1
|
Ma J, Yang L, Dang Y, Shahzad K, Song J, Jia B, Wang L, Feng J, Wang N, Pei W, Wu M, Zhang X, Zhang J, Wu J, Yu J. Deciphering the dynamic expression network of fiber elongation and the functional role of the GhTUB5 gene for fiber length in cotton based on an introgression population of upland cotton. J Adv Res 2024:S2090-1232(24)00324-2. [PMID: 39106927 DOI: 10.1016/j.jare.2024.08.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2024] [Revised: 07/02/2024] [Accepted: 08/02/2024] [Indexed: 08/09/2024] Open
Abstract
INTRODUCTION Interspecific introgression between Gossypium hirsutum and G. barbadense allows breeding cotton with outstanding fiber length (FL). However, the dynamic gene regulatory network of FL-related genes has not been characterized, and the functional mechanism through which the hub gene GhTUB5 mediates fiber elongation has yet to be determined. METHODS Coexpression analyses of 277 developing fiber transcriptomes integrated with QTL mapping using 250 introgression lines of different FL phenotypes were conducted to identify genes related to fiber elongation. The function of GhTUB5 was determined by ectopic expression of two TUB5 alleles in Arabidopsis and knockout of GhTUB5 in upland cotton. Yeast two-hybrid, split-luciferase and pull-down assays were conducted to screen for interacting proteins, and upstream genes were identified by yeast one-hybrid, dual-LUC and electrophoretic mobility shift assays. RESULTS The 32,612, 30,837 and 30,277 genes expressed at 5, 10 and 15 days postanthesis (dpa) were grouped into 19 distinct coexpression modules, and 988 genes in the MEblack module were enriched in the cell wall process and exhibited significant associations with FL. A total of 20 FL-QTLs were identified, each explaining 3.34-16.04 % of the phenotypic variance in the FL. Furthermore, several FL-QTLs contained 15 genes that were differentially expressed in the MEblack module including the tubulin beta gene (TUB5). Compared with the wild type, the overexpression of GhTUB5 and GbTUB5 in Arabidopsis suppressed root cell length but promoted cellulose synthesis. Knockout of GhTUB5 resulted in longer fiber lines. Protein-based experiments revealed that GhTUB5 interacts with GhZFP6. Additionally, GhTUB5 was directly activated by GhHD-ZIP7, a homeobox-leucine zipper transcription factor, and its paralogous gene was previously reported to mediate fiber elongation. CONCLUSION This study opens a new avenue to dissect functional mechanism of cotton fiber elongation. Our findings provide some molecular details on how GhTUB5 mediates the FL phenotype in cotton.
Collapse
Affiliation(s)
- Jianjiang Ma
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, China
| | - Liupeng Yang
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China
| | - Yuanyue Dang
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Engineering Research Centre of Cotton of Ministry of Education, College of Agriculture, Xinjiang Agricultural University, Urumqi, China
| | - Kashif Shahzad
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China
| | - Jikun Song
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China
| | - Bing Jia
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China
| | - Li Wang
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, China
| | - Juanjuan Feng
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China
| | - Nuohan Wang
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang, China
| | - Wenfeng Pei
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, China
| | - Man Wu
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, China
| | - Xuexian Zhang
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China
| | - Jinfa Zhang
- Department of Plant and Environmental Sciences, New Mexico State University, Las Cruces, USA.
| | - Jianyong Wu
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, China.
| | - Jiwen Yu
- State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research of the Chinese Academy of Agricultural Sciences, Anyang, China; Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou, China; Engineering Research Centre of Cotton of Ministry of Education, College of Agriculture, Xinjiang Agricultural University, Urumqi, China.
| |
Collapse
|
2
|
Chai G, Liu H, Zhang Y, Wang C, Xu H, He G, Meng J, Tang X, Wang D, Zhou G. Integration of C3H15-mediated transcriptional and post-transcriptional regulation confers plant thermotolerance in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024. [PMID: 38865085 DOI: 10.1111/tpj.16877] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 04/23/2024] [Accepted: 05/25/2024] [Indexed: 06/13/2024]
Abstract
Heat stress is an environmental factor that significantly threatens crop production worldwide. Nevertheless, the molecular mechanisms governing plant responses to heat stress are not fully understood. Plant zinc finger CCCH proteins have roles in stress responses as well as growth and development through protein-RNA, protein-DNA, and protein-protein interactions. Here, we reveal an integrated multi-level regulation of plant thermotolerance that is mediated by the CCCH protein C3H15 in Arabidopsis. Heat stress rapidly suppressed C3H15 transcription, which attenuated C3H15-inhibited expression of its target gene HEAT SHOCK TRANSCRIPTION FACTOR A2 (HSFA2), a central regulator of heat stress response (HSR), thereby activating HEAT SHOCK COGNATE 70 (HSC70.3) expression. The RING-type E3 ligase MED25-BINDING RING-H2 PROTEIN 2 (MBR2) was identified as an interacting partner of C3H15. The mbr2 mutant was susceptible to heat stress compared to wild-type plants, whereas plants overexpressing MBR2 showed increased heat tolerance. MBR2-dependent ubiquitination mediated the degradation of phosphorylated C3H15 protein in the cytoplasm, which was enhanced by heat stress. Consistently, heat sensitivities of C3H15 overexpression lines increased in MBR2 loss-of-function and decreased in MBR2 overexpression backgrounds. Heat stress-induced accumulation of HSC70.3 promoted MBR2-mediated degradation of C3H15 protein, implying that an auto-regulatory loop involving C3H15, HSFA2, and HSC70.3 regulates HSR. Heat stress also led to the accumulation of C3H15 in stress granules (SGs), a kind of cytoplasmic RNA granule. This study advances our understanding of the mechanisms plants use to respond to heat stress, which will facilitate technologies to improve thermotolerance in crops.
Collapse
Affiliation(s)
- Guohua Chai
- College of Resources and Environment, Qingdao Agricultural University, Qingdao, Shandong, 266109, China
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Academy of Dongying Efficient Agricultural Technology and Industry on Saline and Alkaline Land in Collaboration with Qingdao Agricultural University, Dongying, 257000, China
| | - Huanhuan Liu
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Key Laboratory for Bio-Resource and Eco-Environment of Ministry of Education & Sichuan Zoige Alpine Wetland Ecosystem National Observation and Research Station, College of Life Science, Sichuan University, Chengdu, 610065, China
| | - Yang Zhang
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Tianjin Normal University, Tianjin, 300387, China
| | - Congpeng Wang
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Academy of Dongying Efficient Agricultural Technology and Industry on Saline and Alkaline Land in Collaboration with Qingdao Agricultural University, Dongying, 257000, China
- College of Landscape Architecture and Forestry, Qingdao Agricultural University, Qingdao, 266109, China
| | - Hua Xu
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
| | - Guo He
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
| | - Jie Meng
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Academy of Dongying Efficient Agricultural Technology and Industry on Saline and Alkaline Land in Collaboration with Qingdao Agricultural University, Dongying, 257000, China
- College of Landscape Architecture and Forestry, Qingdao Agricultural University, Qingdao, 266109, China
| | - Xianfeng Tang
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Academy of Dongying Efficient Agricultural Technology and Industry on Saline and Alkaline Land in Collaboration with Qingdao Agricultural University, Dongying, 257000, China
- College of Landscape Architecture and Forestry, Qingdao Agricultural University, Qingdao, 266109, China
| | - Dian Wang
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Academy of Dongying Efficient Agricultural Technology and Industry on Saline and Alkaline Land in Collaboration with Qingdao Agricultural University, Dongying, 257000, China
- College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, China
| | - Gongke Zhou
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
- Academy of Dongying Efficient Agricultural Technology and Industry on Saline and Alkaline Land in Collaboration with Qingdao Agricultural University, Dongying, 257000, China
- College of Landscape Architecture and Forestry, Qingdao Agricultural University, Qingdao, 266109, China
| |
Collapse
|
3
|
Song Z, Chen H, Lai X, Wang L, Yao Y, Qin J, Pang X, Zhu H, Chen W, Li X, Zhu X. The Zinc Finger Protein MaCCCH33-Like2 Positively Regulates Banana Fruit Ripening by Modulating Genes in Starch and Cell Wall Degradation. PLANT & CELL PHYSIOLOGY 2024; 65:49-67. [PMID: 37767757 DOI: 10.1093/pcp/pcad115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 08/31/2023] [Accepted: 09/27/2023] [Indexed: 09/29/2023]
Abstract
As zinc finger protein transcription factors (TFs), the molecular mechanism of Cys-Cys-Cys-His (CCCH) TFs in regulating plant development, growth and stress response has been well studied. However, the roles of CCCH TFs in fruit ripening are still obscure. Herein, we report that MaCCCH33-like2 TF and its associated proteins modulate the fruit softening of 'Fenjiao' bananas. MaCCCH33-like2 interacts directly with the promoters of three genes: isoamylase2 (MaISA2), sugar transporter14-like (MaSUR14-like) and β-d-xylosidase23 (MaXYL23), all of which are responsible for encoding proteins involved in the degradation of starch and cell wall components. Additionally, MaCCCH33-like2 forms interactions with abscisic acid-insensitive 5 (ABI5)-like and ethylene F-box protein 1 (MaEBF1), resulting in enhanced binding and activation of promoters of genes related to starch and cell wall degradation. When MaCCCH33-like2 is transiently and ectopically overexpressed in 'Fenjiao' banana and tomato fruit, it facilitates softening and ripening processes by promoting the degradation of cell wall components and starch and the production of ethylene. Conversely, the temporary silencing of MaCCCH33-like2 using virus-induced gene silencing (VIGS) inhibits softening and ripening in the 'Fenjiao' banana by suppressing ethylene synthesis, as well as starch and cell wall degradation. Furthermore, the promoter activity of MaCCCH33-like2 is regulated by MaABI5-like. Taken together, we have uncovered a novel MaCCCH33-like2/MaEBF1/MaABI5-like module that participates in fruit softening regulation in bananas.
