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| 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
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| 2019 | |
| Source Publication | PLANT AND CELL PHYSIOLOGY
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| ISSN | 0032-0781 |
| Volume | 60Issue:12Pages:2707-2719 |
| Abstract | Boea 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. |
| Keyword | Boea hygrometrica Protein ubiquitination Resurrection plant Transcription repressor VAL1 WGCNA |
| Subject Area | Plant Sciences ; Cell Biology |
| DOI | 10.1093/pcp/pcz160 |
| Indexed By | SCI |
| Language | 英语 |
| WOS Keyword | PLANT-CELL-WALLS ; RESURRECTION PLANT ; TORTULA-RURALIS ; TRANSCRIPTIONAL REPRESSOR ; STRESS ; DEHYDRATION ; EXPRESSION ; LIGASE ; ACCUMULATION ; INVOLVEMENT |
| WOS Research Area | Plant Sciences ; Cell Biology |
| WOS ID | WOS:000504924100011 |
| Publisher | OXFORD UNIV PRESS |
| Special Issue | SI |
| Subtype | Article |
| Publication Place | OXFORD |
| EISSN | 1471-9053 |
| Funding Organization | National 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 Email | deng@ibcas.ac.cn |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.ibcas.ac.cn/handle/2S10CLM1/19713 |
| Collection | 中科院北方资源植物重点实验室 |
| Affiliation | 1.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. |
| Files in This Item: | ||||||
| File Name/Size | DocType | Version | Access | License | ||
| Lin-2019-Weighted Ge（1423KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Application Full Text | |
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