IB-CAS  > 中科院北方资源植物重点实验室
Weighted Gene Co-expression Network Analysis (WGCNA) Reveals the Hub Role of Protein Ubiquitination in the Acquisition of Desiccation Tolerance in Boea hygrometrica
Lin, Chih-Ta; Xu, Tao; Xing, Shi-Lai; Zhao, Li; Sun, Run-Ze; Liu, Yang1; Moore, John Paul2; Deng, Xin1
2019
Source PublicationPLANT AND CELL PHYSIOLOGY
ISSN0032-0781
Volume60Issue:12Pages:2707-2719
AbstractBoea hygrometrica can survive extreme drought conditions and has been used as a model to study desiccation tolerance. A genome-wide transcriptome analysis of B. hygrometrica showed that the plant can survive rapid air-drying after experiencing a slow soil-drying acclimation phase. In addition, a weighted gene co-expression network analysis was used to study the transcriptomic datasets. A network comprising 22 modules was constructed, and seven modules were found to be significantly related to desiccation response using an enrichment analysis. Protein ubiquitination was observed to be a common process linked to hub genes in all the seven modules. Ubiquitin-modified proteins with diversified functions were identified using immunoprecipitation coupled with mass spectrometry. The lowest level of ubiquitination was noted at the full soil drying priming stage, which coincided the accumulation of dehydration-responsive gene BhLEA2. The highly conserved RY motif (CAT GCA) was identified from the promoters of ubiquitin-related genes that were downregulated in the desiccated samples. An in silico gene expression analysis showed that the negative regulation of ubiquitin-related genes is potentially mediated via a B3 domain-containing transcription repressor VAL1. This study suggests that priming may involve the transcriptional regulation of several major processes, and the transcriptional regulation of genes in protein ubiquitination may play a hub role to deliver acclimation signals to posttranslational level in the acquisition of desiccation tolerance in B. hygrometrica.
KeywordBoea hygrometrica Protein ubiquitination Resurrection plant Transcription repressor VAL1 WGCNA
Subject AreaPlant Sciences ; Cell Biology
DOI10.1093/pcp/pcz160
Indexed BySCI
Language英语
WOS KeywordPLANT-CELL-WALLS ; RESURRECTION PLANT ; TORTULA-RURALIS ; TRANSCRIPTIONAL REPRESSOR ; STRESS ; DEHYDRATION ; EXPRESSION ; LIGASE ; ACCUMULATION ; INVOLVEMENT
WOS Research AreaPlant Sciences ; Cell Biology
WOS IDWOS:000504924100011
PublisherOXFORD UNIV PRESS
Special IssueSI
SubtypeArticle
Publication PlaceOXFORD
EISSN1471-9053
Funding OrganizationNational Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31270312, 31770293, 31470361] ; Chinese Academy of Sciences Taiwan Young Talent Programme [2016TW2SA0001] ; South Africa-China Bilateral Grant ; National Research Foundation (South Africa)National Research Foundation - South Africa [88484] ; Ministry of Science and Technology (China)Ministry of Science and Technology, China [2003-256-9]
Corresponding Author Emaildeng@ibcas.ac.cn
Citation statistics
Cited Times:10[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ibcas.ac.cn/handle/2S10CLM1/19713
Collection中科院北方资源植物重点实验室
Affiliation1.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China
2.Chinese Acad Sci, Inst Bot, Beijing Bot Garden, Beijing 100093, Peoples R China
3.Stellenbosch Univ, Inst Wine Biotechnol, Dept Viticulture & Oenol, ZA-7602 Matieland, South Africa
Recommended Citation
GB/T 7714
Lin, Chih-Ta,Xu, Tao,Xing, Shi-Lai,et al. Weighted Gene Co-expression Network Analysis (WGCNA) Reveals the Hub Role of Protein Ubiquitination in the Acquisition of Desiccation Tolerance in Boea hygrometrica[J]. PLANT AND CELL PHYSIOLOGY,2019,60(12):2707-2719.
APA Lin, Chih-Ta.,Xu, Tao.,Xing, Shi-Lai.,Zhao, Li.,Sun, Run-Ze.,...&Deng, Xin.(2019).Weighted Gene Co-expression Network Analysis (WGCNA) Reveals the Hub Role of Protein Ubiquitination in the Acquisition of Desiccation Tolerance in Boea hygrometrica.PLANT AND CELL PHYSIOLOGY,60(12),2707-2719.
MLA Lin, Chih-Ta,et al."Weighted Gene Co-expression Network Analysis (WGCNA) Reveals the Hub Role of Protein Ubiquitination in the Acquisition of Desiccation Tolerance in Boea hygrometrica".PLANT AND CELL PHYSIOLOGY 60.12(2019):2707-2719.
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