Collapse
Affiliation(s)
- Zunyang Song
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
- Key Laboratory of Food Processing Technology and Quality Control in Shandong Province, College of Food Science and Engineering, Shandong Agricultural University, Tai'an 271018, China
| | - Hangcong Chen
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Xiuhua Lai
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Lihua Wang
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Yulin Yao
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Jiajia Qin
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Xuequn Pang
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Hong Zhu
- Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement & Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China
| | - Weixin Chen
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Xueping Li
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| | - Xiaoyang Zhu
- Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables/Engineering Research Center for Postharvest Technology of Horticultural Crops in South China, Ministry of Education, College of Horticulture, South China Agricultural University, Guangzhou, Guangdong 510642, China
| |
Collapse
|
4
|
Ma X, Li K, Cai J, Ow DW. Expression of maize OXS2a in Arabidopsis stunts plant growth but enhances heat tolerance. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2023; 337:111877. [PMID: 37769875 DOI: 10.1016/j.plantsci.2023.111877] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Revised: 08/31/2023] [Accepted: 09/24/2023] [Indexed: 10/03/2023]
Abstract
As plants encounter various environmental stresses, judicial allocation of resources to stress response is crucial for plant fitness. The plant OXS2 (OXIDATIVE STRESS 2) family has been reported to play important roles in growth regulation and stress response. Here, we report that the maize OXS2 family member ZmOXS2a when expressed in Arabidopsis retards growth including delayed flowering, but improves heat tolerance. ZmOXS2a can be found in the cytoplasm, nucleus and PBs/P bodies (mRNA processing bodies), but heat treatment induces higher accumulation in the PBs. Deletion of ARR (arginine rich region) and TZF (tandem zinc finger) domains for high-affinity RNA-binding reduced PBs accumulation of ZmOXS2a; and unlike ZmOXS2a, expression of this deletion mutant gene affected neither Arabidopsis growth nor heat tolerance. This suggests that ZmOXS2a might be involved in RNA degradation, which would also account for the larger amount of down-regulated genes found in ZmOXS2a expressing lines. Furthermore, 240 of 890 down-regulated genes contain ARE (AU-rich elements) in the mRNA 3'UTR that might be potential targets of ZmOXS2a. Expression of ZmOXS2a also disturbs the response to ABA (abscisic acid) and cytokinin, as GO (gene ontology) analysis shows that 50 and 15 DEGs (differentially expressed genes) are enriched in the GO term for ABA and cytokinin responses, respectively. ZmOXS2a expression lines are more sensitive to ABA, but less sensitive to cytokinin. It is likely that ZmOXS2a promotes the degradation of the mRNA of down-regulated genes containing ARE, which consequently perturbs the hormone pathways that affect stress response-related plant growth.
Collapse
Affiliation(s)
- Xiaoling Ma
- Plant Gene Engineering Center, Chinese Academy of Sciences, Guangzhou 510650, China; Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China; South China National Botanical Garden, Guangzhou 510650, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
| | - Kangjia Li
- Plant Gene Engineering Center, Chinese Academy of Sciences, Guangzhou 510650, China; Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China; South China National Botanical Garden, Guangzhou 510650, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
| | - Jiajia Cai
- Plant Gene Engineering Center, Chinese Academy of Sciences, Guangzhou 510650, China; Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China; South China National Botanical Garden, Guangzhou 510650, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Beijing 100049, China
| | - David W Ow
- Plant Gene Engineering Center, Chinese Academy of Sciences, Guangzhou 510650, China; Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China; South China National Botanical Garden, Guangzhou 510650, China.
| |
Collapse
|
5
|
Wu Z, Liang J, Li T, Zhang D, Teng N. A LlMYB305-LlC3H18-LlWRKY33 module regulates thermotolerance in lily. MOLECULAR HORTICULTURE 2023; 3:15. [PMID: 37789438 PMCID: PMC10514960 DOI: 10.1186/s43897-023-00064-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Accepted: 07/31/2023] [Indexed: 10/05/2023]
Abstract
The CCCH proteins play important roles in plant growth and development, hormone response, pathogen defense and abiotic stress tolerance. However, the knowledge of their roles in thermotolerance are scarce. Here, we identified a heat-inducible CCCH gene LlC3H18 from lily. LlC3H18 was localized in the cytoplasm and nucleus under normal conditions, while it translocated in the cytoplasmic foci and co-located with the markers of two messenger ribonucleoprotein (mRNP) granules, processing bodies (PBs) and stress granules (SGs) under heat stress conditions, and it also exhibited RNA-binding ability. In addition, LlC3H18 exhibited transactivation activity in both yeast and plant cells. In lily and Arabidopsis, overexpression of LlC3H18 damaged their thermotolerances, and silencing of LlC3H18 in lily also impaired its thermotolerance. Similarly, Arabidopsis atc3h18 mutant also showed decreased thermotolerance. These results indicated that the appropriate expression of C3H18 was crucial for establishing thermotolerance. Further analysis found that LlC3H18 directly bound to the promoter of LlWRKY33 and activated its expression. Besides, it was found that LlMYB305 acted as an upstream factor of LlC3H18 and activated its expression. In conclusion, we demonstrated that there may be a LlMYB305-LlC3H18-LlWRKY33 regulatory module in lily that is involved in the establishment of thermotolerance and finely regulates heat stress response.
Collapse
Affiliation(s)
- Ze Wu
- Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Graduate Workstation of Nanjing Agricultural University and Nanjing Oriole Island Modern Agricultural Development Co., Ltd, Nanjing, 210043, China
- College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Jiahui Liang
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Ting Li
- Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Graduate Workstation of Nanjing Agricultural University and Nanjing Oriole Island Modern Agricultural Development Co., Ltd, Nanjing, 210043, China
| | - Dehua Zhang
- Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Graduate Workstation of Nanjing Agricultural University and Nanjing Oriole Island Modern Agricultural Development Co., Ltd, Nanjing, 210043, China
| | - Nianjun Teng
- Key Laboratory of Landscaping, Ministry of Agriculture and Rural Affairs, Key Laboratory of Biology of Ornamental Plants in East China, National Forestry and Grassland Administration, College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China.
- Jiangsu Graduate Workstation of Nanjing Agricultural University and Nanjing Oriole Island Modern Agricultural Development Co., Ltd, Nanjing, 210043, China.
| |
Collapse
|
6
|
Xu J, Huang Z, Du H, Tang M, Fan P, Yu J, Zhou Y. SEC1-C3H39 module fine-tunes cold tolerance by mediating its target mRNA degradation in tomato. THE NEW PHYTOLOGIST 2023; 237:870-884. [PMID: 36285381 DOI: 10.1111/nph.18568] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Accepted: 10/17/2022] [Indexed: 06/16/2023]
Abstract
Plants adapt to cold stress at the physiological and biochemical levels, thus enabling them to maintain growth and development. However, the molecular mechanism of fine-tuning cold signals remains largely unknown. We addressed the function of SlSEC1-SlC3H39 module in cold tolerance by using SlSEC1 and SlC3H39 knockout and overexpression tomato lines. A tandem CCCH zinc-finger protein SlC3H39 negatively modulates cold tolerance in tomato. SlC3H39 binds to AU-rich elements in the 3'-untranslated region (UTR) to induce mRNA degradation and regulates gene expression post-transcriptionally. We further validate that SlC3H39 participates in post-transcriptional regulation of a variety of cold-responsive genes. An O-linked N-acetylglucosamine transferase SlSEC1 physically interacts with SlC3H39 proteins and negatively regulates cold tolerance in tomato. Further study shows that SlSEC1 is essential for SlC3H39 protein stability and maintains SlC3H39 function in cold tolerance. Genetic analysis shows that SlC3H39 is epistatic to SlSEC1 in cold tolerance. The findings indicate that SlC3H39 negatively modulates plant cold tolerance through post-transcriptional regulation by binding to cold-responding mRNA 3'-UTR and reducing those transcripts. SlSEC1 promotes the O-GlcNAclation status of SlC3H39 and maintains SlC3H39 function in cold tolerance. Taken together, we propose a SlSEC1-SlC3H39 module, which allows plants to balance defense responses and growth processes.
