid
引用统计	被引频次：82[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/22267
专题	系统与进化植物学国家重点实验室
作者单位	1.Acad Sinica, Agr Biotechnol Res Ctr, Taipei, Taiwan 2.Chen, Jeremy J. W.] Natl Chung Hsing Univ, Inst Biomed Sci, Taichung, Taiwan 3.Natl Cheng Kung Univ, Inst Trop Plant Sci, Tainan, Taiwan 4.Hsiao, Han C. W.] Asia Univ, Dept Bioinformat & Med Engn, Taichung, Taiwan 5.Natl Taiwan Univ, Inst Ecol & Evolutionary Biol, Taipei, Taiwan 6.Chinese Acad Sci, Inst Bot, Beijing, Peoples R China 7.Univ Georgia, Dept Plant Biol, Athens, GA 30602 USA 8.de Pamphilis, Claude W.] Penn State Univ, Dept Biol, State Coll, PA USA 9.Natl Chung Cheng Univ, Dept Comp Sci & Informat Engn, Chiayi, Taiwan 10.Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming, Peoples R China 11.Univ Alberta, Dept Biol Sci, Edmonton, AB, Canada
推荐引用方式 GB/T 7714	Lin, Choun-Sea,Chen, Jeremy J. W.,Chiu, Chi-Chou,et al. Concomitant loss of NDH complex-related genes within chloroplast and nuclear genomes in some orchids[J]. PLANT JOURNAL,2017,90(5):994-1006.
APA	Lin, Choun-Sea.,Chen, Jeremy J. W..,Chiu, Chi-Chou.,Hsiao, Han C. W..,Yang, Chen-Jui.,...&Shih, Ming-Che.(2017).Concomitant loss of NDH complex-related genes within chloroplast and nuclear genomes in some orchids.PLANT JOURNAL,90(5),994-1006.
MLA	Lin, Choun-Sea,et al."Concomitant loss of NDH complex-related genes within chloroplast and nuclear genomes in some orchids".PLANT JOURNAL 90.5(2017):994-1006.

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