High-quality Cymbidium mannii genome and multifaceted regulation of crassulacean acid metabolism in epiphytes

doi:10.1016/j.xplc.2023.100564

KIB OpenIR

	High-quality Cymbidium mannii genome and multifaceted regulation of crassulacean acid metabolism in epiphytes
	Fan,Weishu; He,Zheng-Shan; Zhe,Mengqing; Feng,Jing-Qiu; Zhang,Le; Huang,Yiwei; Liu,Fang; Huang,Jia-Lin; Ya,Ji-Dong; Zhang,Shi-Bao; Yang,Jun-Bo; Zhu,Andan; Li,De-Zhu
	2023
Source Publication	PLANT COMMUNICATIONS
Volume	4 Issue:5 Pages:100564
Abstract	Epiphytes with crassulacean acid metabolism (CAM) photosynthesis are widespread among vascular plants, and repeated evolution of CAM photosynthesis is a key innovation for micro-ecosystem adaptation. However, we lack a complete understanding of the molecular regulation of CAM photosynthesis in epiphytes. Here, we report a high-quality chromosome-level genome assembly of a CAM epiphyte, Cymbidium mannii (Orchidaceae). The 2.88-Gb orchid genome with a contig N50 of 22.7 Mb and 27 192 annotated genes was organized into 20 pseudochromosomes, 82.8% of which consisted of repetitive elements. Recent expansions of long terminal repeat retrotransposon families have made a major contribution to the evolution of genome size in Cymbidium orchids. We reveal a holistic scenario of molecular regulation of metabolic physiology using high-resolution transcriptomics, proteomics, and metabolomics data collected across a CAM diel cycle. Patterns of rhythmically oscillating metabolites, especially CAM-related products, reveal circadian rhythmicity in metabolite accumulation in epiphytes. Genomewide analysis of transcript and protein level regulation revealed phase shifts during the multifaceted regulation of circadian metabolism. Notably, we observed diurnal expression of several core CAM genes (especially bCA and PPC) that may be involved in temporal fixation of carbon sources. Our study provides a valuable resource for investigating post-transcription and translation scenarios in C. mannii, an Orchidaceae model for understanding the evolution of innovative traits in epiphytes.
Keyword	epiphytes CAM photosynthesis multi-omics phase shifts rhythmic metabolites MASS-SPECTROMETRY PHYLOGENETIC ANALYSIS WIDE PREDICTION EVOLUTION CAM SEQUENCE ANNOTATION ALIGNMENT PATHWAYS ORCHIDS
DOI	10.1016/j.xplc.2023.100564
Indexed By	SCI
WOS ID	WOS:001079019200001
Citation statistics
Document Type	期刊论文
Identifier	http://ir.kib.ac.cn/handle/151853/75383
Collection	中国科学院昆明植物研究所
Recommended Citation GB/T 7714	Fan,Weishu,He,Zheng-Shan,Zhe,Mengqing,et al. High-quality Cymbidium mannii genome and multifaceted regulation of crassulacean acid metabolism in epiphytes[J]. PLANT COMMUNICATIONS,2023,4(5):100564.
APA	Fan,Weishu.,He,Zheng-Shan.,Zhe,Mengqing.,Feng,Jing-Qiu.,Zhang,Le.,...&Li,De-Zhu.(2023).High-quality Cymbidium mannii genome and multifaceted regulation of crassulacean acid metabolism in epiphytes.PLANT COMMUNICATIONS,4(5),100564.
MLA	Fan,Weishu,et al."High-quality Cymbidium mannii genome and multifaceted regulation of crassulacean acid metabolism in epiphytes".PLANT COMMUNICATIONS 4.5(2023):100564.

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