Collapse
Affiliation(s)
- Jin Xu
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
| | - Zelan Huang
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
| | - Hongyu Du
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
| | - Mingjia Tang
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
| | - Pengxiang Fan
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
| | - Jingquan Yu
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
- Hainan Institute, Zhejiang University, Sanya, 572025, China
- Key Laboratory of Horticultural Plants Growth and Development, Agricultural Ministry of China, Yuhangtang Road 866, Hangzhou, 310058, China
| | - Yanhong Zhou
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
- Hainan Institute, Zhejiang University, Sanya, 572025, China
- Key Laboratory of Horticultural Plants Growth and Development, Agricultural Ministry of China, Yuhangtang Road 866, Hangzhou, 310058, China
| |
Collapse
|
7
|
Hormone Regulation of CCCH Zinc Finger Proteins in Plants. Int J Mol Sci 2022; 23:ijms232214288. [PMID: 36430765 PMCID: PMC9698766 DOI: 10.3390/ijms232214288] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Revised: 11/04/2022] [Accepted: 11/08/2022] [Indexed: 11/19/2022] Open
Abstract
CCCH zinc finger proteins contain one to six tandem CCCH motifs composed of three cysteine and one histidine residues and have been widely found in eukaryotes. Plant CCCH proteins control a wide range of developmental and adaptive processes through DNA-protein, RNA-protein and/or protein-protein interactions. The complex networks underlying these processes regulated by plant CCCH proteins are often involved in phytohormones as signal molecules. In this review, we described the evolution of CCCH proteins from green algae to vascular plants and summarized the functions of plant CCCH proteins that are influenced by six major hormones, including abscisic acid, gibberellic acid, brassinosteroid, jasmonate, ethylene and auxin. We further compared the regulatory mechanisms of plant and animal CCCH proteins via hormone signaling. Among them, Arabidopsis AtC3H14, 15 and human hTTP, three typical CCCH proteins, are able to integrate multiple hormones to participate in various biological processes.
Collapse
|
8
|
Song L, Li W, Chen X. Transcription factor is not just a transcription factor. TRENDS IN PLANT SCIENCE 2022; 27:1087-1089. [PMID: 35981952 DOI: 10.1016/j.tplants.2022.08.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2022] [Revised: 07/29/2022] [Accepted: 08/04/2022] [Indexed: 06/15/2023]
Abstract
Plant transcription factors (TFs) play important roles in diverse biological processes, including immunity. A recent study by Zhang et al. reported that the rice TF APIP5 regulates immunity through its roles on transcription and mRNA turnover, advancing our conceptual understanding that plant TF may not only function as a TF.
Collapse
Affiliation(s)
- Li Song
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Sichuan Agricultural University at Wenjiang, Chengdu, Sichuan 611130, China
| | - Weitao Li
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Sichuan Agricultural University at Wenjiang, Chengdu, Sichuan 611130, China; Rice Research Institute, Sichuan Agricultural University at Wenjiang, Chengdu, Sichuan 611130, China.
| | - Xuewei Chen
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Sichuan Agricultural University at Wenjiang, Chengdu, Sichuan 611130, China.
| |
Collapse
|
9
|
Liu H, Xiao S, Sui S, Huang R, Wang X, Wu H, Liu X. A tandem CCCH type zinc finger protein gene CpC3H3 from Chimonanthus praecox promotes flowering and enhances drought tolerance in Arabidopsis. BMC PLANT BIOLOGY 2022; 22:506. [PMID: 36309643 PMCID: PMC9617390 DOI: 10.1186/s12870-022-03877-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Accepted: 10/07/2022] [Indexed: 06/16/2023]
Abstract
BACKGROUND CCCH-type zinc finger proteins play important roles in plant development and biotic/abiotic stress responses. Wintersweet (Chimonanthus praecox) is a popular ornamental plant with strong resistance to various stresses, which is a good material for exploring gene resource for stress response. In this study, we isolated a CCCH type zinc finger protein gene CpC3H3 (MZ964860) from flower of wintersweet and performed functional analysis with a purpose of identifying gene resource for floral transition and stress tolerance. RESULTS CpC3H3 was predicted a CCCH type zinc finger protein gene encoding a protein containing 446 amino acids with five conserved C-X8-C-X5-C-X3-H motifs. CpC3H3 was localized in the cell membrane but with a nuclear export signal at the N-terminal. Transcripts of CpC3H3 were significantly accumulated in flower buds at floral meristem formation stage, and were induced by polyethylene glycol. Overexpression of CpC3H3 promoted flowering, and enhanced drought tolerance in transgenic A. thaliana. CpC3H3 overexpression affects the expression level of genes involved in flower inducement and stress responses. Further comparative studies on physiological indices showed the contents of proline and soluble sugar, activity of peroxidase and the rates of electrolyte leakage were significantly increased and the content of malondialdehyde and osmotic potential was significantly reduced in transgenic A. thaliana under PEG stress. CONCLUSION Overall, CpC3H3 plays a role in flowering inducement and drought tolerance in transgenic A. thaliana. The CpC3H3 gene has the potential to be used to promote flowering and enhance drought tolerance in plants.
Collapse
Affiliation(s)
- Huamin Liu
- College of Landscape Architecture and Life Science/Institute of Special Plants, Chongqing University of Arts and Sciences, Yongchuan, Chongqing, 402160, China
| | - Shiqi Xiao
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions of Ministry of Education, College of Horticulture and Landscape Architecture, Southwest University, Chongqing, 400715, China
| | - Shunzhao Sui
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions of Ministry of Education, College of Horticulture and Landscape Architecture, Southwest University, Chongqing, 400715, China
| | - Renwei Huang
- College of Chemistry and Life Sciences, Sichuan Provincial Key Laboratory for Development and Utilization of Characteristic Horticultural Biological Resources, Chengdu Normal University, Chengdu, 611130, China
| | - Xia Wang
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions of Ministry of Education, College of Horticulture and Landscape Architecture, Southwest University, Chongqing, 400715, China
| | - Huafeng Wu
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions of Ministry of Education, College of Horticulture and Landscape Architecture, Southwest University, Chongqing, 400715, China
| | - Xia Liu
- College of Landscape Architecture and Life Science/Institute of Special Plants, Chongqing University of Arts and Sciences, Yongchuan, Chongqing, 402160, China.
| |
Collapse
|
10
|
Chen M, Guo L, Ramakrishnan M, Fei Z, Vinod KK, Ding Y, Jiao C, Gao Z, Zha R, Wang C, Gao Z, Yu F, Ren G, Wei Q. Rapid growth of Moso bamboo (Phyllostachys edulis): Cellular roadmaps, transcriptome dynamics, and environmental factors. THE PLANT CELL 2022; 34:3577-3610. [PMID: 35766883 PMCID: PMC9516176 DOI: 10.1093/plcell/koac193] [Citation(s) in RCA: 38] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Accepted: 06/24/2022] [Indexed: 05/09/2023]
Abstract
Moso bamboo (Phyllostachys edulis) shows remarkably rapid growth (114.5 cm/day), but the underlying biological mechanisms remain unclear. After examining more than 12,750 internodes from more than 510 culms from 17 Moso populations, we identified internode 18 as a representative internode for rapid growth. This internode includes a 2-cm cell division zone (DZ), a cell elongation zone up to 12 cm, and a secondary cell wall (SCW) thickening zone. These zones elongated 11.8 cm, produced approximately 570,000,000 cells, and deposited ∼28 mg g-1 dry weight (DW) lignin and ∼44 mg g-1 DW cellulose daily, far exceeding vegetative growth observed in other plants. We used anatomical, mathematical, physiological, and genomic data to characterize development and transcriptional networks during rapid growth in internode 18. Our results suggest that (1) gibberellin may directly trigger the rapid growth of Moso shoots, (2) decreased cytokinin and increased auxin accumulation may trigger cell DZ elongation, and (3) abscisic acid and mechanical pressure may stimulate rapid SCW thickening via MYB83L. We conclude that internode length involves a possible tradeoff mediated by mechanical pressure caused by rapid growth, possibly influenced by environmental temperature and regulated by genes related to cell division and elongation. Our results provide insight into the rapid growth of Moso bamboo.
Collapse
Affiliation(s)
- Ming Chen
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | - Lin Guo
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | - Muthusamy Ramakrishnan
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | - Zhangjun Fei
- Boyce Thompson Institute, Cornell University, Ithaca, New York 14853, USA
| | - Kunnummal K Vinod
- Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Yulong Ding
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | | | - Zhipeng Gao
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | - Ruofei Zha
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | - Chunyue Wang
- Co-Innovation Center for Sustainable Forestry in Southern China, Bamboo Research Institute, Key Laboratory of National Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu 210037, China
| | - Zhimin Gao
- Key Laboratory of National Forestry and Grassland Administration, Beijing for Bamboo & Rattan Science and Technology, Institute of Gene Science and Industrialization for Bamboo and Rattan Resources, International Center for Bamboo and Rattan, Beijing 100102, China
| | - Fen Yu
- Jiangxi Provincial Key Laboratory for Bamboo Germplasm Resources and Utilization, Jiangxi Agriculture University, Nanchang, Jiangxi 330045, China
| | - Guodong Ren
- State Key Laboratory of Genetic Engineering, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
| | | |
Collapse
|
11
|
Xu L, Liu T, Xiong X, Shen X, Huang L, Yu Y, Cao J. Highly Overexpressed AtC3H18 Impairs Microgametogenesis via Promoting the Continuous Assembly of mRNP Granules. FRONTIERS IN PLANT SCIENCE 2022; 13:932793. [PMID: 35909782 PMCID: PMC9335048 DOI: 10.3389/fpls.2022.932793] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Accepted: 06/06/2022] [Indexed: 06/15/2023]
Abstract
Plant CCCH zinc-finger proteins form a large family of regulatory proteins function in many aspects of plant growth, development and environmental responses. Despite increasing reports indicate that many CCCH zinc-finger proteins exhibit similar subcellular localization of being localized in cytoplasmic foci, the underlying molecular mechanism and the connection between this specific localization pattern and protein functions remain largely elusive. Here, we identified another cytoplasmic foci-localized CCCH zinc-finger protein, AtC3H18, in Arabidopsis thaliana. AtC3H18 is predominantly expressed in developing pollen during microgametogenesis. Although atc3h18 mutants did not show any abnormal phenotype, possibly due to redundant gene(s), aberrant AtC3H18 expression levels caused by overexpression resulted in the assembly of AtC3H18-positive granules in a dose-dependent manner, which in turn led to male sterility phenotype, highlighting the importance of fine-tuned AtC3H18 expression. Further analyzes demonstrated that AtC3H18-positive granules are messenger ribonucleoprotein (mRNP) granules, since they can exhibit liquid-like physical properties, and are associated with another two mRNP granules known as processing bodies (PBs) and stress granules (SGs), reservoirs of translationally inhibited mRNAs. Moreover, the assembly of AtC3H18-positive granules depends on mRNA availability. Combined with our previous findings on the AtC3H18 homologous genes in Brassica campestris, we concluded that appropriate expression level of AtC3H18 during microgametogenesis is essential for normal pollen development, and we also speculated that AtC3H18 may act as a key component of mRNP granules to modulate pollen mRNAs by regulating the assembly/disassembly of mRNP granules, thereby affecting pollen development.
