Coexpression network revealing the plasticity and robustness of population transcriptome during the initial stage of domesticating energy crop Miscanthus lutarioriparius

doi:10.1007/s11103-018-0754-5

	Coexpression network revealing the plasticity and robustness of population transcriptome during the initial stage of domesticating energy crop Miscanthus lutarioriparius
	Xing, Shilai 4; Tao, Chengcheng 1,2,4; Song, Zhihong 1,2,4; Liu, Wei 1,2; Yan, Juan 3; Kang, Lifang 1,2; Lin, Cong 1,2; Sang, Tao1,2
	2018
Source Publication	PLANT MOLECULAR BIOLOGY
ISSN	0167-4412
Volume	97 Issue:6 Pages:489-506
Abstract	Coexpression network revealing genes with Co-variation Expression pattern (CE) and those with Top rank of Expression fold change (TE) played different roles in responding to new environment of Miscanthus lutarioriparius. Variation in gene expression level, the product of genetic and/or environmental perturbation, determines the robustness-to-plasticity spectrum of a phenotype in plants. Understanding how expression variation of plant population response to a new field is crucial to domesticate energy crops. Weighted Gene Coexpression Network Analysis (WGCNA) was used to explore the patterns of expression variation based on 72 Miscanthus lutarioriparius transcriptomes from two contrasting environments, one near the native habitat and the other in one harsh domesticating region. The 932 genes with Co-variation Expression pattern (CE) and other 932 genes with Top rank of Expression fold change (TE) were identified and the former were strongly associated with the water use efficiency (r ae 0.55, P ae 10(-7)). Functional enrichment of CE genes were related to three organelles, which well matched the annotation of twelve motifs identified from their conserved noncoding sequence; while TE genes were mostly related to biotic and/or abiotic stress. The expression robustness of CE genes with high genetic diversity kept relatively stable between environments while the harsh environment reduced the expression robustness of TE genes with low genetic diversity. The expression plasticity of CE genes was increased less than that of TE genes. These results suggested that expression variation of CE genes and TE genes could account for the robustness and plasticity of acclimation ability of Miscanthus, respectively. The patterns of expression variation revealed by transcriptomic network would shed new light on breeding and domestication of energy crops.
Keyword	Miscanthus lutarioriparius Gene coexpression network Expression variation Genetic diversity Acclimation
Subject Area	Biochemistry & Molecular Biology ; Plant Sciences
DOI	10.1007/s11103-018-0754-5
Indexed By	SCI
Language	英语
WOS Keyword	WATER-USE EFFICIENCY ; GENE-EXPRESSION ; CANDIDATE GENES ; LOESS PLATEAU ; ARABIDOPSIS ; MAIZE ; THALIANA ; TOLERANCE ; EVOLUTION ; SELECTION
WOS ID	WOS:000442456800002
Publisher	SPRINGER
Subtype	Article
Publication Place	DORDRECHT
EISSN	1573-5028
Funding Organization	National Key Research and Development Program of China [2016YFC0500905] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31000147, 31400284] ; Project for Autonomous Deployment of the Wuhan Botanical Garden [55Y755271G02] ; Science and Technology Service Network Initiative of the Chinese Academy of Sciences [KFJ-EW-STS-061]
Corresponding Author Email	sang@ibcas.ac.cn
Citation statistics	Cited Times:2[WOS] [WOS Record] [Related Records in WOS]
Document Type	期刊论文
Identifier	http://ir.ibcas.ac.cn/handle/2S10CLM1/20511
Collection	系统与进化植物学国家重点实验室
Affiliation	1.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China 2.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China 3.Chinese Acad Sci, Inst Bot, Beijing Bot Garden, Beijing 100093, Peoples R China 4.Chinese Acad Sci, Wuhan Bot Garden, Key Lab Plant Germplasm Enhancement & Specialty A, Wuhan 430074, Hubei, Peoples R China 5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
Recommended Citation GB/T 7714	Xing, Shilai,Tao, Chengcheng,Song, Zhihong,et al. Coexpression network revealing the plasticity and robustness of population transcriptome during the initial stage of domesticating energy crop Miscanthus lutarioriparius[J]. PLANT MOLECULAR BIOLOGY,2018,97(6):489-506.
APA	Xing, Shilai.,Tao, Chengcheng.,Song, Zhihong.,Liu, Wei.,Yan, Juan.,...&Sang, Tao.(2018).Coexpression network revealing the plasticity and robustness of population transcriptome during the initial stage of domesticating energy crop Miscanthus lutarioriparius.PLANT MOLECULAR BIOLOGY,97(6),489-506.
MLA	Xing, Shilai,et al."Coexpression network revealing the plasticity and robustness of population transcriptome during the initial stage of domesticating energy crop Miscanthus lutarioriparius".PLANT MOLECULAR BIOLOGY 97.6(2018):489-506.

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