Collapse
Affiliation(s)
- Liai Xu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, China
| | - Tingting Liu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
| | - Xingpeng Xiong
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
| | - Xiuping Shen
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
| | - Li Huang
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
| | - Youjian Yu
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, China
| | - Jiashu Cao
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
| |
Collapse
|
12
|
Zhang F, Fang H, Wang M, He F, Tao H, Wang R, Long J, Wang J, Wang GL, Ning Y. APIP5 functions as a transcription factor and an RNA-binding protein to modulate cell death and immunity in rice. Nucleic Acids Res 2022; 50:5064-5079. [PMID: 35524572 PMCID: PMC9122607 DOI: 10.1093/nar/gkac316] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2021] [Revised: 04/08/2022] [Accepted: 04/20/2022] [Indexed: 01/13/2023] Open
Abstract
Many transcription factors (TFs) in animals bind to both DNA and mRNA, regulating transcription and mRNA turnover. However, whether plant TFs function at both the transcriptional and post-transcriptional levels remains unknown. The rice (Oryza sativa) bZIP TF AVRPIZ-T-INTERACTING PROTEIN 5 (APIP5) negatively regulates programmed cell death and blast resistance and is targeted by the effector AvrPiz-t of the blast fungus Magnaporthe oryzae. We demonstrate that the nuclear localization signal of APIP5 is essential for APIP5-mediated suppression of cell death and blast resistance. APIP5 directly targets two genes that positively regulate blast resistance: the cell wall-associated kinase gene OsWAK5 and the cytochrome P450 gene CYP72A1. APIP5 inhibits OsWAK5 expression and thus limits lignin accumulation; moreover, APIP5 inhibits CYP72A1 expression and thus limits reactive oxygen species production and defense compounds accumulation. Remarkably, APIP5 acts as an RNA-binding protein to regulate mRNA turnover of the cell death- and defense-related genes OsLSD1 and OsRac1. Therefore, APIP5 plays dual roles, acting as TF to regulate gene expression in the nucleus and as an RNA-binding protein to regulate mRNA turnover in the cytoplasm, a previously unidentified regulatory mechanism of plant TFs at the transcriptional and post-transcriptional levels.
Collapse
Affiliation(s)
- Fan Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Hong Fang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Min Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Feng He
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Hui Tao
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Ruyi Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Jiawei Long
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Jiyang Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Guo-Liang Wang
- Department of Plant Pathology, The Ohio State University, Columbus, OH 43210, USA
| | - Yuese Ning
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| |
Collapse
|
13
|
Chai G, Qi G, Wang D, Zhuang Y, Xu H, Bai Z, Bai MY, Hu R, Wang ZY, Zhou G, Kong Y. The CCCH zinc finger protein C3H15 negatively regulates cell elongation by inhibiting brassinosteroid signaling. PLANT PHYSIOLOGY 2022; 189:285-300. [PMID: 35139225 PMCID: PMC9070797 DOI: 10.1093/plphys/kiac046] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Accepted: 01/10/2022] [Indexed: 05/20/2023]
Abstract
Plant CCCH proteins participate in the control of multiple developmental and adaptive processes, but the regulatory mechanisms underlying these processes are not well known. In this study, we showed that the Arabidopsis (Arabidopsis thaliana) CCCH protein C3H15 negatively regulates cell elongation by inhibiting brassinosteroid (BR) signaling. Genetic and biochemical evidence showed that C3H15 functions downstream of the receptor BR INSENSITIVE 1 (BRI1) as a negative regulator in the BR pathway. C3H15 is phosphorylated by the GLYCOGEN SYNTHASE KINASE 3 -like kinase BR-INSENSITIVE 2 (BIN2) at Ser111 in the cytoplasm in the absence of BRs. Upon BR perception, C3H15 transcription is enhanced, and the phosphorylation of C3H15 by BIN2 is reduced. The dephosphorylated C3H15 protein accumulates in the nucleus, where C3H15 regulates transcription via G-rich elements (typically GGGAGA). C3H15 and BRASSINAZOLE RESISTANT 1 (BZR1)/BRI1-EMS-SUPPRESSOR 1 (BES1), two central transcriptional regulators of BR signaling, directly suppress each other and share a number of BR-responsive target genes. Moreover, C3H15 antagonizes BZR1 and BES1 to regulate the expression of their shared cell elongation-associated target gene, SMALL AUXIN-UP RNA 15 (SAUR15). This study demonstrates that C3H15-mediated BR signaling may be parallel to, or even attenuate, the dominant BZR1 and BES1 signaling pathways to control cell elongation. This finding expands our understanding of the regulatory mechanisms underlying BR-induced cell elongation in plants.
Collapse
Affiliation(s)
| | | | | | | | - Hua Xu
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Zetao Bai
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture and Rural Affairs, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China
| | - Ming-Yi Bai
- Key Laboratory of Plant Cell Engineering and Germplasm Innovation, Ministry of Education, School of Life Sciences, Shandong University, Jinan 250100, China
| | - Ruibo Hu
- Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Zeng-yu Wang
- College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
| | | | | |
Collapse
|
14
|
Shah AA, Riaz L, Siddiqui MH, Nazar R, Ahmed S, Yasin NA, Ali A, Mukherjee S, Hussaan M, Javad S, Chaudhry O. Spermine-mediated polyamine metabolism enhances arsenic-stress tolerance in Phaseolus vulgaris by expression of zinc-finger proteins related genes and modulation of mineral nutrient homeostasis and antioxidative system. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 300:118941. [PMID: 35121016 DOI: 10.1016/j.envpol.2022.118941] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 01/15/2022] [Accepted: 01/30/2022] [Indexed: 06/14/2023]
Abstract
The contamination of groundwater and agricultural land by metalloids especially arsenic (As) is one of the most serious threats to people and plants worldwide. Therefore, the present study was design to explore the role of spermine (Spm)- mediated polyamine metabolism in the alleviation of arsenic (As) toxicity in common bean (Phaseolus vulgaris L.). It was noted that As stress caused reduction in the intracellular CO2 concentration, stomatal conductivity and transpiration rate as compared to the control treatment and also impairedplant growth attributes and mineral nutrient homeostasis (sulfur, phosphorus, potassium and calcium). However, the exogenous application of Spm resulted in a considerable enhance in the content of glutathione and nitric oxide, and the activity of superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), glutathione-reductase (GR), ascorbate peroxidase (APX), monodehydroascorbate reductase (MDHAR) in P. vulgaris seedlings grown As-contaminated soil. In addition, Spm application significantly improved the endogenous production of putrescine and spermidine accompanied along with reduction in malondialdehyde, electrolyte leakage, hydrogen peroxide, superoxide level besides enhanced methylglyoxal (MG) detoxification. Moreover, Spm treatment elevated the expression level of zinc-finger proteins related genes (PvC3H24, PvC3H25, PvC3H26 and PvC3H27) involved in abiotic stress response. The study concluded that Spm acted as an enhancing agent and improved tolerance to As-toxicity by upregulating the expression of zinc-finger proteins related genes, polyamine metabolism, Mg detoxification and antioxidant system in P. vulgaris.
Collapse
Affiliation(s)
- Anis Ali Shah
- Department of Botany, Division of Science and Technology, University of Education, Lahore, Pakistan.
| | - Luqman Riaz
- Department of Environmental Sciences, University of Narowal, 51750, Punjab, Pakistan
| | - Manzer H Siddiqui
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh, 11451, Saudi Arabia
| | - Rabia Nazar
- Department of Botany, University of Narowal, Pakistan
| | - Shakil Ahmed
- Institute of Botany, University of the Punjab, Lahore, Pakistan
| | - Nasim Ahmad Yasin
- Senior Superintendent Garden, RO-II Office, University of the Punjab, Lahore, Pakistan
| | - Aamir Ali
- Department of Botany, University of Sargodha, Sargodha, Pakistan
| | - Soumya Mukherjee
- Department of Botany, Jangipur College, University of Kalyani, West Bengal, 742213, India
| | - Muhammad Hussaan
- Department of Botany, Government College University, Faisalabad, 38000, Pakistan
| | - Sumera Javad
- Department of Botany, Lahore College for Women University, Lahore, Pakistan
| | - Ozair Chaudhry
- Biology and Environmental Science, Albert Campbell Collegiate Institute (NS), Scarborough, Ontario, Canada
| |
Collapse
|
15
|
Ai Q, Pan W, Zeng Y, Li Y, Cui L. CCCH Zinc finger genes in Barley: genome-wide identification, evolution, expression and haplotype analysis. BMC PLANT BIOLOGY 2022; 22:117. [PMID: 35291942 PMCID: PMC8922935 DOI: 10.1186/s12870-022-03500-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2021] [Accepted: 03/01/2022] [Indexed: 05/03/2023]
Abstract
BACKGROUND CCCH transcription factors are important zinc finger transcription factors involved in the response to biotic and abiotic stress and physiological and developmental processes. Barley (Hordeum vulgare) is an agriculturally important cereal crop with multiple uses, such as brewing production, animal feed, and human food. The identification and assessment of new functional genes are important for the molecular breeding of barley. RESULTS In this study, a total of 53 protein-encoding CCCH genes unevenly dispersed on seven different chromosomes were identified in barley. Phylogenetic analysis categorized the barley CCCH genes (HvC3Hs) into eleven subfamilies according to their distinct features, and this classification was supported by intron-exon structure and conserved motif analysis. Both segmental and tandem duplication contributed to the expansion of CCCH gene family in barley. Genetic variation of HvC3Hs was characterized using publicly available exome-capture sequencing datasets. Clear genetic divergence was observed between wild and landrace barley populations in HvC3H genes. For most HvC3Hs, nucleotide diversity and the number of haplotype polymorphisms decreased during barley domestication. Furthermore, the HvC3H genes displayed distinct expression profiles for different developmental processes and in response to various types of stresses. The HvC3H1, HvC3H2 and HvC3H13 of arginine-rich tandem CCCH zinc finger (RR-TZF) genes were significantly induced by multiple types of abiotic stress and/or phytohormone treatment, which might make them as excellent targets for the molecular breeding of barley. CONCLUSIONS Overall, our study provides a comprehensive characterization of barley CCCH transcription factors, their diversity, and their biological functions.
Collapse
Affiliation(s)
- Qi Ai
- College of Bioscience and Engineering, Jiangxi Agricultural University, Nanchang, 330045 Jiangxi China
- State Key Laboratory of Crop Stress Biology in Arid Areas and College of Agronomy, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Wenqiu Pan
- State Key Laboratory of Crop Stress Biology in Arid Areas and College of Agronomy, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Yan Zeng
- College of Bioscience and Engineering, Jiangxi Agricultural University, Nanchang, 330045 Jiangxi China
| | - Yihan Li
- College of Bioscience and Engineering, Jiangxi Agricultural University, Nanchang, 330045 Jiangxi China
| | - Licao Cui
- College of Bioscience and Engineering, Jiangxi Agricultural University, Nanchang, 330045 Jiangxi China
- Key Laboratory for Crop Gene Resources and Germplasm Enhancement, MOA, National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081 China
| |
Collapse
|
16
|
Seok HY, Kim T, Lee SY, Moon YH. Non-TZF Transcriptional Activator AtC3H12 Negatively Affects Seed Germination and Seedling Development in Arabidopsis. Int J Mol Sci 2022; 23:1572. [PMID: 35163496 PMCID: PMC8835867 DOI: 10.3390/ijms23031572] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Revised: 01/09/2022] [Accepted: 01/28/2022] [Indexed: 11/23/2022] Open
Abstract
CCCH zinc finger proteins are a large protein family and are classified as either tandem CCCH zinc finger (TZF) or non-TZF proteins. The roles of TZF genes in several plants have been well determined, whereas the functions of many non-TZF genes in plants remain uncharacterized. Herein, we describe biological and molecular functions of AtC3H12, an Arabidopsis non-TZF protein containing three CCCH zinc finger motifs. AtC3H12 has orthologs in several plant species but has no paralog in Arabidopsis. AtC3H12-overexpressing transgenic plants (OXs) germinated slower than wild-type (WT) plants, whereas atc3h12 mutants germinated faster than WT plants. The fresh weight (FW) and primary root lengths of AtC3H12 OX seedlings were lighter and shorter than those of WT seedlings, respectively. In contrast, FW and primary root lengths of atc3h12 seedlings were heavier and longer than those of WT seedlings, respectively. AtC3H12 was localized in the nucleus and displayed transactivation activity in both yeast and Arabidopsis. We found that the 97-197 aa region of AtC3H12 is an important part for its transactivation activity. Detection of expression levels and analysis of Arabidopsis transgenic plants harboring a PAtC3H12::GUS construct showed that AtC3H12 expression increases as the Arabidopsis seedlings develop. Taken together, our results demonstrate that AtC3H12 negatively affects seed germination and seedling development as a nuclear transcriptional activator in Arabidopsis. To our knowledge, this is the first report to show that non-TZF proteins negatively affect plant development as nuclear transcriptional activators.
Collapse
Affiliation(s)
- Hye-Yeon Seok
- Institute of Systems Biology, Pusan National University, Busan 46241, Korea; (H.-Y.S.); (S.-Y.L.)
| | - Taehyoung Kim
- Department of Integrated Biological Science, Pusan National University, Busan 46241, Korea;
| | - Sun-Young Lee
- Institute of Systems Biology, Pusan National University, Busan 46241, Korea; (H.-Y.S.); (S.-Y.L.)
| | - Yong-Hwan Moon
- Institute of Systems Biology, Pusan National University, Busan 46241, Korea; (H.-Y.S.); (S.-Y.L.)
- Department of Integrated Biological Science, Pusan National University, Busan 46241, Korea;
- Department of Molecular Biology, Pusan National University, Busan 46241, Korea
| |
Collapse
|
17
|
Pi B, Pan J, Xiao M, Hu X, Zhang L, Chen M, Liu B, Ruan Y, Huang Y. Systematic analysis of CCCH zinc finger family in Brassica napus showed that BnRR-TZFs are involved in stress resistance. BMC PLANT BIOLOGY 2021; 21:555. [PMID: 34814855 PMCID: PMC8609832 DOI: 10.1186/s12870-021-03340-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2021] [Accepted: 11/10/2021] [Indexed: 05/19/2023]
Abstract
BACKGROUND CCCH zinc finger family is one of the largest transcription factor families related to multiple biotic and abiotic stresses. Brassica napus L., an allotetraploid oilseed crop formed by natural hybridization between two diploid progenitors, Brassica rapa and Brassica oleracea. A systematic identification of rapeseed CCCH family genes is missing and their functional characterization is still in infancy. RESULTS In this study, 155 CCCH genes, 81 from its parent B. rapa and 74 from B. oleracea, were identified and divided into 15 subfamilies in B. napus. Organization and syntenic analysis explained the distribution and collinearity relationship of CCCH genes, the selection pressure and evolution of duplication gene pairs in B. napus genome. 44 diploid duplication gene pairs and 4 triple duplication gene groups were found in B. napus of CCCH family and the segmental duplication is attributed to most CCCH gene duplication events in B. napus. Nine types of CCCH motifs exist in B. napus CCCH family members, and motif C-X7/8-C-X5-C-X3-H is the most common and a new conserved CCH motif (C-X5-C-X3-H) has been identified. In addition, abundant stress-related cis-elements exist in promoters of 27 subfamily IX (RR-TZF) genes and their expression profiles indicated that RR-TZF genes could be involved in responses to hormone and abiotic stress. CONCLUSIONS The results provided a foundation to understand the basic characterization and genes evolution of CCCH gene family in B. napus, and provided potential targets for genetic engineering in Brassicaceae crops in pursuit of stress-tolerant traits.
Collapse
Affiliation(s)
- Boyi Pi
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Jiao Pan
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Mu Xiao
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Xinchang Hu
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China
| | - Lei Zhang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Min Chen
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Boyu Liu
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Ying Ruan
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China
| | - Yong Huang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China.
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128, China.
| |
Collapse
|
18
|
Han G, Qiao Z, Li Y, Wang C, Wang B. The Roles of CCCH Zinc-Finger Proteins in Plant Abiotic Stress Tolerance. Int J Mol Sci 2021; 22:ijms22158327. [PMID: 34361093 PMCID: PMC8347928 DOI: 10.3390/ijms22158327] [Citation(s) in RCA: 46] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 07/27/2021] [Accepted: 07/29/2021] [Indexed: 01/07/2023] Open
Abstract
Zinc-finger proteins, a superfamily of proteins with a typical structural domain that coordinates a zinc ion and binds nucleic acids, participate in the regulation of growth, development, and stress adaptation in plants. Most zinc fingers are C2H2-type or CCCC-type, named after the configuration of cysteine (C) and histidine (H); the less-common CCCH zinc-finger proteins are important in the regulation of plant stress responses. In this review, we introduce the domain structures, classification, and subcellular localization of CCCH zinc-finger proteins in plants and discuss their functions in transcriptional and post-transcriptional regulation via interactions with DNA, RNA, and other proteins. We describe the functions of CCCH zinc-finger proteins in plant development and tolerance to abiotic stresses such as salt, drought, flooding, cold temperatures and oxidative stress. Finally, we summarize the signal transduction pathways and regulatory networks of CCCH zinc-finger proteins in their responses to abiotic stress. CCCH zinc-finger proteins regulate the adaptation of plants to abiotic stress in various ways, but the specific molecular mechanisms need to be further explored, along with other mechanisms such as cytoplasm-to-nucleus shuttling and post-transcriptional regulation. Unraveling the molecular mechanisms by which CCCH zinc-finger proteins improve stress tolerance will facilitate the breeding and genetic engineering of crops with improved traits.
Collapse
Affiliation(s)
- Guoliang Han
- Correspondence: (G.H.); (B.W.); Tel./Fax: +86-531-8618-0197 (B.W.)
| | | | | | | | - Baoshan Wang
- Correspondence: (G.H.); (B.W.); Tel./Fax: +86-531-8618-0197 (B.W.)
| |
Collapse
|
19
|
Shuvo II. A holistic decision-making approach for identifying influential parameters affecting sustainable production process of canola bast fibres and predicting end-use textile choice using principal component analysis (PCA). Heliyon 2021; 7:e06235. [PMID: 33665420 PMCID: PMC7902552 DOI: 10.1016/j.heliyon.2021.e06235] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2020] [Revised: 06/23/2020] [Accepted: 02/05/2021] [Indexed: 11/15/2022] Open
Abstract
Recent research has discovered and validated that canola fibre polymer has a lower density than major industrial fibres like cotton, jute, hemp, or flax. A few studies have identified key backgrounds that relate to canola fibre polymer production parameters; however, none have modelled an analytical hierarchy process to identify the influential parameters while producing the canola fibre polymers. The current study used Plackett-Burman design analysis to optimize the fibre polymer yield (%) during retting Statistical tools including Fisher's LSD, ANOVA, Pearson's correlation coefficient, and principal component analysis (PCA) were applied for a comparative analysis among four different canola cultivars (HYHEAR 1, Topas, 5440, 45H29). Physical testing and non-parametric statistical analysis tools like Chi-square (X2) test were used to investigate the effect of cultivar on the physique of the stems--the source of biomass. This holistic approach was taken to correlate key factors for the sustainable manufacturing of canola fibre polymers. Such knowledge will lay an effective foundation for future material-science research works, consumer wearable manufacturing industries, and engineering design for composite or nonwoven fabrication using this lightweight natural fibre polymer.
Collapse
|
20
|
Xu L, Liu T, Xiong X, Liu W, Yu Y, Cao J. Overexpression of Two CCCH-type Zinc-Finger Protein Genes Leads to Pollen Abortion in Brassica campestris ssp. chinensis. Genes (Basel) 2020; 11:E1287. [PMID: 33138166 PMCID: PMC7693475 DOI: 10.3390/genes11111287] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2020] [Revised: 10/26/2020] [Accepted: 10/28/2020] [Indexed: 12/20/2022] Open
Abstract
The pollen grains produced by flowering plants are vital for sexual reproduction. Previous studies have shown that two CCCH-type zinc-finger protein genes in Brassica campestris, BcMF30a and BcMF30c, are involved in pollen development. Due to their possible functional redundancy, gain-of-function analysis is helpful to reveal their respective biological functions. Here, we found that the phenotypes of BcMF30a and BcMF30c overexpression transgenic plants driven by their native promoters were similar, suggesting their functional redundancy. The results showed that the vegetative growth was not affected in both transgenic plants, but male fertility was reduced. Further analysis found that the abortion of transgenic pollen was caused by the degradation of pollen contents from the late uninucleate microspore stage. Subcellular localization analysis demonstrated that BcMF30a and BcMF30c could localize in cytoplasmic foci. Combined with the studies of other CCCH-type genes, we speculated that the overexpression of these genes can induce the continuous assembly of abnormal cytoplasmic foci, thus resulting in defective plant growth and development, which, in this study, led to pollen abortion. Both the overexpression and knockout of BcMF30a and BcMF30c lead to abnormal pollen development, indicating that the appropriate expression levels of these two genes are critical for the maintenance of normal pollen development.
Collapse
Affiliation(s)
- Liai Xu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (L.X.); (T.L.); (X.X.); (W.L.)
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou 310058, China
| | - Tingting Liu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (L.X.); (T.L.); (X.X.); (W.L.)
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou 310058, China
| | - Xingpeng Xiong
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (L.X.); (T.L.); (X.X.); (W.L.)
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou 310058, China
| | - Weimiao Liu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (L.X.); (T.L.); (X.X.); (W.L.)
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou 310058, China
| | - Youjian Yu
- Department of Horticulture, College of Agriculture and Food Science, Zhejiang A & F University, Lin’an 311300, China;
| | - Jiashu Cao
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou 310058, China; (L.X.); (T.L.); (X.X.); (W.L.)
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture/Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou 310058, China
| |
Collapse
|
21
|
Zhang Q, Zhang WJ, Yin ZG, Li WJ, Zhao HH, Zhang S, Zhuang L, Wang YX, Zhang WH, Du JD. Genome- and Transcriptome-Wide Identification of C3Hs in Common Bean ( Phaseolus vulgaris L.) and Structural and Expression-Based Analyses of Their Functions During the Sprout Stage Under Salt-Stress Conditions. Front Genet 2020; 11:564607. [PMID: 33101386 PMCID: PMC7522512 DOI: 10.3389/fgene.2020.564607] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2020] [Accepted: 08/19/2020] [Indexed: 12/24/2022] Open
Abstract
CCCH (C3H) zinc-finger proteins are involved in plant biotic and abiotic stress responses, growth and development, and disease resistance. However, studies on C3H genes in Phaseolus vulgaris L. (common bean) are limited. Here, 29 protein-encoding C3H genes, located on 11 different chromosomes, were identified in P. vulgaris. A phylogenetic analysis categorized the PvC3Hs into seven subfamilies on the basis of distinct features, such as exon–intron structure, cis-regulatory elements, and MEME motifs. A collinearity analysis revealed connections among the PvC3Hs in the same and different species. The PvC3H genes showed tissue-specific expression patterns during the sprout stage, as assessed by real-time quantitative PCR (RT-qPCR). Using RNA-sequencing and RT-qPCR data, PvC3Hs were identified as being enriched through Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses in binding, channel activity, and the spliceosome pathway. These results provide useful information and a rich resource that can be exploited to functionally characterize and understand PvC3Hs. These PvC3Hs, especially those enriched in binding, channel activity, and the spliceosome pathway will further facilitate the molecular breeding of common bean and provide insights into the correlations between PvC3Hs and salt-stress responses during the sprout stage.
Collapse
Affiliation(s)
- Qi Zhang
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Wen-Jing Zhang
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Zhen-Gong Yin
- Crop Resources Institute of Heilongjiang Academy of Agricultural Sciences, Heilongjiang, China
| | - Wei-Jia Li
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Hao-Hao Zhao
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Shuo Zhang
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Lin Zhuang
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Yu-Xin Wang
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Wen-Hui Zhang
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Ji-Dao Du
- Laboratory Crop Genetics and Breeding, College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, China.,Laboratory Crop Genetics and Breeding, National Coarse Cereals Engineering Research Center, Daqing, China
| |
Collapse
|
22
|
Xu L, Liu T, Xiong X, Liu W, Yu Y, Cao J. AtC3H18L is a stop-codon read-through gene and encodes a novel non-tandem CCCH zinc-finger protein that can form cytoplasmic foci similar to mRNP granules. Biochem Biophys Res Commun 2020; 528:140-145. [PMID: 32451083 DOI: 10.1016/j.bbrc.2020.05.081] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Accepted: 05/12/2020] [Indexed: 11/18/2022]
Abstract
The membraneless messenger ribonucleoprotein (mRNP) granules, including processing bodies (PBs) and stress granules (SGs), are important cytoplasmic structures in eukaryotes that can participate in gene expression through mRNA regulation. It has been verified that mRNP granules are mainly composed of proteins and translation-repressed mRNAs. Here, we reported a stop-codon read-through gene, At3g52980, in plants for the first time. At3g52980 encodes a novel non-tandem CCCH zinc-finger (non-TZF) protein named AtC3H18-Like (AtC3H18L), which contains two putative RNA-binding domains. By using transient expression system, we showed that heat treatment can induce the aggregation of diffuse distributed AtC3H18L to form cytoplasmic foci, which were similar to PBs and SGs in morphology. Further analysis did find that AtC3H18L can co-localize with markers of PB and SG. The aggregation of AtC3H18L was closely related to the cytoskeleton, and AtC3H18L-foci were highly dynamic and can move frequently along cytoskeleton. Moreover, analysis in transgenic plants showed that AtC3H18L was specifically expressed in pollen and can form cytoplasmic foci without heat treatment. It will be fascinating in future studies to discover whether and how AtC3H18L affects pollen development by participating in the assembly of mRNP granules as a protein component, especially under heat stress.
Collapse
Affiliation(s)
- Liai Xu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, 310058, China; Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, 310058, China.
| | - Tingting Liu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, 310058, China; Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, 310058, China.
| | - Xingpeng Xiong
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, 310058, China; Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, 310058, China.
| | - Weimiao Liu
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, 310058, China; Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, 310058, China.
| | - Youjian Yu
- Department of Horticulture, College of Agriculture and Food Science, Zhejiang A & F University, Lin'an, 311300, China.
| | - Jiashu Cao
- Laboratory of Cell & Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, 310058, China; Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, 310058, China.
| |
Collapse
|
23
|
Wang D, Xu H, Huang J, Kong Y, AbuQamar S, Yu D, Liu S, Zhou G, Chai G. The Arabidopsis CCCH protein C3H14 contributes to basal defense against Botrytis cinerea mainly through the WRKY33-dependent pathway. PLANT, CELL & ENVIRONMENT 2020; 43:1792-1806. [PMID: 32279333 DOI: 10.1111/pce.13771] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2020] [Revised: 03/15/2020] [Accepted: 04/04/2020] [Indexed: 06/11/2023]
Abstract
Necrotrophic pathogens such as Botrytis cinerea cause significant crop yield losses. Plant CCCH proteins play important roles in pathogen resistance responses. However, the CCCH-mediated defense mechanisms against necrotrophic pathogens are unclear. Here, we report that the Arabidopsis CCCH protein C3H14 positively regulates basal defense against B. cinerea mainly by WRKY33 signaling. Simultaneous mutation of C3H14 and its paralog C3H15 resulted in enhanced susceptibility to B. cinerea, while C3H14 or C3H15 overexpression lines exhibited reduced susceptibility. A large number of differentially expressed genes (DEGs) were present in the c3h14c3h15 double mutant and C3H14 overexpression plants compared with wild-type plants at 24 hr post infection. These DEGs covered over one third of B. cinerea-responsive WRKY33 targets, including genes involved in jasmonic acid (JA)/ethylene (ET) signaling, and camalexin biosynthesis. Genetic analysis indicated that C3H14 mainly depended on WRKY33 to modulate defense against B. cinerea. Moreover, C3H14 activated the WRKY33-ORA59 and -PAD3 cascades to correspondingly control JA/ET- and camalexin-mediated defense responses. However, C3H14 was essential for B. cinerea-induced production of 12-oxo-phytodienoic acid and it also directly mediated ORA59-dependent JA/ET signaling after infection. Therefore, C3H14 may act as a novel transcriptional regulator of the WRKY33-mediated defense pathway.
Collapse
Affiliation(s)
- Dian Wang
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
- College of Agronomy, Qingdao Agricultural University, Qingdao, China
| | - Hua Xu
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Junyan Huang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Yingzhen Kong
- College of Agronomy, Qingdao Agricultural University, Qingdao, China
| | - Synan AbuQamar
- Department of Biology, United Arab Emirates University, Al-Ain, United Arab Emirates
| | - Diqiu Yu
- Key Laboratory of Tropical Plant Resources and Sustainable Use, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Kunming, China
| | - Shengyi Liu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Gongke Zhou
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Guohua Chai
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
- College of Resources and Environment, Qingdao Agricultural University, Qingdao, China
| |
Collapse
|
24
|
Perea-García A, Miró P, Jiménez-Lorenzo R, Martínez-Pastor MT, Puig S. Sequential recruitment of the mRNA decay machinery to the iron-regulated protein Cth2 in Saccharomyces cerevisiae. BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 2020; 1863:194595. [PMID: 32565401 DOI: 10.1016/j.bbagrm.2020.194595] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Revised: 05/25/2020] [Accepted: 06/10/2020] [Indexed: 01/24/2023]
Abstract
Post-transcriptional factors importantly contribute to the rapid and coordinated expression of the multiple genes required for the adaptation of living organisms to environmental stresses. In the model eukaryote Saccharomyces cerevisiae, a conserved mRNA-binding protein, known as Cth2, modulates the metabolic response to iron deficiency. Cth2 is a tandem zinc-finger (TZF)-containing protein that co-transcriptionally binds to adenine/uracil-rich elements (ARE) present in the 3'-untranslated region of iron-related mRNAs to promote their turnover. The nuclear binding of Cth2 to mRNAs via its TZFs is indispensable for its export to the cytoplasm. Although Cth2 nucleocytoplasmic transport is essential for its regulatory function, little is known about the recruitment of the mRNA degradation machinery. Here, we investigate the sequential assembly of mRNA decay factors during Cth2 shuttling. By using an enzymatic in vivo proximity assay called M-track, we show that Cth2 associates to the RNA helicase Dhh1 and the deadenylase Pop2/Caf1 before binding to its target mRNAs. The recruitment of Dhh1 to Cth2 requires the integrity of the Ccr4-Pop2 deadenylase complex, whereas the interaction between Cth2 and Pop2 needs Ccr4 but not Dhh1. M-track assays also show that Cth2-binding to ARE-containing mRNAs is necessary for the interaction between Cth2 and the exonuclease Xrn1. The importance of these interactions is highlighted by the specific growth defect in iron-deficient conditions displayed by cells lacking Dhh1, Pop2, Ccr4 or Xrn1. These results exemplify the stepwise process of assembly of different mRNA decay factors onto an mRNA-binding protein during the mechanism of post-transcriptional regulation.
Collapse
Affiliation(s)
- Ana Perea-García
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos (IATA), Consejo Superior de Investigaciones Científicas (CSIC), Paterna (Valencia), Spain
| | - Pilar Miró
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos (IATA), Consejo Superior de Investigaciones Científicas (CSIC), Paterna (Valencia), Spain
| | - Rafael Jiménez-Lorenzo
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos (IATA), Consejo Superior de Investigaciones Científicas (CSIC), Paterna (Valencia), Spain
| | | | - Sergi Puig
- Departamento de Biotecnología, Instituto de Agroquímica y Tecnología de Alimentos (IATA), Consejo Superior de Investigaciones Científicas (CSIC), Paterna (Valencia), Spain.
| |
Collapse
|
25
|
Zhuang Y, Wang C, Zhang Y, Chen S, Wang D, Liu Q, Zhou G, Chai G. Overexpression of PdC3H17 Confers Tolerance to Drought Stress Depending on Its CCCH Domain in Populus. FRONTIERS IN PLANT SCIENCE 2020; 10:1748. [PMID: 32063912 PMCID: PMC6999075 DOI: 10.3389/fpls.2019.01748] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2019] [Accepted: 12/12/2019] [Indexed: 05/25/2023]
Abstract
Plant CCCH zinc finger proteins control growth, development, and stress responses mainly at the post-transcriptional level. Currently, limited reports are available about the roles of plant CCCH proteins in drought tolerance. In this study, we provided evidence showing that PdC3H17 from Populus deltoides × P. euramericana involves drought tolerance and response. Overexpression of PdC3H17 in poplar caused dwarf, resulted in higher stem water potential, and showed increased photosynthetic and ROS-scavenging abilities, thereby enhancing tolerance to drought stress, compared to controls. Accordingly, after drought treatment the stem elongation and thickening rates of these overexpression lines were higher than those of the controls. However, overexpression of the coding region excluding the CCCH domain of PdC3H17 roughly exhibited WT-like physiological and drought-resistant phenotypes, indicating the requirement of the CCCH domain for PdC3H17 controlling these processes. In addition, N-terminal sequence of PdC3H17 was found to possess transcriptional activity ability in yeast cells. Together, our results suggest that PdC3H17 may depend on its CCCH domain to control drought tolerance in Populus.
Collapse
Affiliation(s)
- Yamei Zhuang
- University of Chinese Academy of Sciences, Beijing, China
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Congpeng Wang
- College of Resources and Environment, Qingdao Agricultural University, Qingdao, China
| | - Yang Zhang
- University of Chinese Academy of Sciences, Beijing, China
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Sihui Chen
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Dian Wang
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Qing Liu
- College of Resources and Environment, Qingdao Agricultural University, Qingdao, China
| | - Gongke Zhou
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
| | - Guohua Chai
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, China
- College of Resources and Environment, Qingdao Agricultural University, Qingdao, China
| |
Collapse
|
26
|
Saelim L, Akiyoshi N, Tan TT, Ihara A, Yamaguchi M, Hirano K, Matsuoka M, Demura T, Ohtani M. Arabidopsis Group IIId ERF proteins positively regulate primary cell wall-type CESA genes. JOURNAL OF PLANT RESEARCH 2019; 132:117-129. [PMID: 30478480 DOI: 10.1007/s10265-018-1074-1] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2018] [Accepted: 10/21/2018] [Indexed: 05/22/2023]
Abstract
The cell wall determines morphology and the environmental responses of plant cells. The primary cell wall (PCW) is produced during cell division and expansion, determining the cell shape and volume. After cell expansion, specific types of plant cells produce a lignified wall, known as a secondary cell wall (SCW). We functionally analyzed Group IIId Arabidopsis AP2/EREBP genes, namely ERF34, ERF35, ERF38, and ERF39, which are homologs of a rice ERF gene previously proposed to be related to SCW biosynthesis. Expression analysis revealed that these four genes are expressed in regions related to cell division and/or cell differentiation in seedlings (i.e., shoot apical meristems, the primordia of leaves and lateral roots, trichomes, and central cylinder of primary roots) and flowers (i.e., vascular tissues of floral organs and replums and/or valve margins of pistils). Overexpression of ERF genes significantly upregulated PCW-type, but not SCW-type, CESA genes encoding cellulose synthase catalytic subunits in Arabidopsis seedlings. Transient co-expression reporter analysis indicated that ERF35, ERF38, and ERF39 possess transcriptional activator activity, and that ERF34, ERF35, ERF38, and ERF39 upregulated the promoter activity of CESA1, a PCW-type CESA gene, through the DRECRTCOREAT elements, the core cis-acting elements known to be recognized by AP2/ERF proteins. Together, our findings show that Group IIId ERF genes are positive transcriptional regulators of PCW-type CESA genes in Arabidopsis and are possibly involved in modulating cellulose biosynthesis in response to developmental requirements and environmental stimuli.
Collapse
Affiliation(s)
- Laddawan Saelim
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Nobuhiro Akiyoshi
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Tian Tian Tan
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
- Centre for Research in Biotechnology for Agriculture, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Ayumi Ihara
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Masatoshi Yamaguchi
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
- Graduate School of Science and Engineering, Saitama University, Saitama, Saitama, 338-8570, Japan
| | - Ko Hirano
- Bioscience and Biotechnology Center, Nagoya University, Nagoya, Aichi, 464-8601, Japan
| | - Makoto Matsuoka
- Bioscience and Biotechnology Center, Nagoya University, Nagoya, Aichi, 464-8601, Japan
| | - Taku Demura
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan.
| | - Misato Ohtani
- Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan.
| |
Collapse
|
27
|
Pi B, He X, Ruan Y, Jang JC, Huang Y. Genome-wide analysis and stress-responsive expression of CCCH zinc finger family genes in Brassica rapa. BMC PLANT BIOLOGY 2018; 18:373. [PMID: 30587139 PMCID: PMC6307296 DOI: 10.1186/s12870-018-1608-7] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Accepted: 12/17/2018] [Indexed: 05/03/2023]
Abstract
BACKGROUND Ubiquitous CCCH nucleic acid-binding motif is found in a wide-variety of organisms. CCCH genes are involved in plant developmental processes and biotic and abiotic stress responses. Brassica rapa is a vital economic crop and classical model plant of polyploidy evolution, but the functions of CCCH genes in B. rapa are unclear. RESULTS In this study, 103 CCCH genes in B. rapa were identified. A comparative analysis of the chromosomal position, gene structure, domain organization and duplication event between B. rapa and Arabidopsis thaliana were performed. Results showed that CCCH genes could be divided into 18 subfamilies, and segmental duplication might mainly contribute to this family expansion. C-X7/8-C-X5-C3-H was the most commonly found motif, but some novel CCCH motifs were also found, along with some loses of typical CCCH motifs widespread in other plant species. The multifarious gene structures and domain organizations implicated functional diversity of CCCH genes in B. rapa. Evidence also suggested functional redundancy in at least one subfamily due to high conservation between members. Finally, the expression profiles of subfamily-IX genes indicated that they are likely involved in various stress responses. CONCLUSION This study provides the first genome-wide characterization of the CCCH genes in B. rapa. The results suggest that B. rapa CCCH genes are likely functionally divergent, but mostly involved in plant development and stress response. These results are expected to facilitate future functional characterization of this potential RNA-binding protein family in Brassica crops.
Collapse
Affiliation(s)
- Boyi Pi
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128 China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128 China
- Key Laboratory of Plant Genetics and Molecular Biology of Education Department in Hunan Province, Changsha, 410128 China
| | - Xinghui He
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128 China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128 China
- Key Laboratory of Plant Genetics and Molecular Biology of Education Department in Hunan Province, Changsha, 410128 China
| | - Ying Ruan
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128 China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128 China
- Key Laboratory of Plant Genetics and Molecular Biology of Education Department in Hunan Province, Changsha, 410128 China
| | - Jyan-Chyun Jang
- Department of Horticulture and Crop Science, Molecular Genetics, and Center for Applied Plant Sciences, The Ohio State University, Columbus, OH 43210 USA
| | - Yong Huang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128 China
- Key Laboratory of Crop Epigenetic Regulation and Development in Hunan Province, Changsha, 410128 China
- Key Laboratory of Plant Genetics and Molecular Biology of Education Department in Hunan Province, Changsha, 410128 China
| |
Collapse
|
28
|
Huang X, Wang B, Xi J, Zhang Y, He C, Zheng J, Gao J, Chen H, Zhang S, Wu W, Liang Y, Yi K. Transcriptome Comparison Reveals Distinct Selection Patterns in Domesticated and Wild Agave Species, the Important CAM Plants. Int J Genomics 2018; 2018:5716518. [PMID: 30596084 PMCID: PMC6282153 DOI: 10.1155/2018/5716518] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Revised: 08/21/2018] [Accepted: 09/24/2018] [Indexed: 01/19/2023] Open
Abstract
Agave species are an important family of crassulacean acid metabolism (CAM) plants with remarkable tolerance to heat and drought stresses (Agave deserti) in arid regions and multiple agricultural applications, such as spirit (Agave tequilana) and fiber (Agave sisalana) production. The agave genomes are commonly too large to sequence, which has significantly restricted our understanding to the molecular basis of stress tolerance and economic traits in agaves. In this study, we collected three transcriptome databases for comparison to reveal the phylogenic relationships and evolution patterns of the three agave species. The results indicated the close but distinctly domesticated relations between A. tequilana and A. sisalana. Natural abiotic and biotic selections are very important factors that have contributed to distinct economic traits in agave domestication together with artificial selection. Besides, a series of candidate unigenes regulating fructan, fiber, and stress response-related traits were identified in A. tequilana, A. sisalana, and A. deserti, respectively. This study represents the first transcriptome comparison within domesticated and wild agaves, which would serve as a guidance for further studies on agave evolution, environmental adaptation, and improvement of economically important traits.
Collapse
Affiliation(s)
- Xing Huang
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Bo Wang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070, China
| | - Jingen Xi
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | | | - Chunping He
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Jinlong Zheng
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Jianming Gao
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Helong Chen
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Shiqing Zhang
- Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Weihuai Wu
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Yanqiong Liang
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| | - Kexian Yi
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, China
| |
Collapse
|
29
|
T-DNA associated reciprocal translocation reveals differential survival of male and female gametes. ACTA ACUST UNITED AC 2018. [DOI: 10.1016/j.plgene.2018.06.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
30
|
Jarret DA, Morris J, Cullen DW, Gordon SL, Verrall SR, Milne L, Hedley PE, Allwood JW, Brennan RM, Hancock RD. A Transcript and Metabolite Atlas of Blackcurrant Fruit Development Highlights Hormonal Regulation and Reveals the Role of Key Transcription Factors. FRONTIERS IN PLANT SCIENCE 2018; 9:1235. [PMID: 30210515 PMCID: PMC6119775 DOI: 10.3389/fpls.2018.01235] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2018] [Accepted: 08/06/2018] [Indexed: 05/14/2023]
Abstract
Blackcurrant fruit collected at six stages of development were assessed for changes in gene expression using custom whole transcriptome microarrays and for variation in metabolite content using a combination of liquid chromatography-mass spectrometry and gas chromatography-mass spectrometry. Principal components analysis demonstrated that fruit development could be clearly defined according to their transcript or metabolite profiles. During early developmental stages, metabolite profiles were dominated by amino acids and tannins, whilst transcript profiles were enriched in functions associated with cell division, anatomical structure morphogenesis and cell wall metabolism. During mid fruit development, fatty acids accumulated and transcript profiles were consistent with seed and embryo development. At the later stages, sugars and anthocyanins accumulated consistent with transcript profiles that were associated with secondary metabolism. Transcript data also indicated active signaling during later stages of fruit development. A targeted analysis of signaling networks revealed a dynamic activation and repression of almost 60 different transcripts encoding transcription factors across the course of fruit development, many of which have been demonstrated as pivotal to controlling such processes in other species. Transcripts associated with cytokinin and gibberellin were highly abundant at early fruit development, whilst those associated with ABA and ethylene tended to be more abundant at later stages. The data presented here provides an insight into fruit development in blackcurrant and provides a foundation for further work in the elucidation of the genetic basis of fruit quality.
Collapse
Affiliation(s)
| | - Jenny Morris
- Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Danny W. Cullen
- Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Sandra L. Gordon
- Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Susan R. Verrall
- Information and Computational Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Linda Milne
- Information and Computational Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Pete E. Hedley
- Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - J. William Allwood
- Environmental and Biochemical Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Rex M. Brennan
- Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
| | - Robert D. Hancock
- Cell and Molecular Sciences, The James Hutton Institute, Dundee, United Kingdom
| |
Collapse
|
31
|
Le PY, Jeon HW, Kim MH, Park EJ, Lee H, Hwang I, Han KH, Ko JH. Gain-of-function mutation of AtDICE1, encoding a putative endoplasmic reticulum-localized membrane protein, causes defects in anisotropic cell elongation by disturbing cell wall integrity in Arabidopsis. ANNALS OF BOTANY 2018; 122:151-164. [PMID: 29659701 PMCID: PMC6025203 DOI: 10.1093/aob/mcy049] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Accepted: 03/15/2018] [Indexed: 05/30/2023]
Abstract
Background and Aims Anisotropic cell elongation depends on cell wall relaxation and cellulose microfibril arrangement. The aim of this study was to characterize the molecular function of AtDICE1 encoding a novel transmembrane protein involved in anisotropic cell elongation in Arabidopsis. Methods Phenotypic characterizations of transgenic Arabidopsis plants mis-regulating AtDICE1 expression with different pharmacological treatments were made, and biochemical, cell biological and transcriptome analyses were performed. Key Results Upregulation of AtDICE1 in Arabidopsis (35S::AtDICE1) resulted in severe dwarfism, probably caused by defects in anisotropic cell elongation. Epidermal cell swelling was evident in all tissues, and abnormal secondary wall thickenings were observed in pith cells of stems. These phenotypes were reproduced not only by inducible expression of AtDICE1 but also by overexpression of its poplar homologue in Arabidopsis. RNA interference suppression lines of AtDICE1 resulted in no observable phenotypic changes. Interestingly, wild-type plants treated with isoxaben, a cellulose biosynthesis inhibitor, phenocopied the 35S::AtDICE1 plants, suggesting that cellulose biosynthesis was compromised in the 35S::AtDICE1 plants. Indeed, disturbed cortical microtubule arrangements in 35S::AtDICE1/GFP-TuA6 plants were observed, and the cellulose content was significantly reduced in 35S::AtDICE1 plants. A promoter::GUS analysis showed that AtDICE1 is mainly expressed in vascular tissue, and transient expression of GFP:AtDICE1 in tobacco suggests that AtDICE1 is probably localized in the endoplasmic reticulum (ER). In addition, the external N-terminal conserved domain of AtDICE1 was found to be necessary for AtDICE1 function. Whole transcriptome analyses of 35S::AtDICE1 revealed that many genes involved in cell wall modification and stress/defence responses were mis-regulated. Conclusions AtDICE1, a novel ER-localized transmembrane protein, may contribute to anisotropic cell elongation in the formation of vascular tissue by affecting cellulose biosynthesis.
Collapse
Affiliation(s)
- Phi-Yen Le
- Department of Plant & Environmental New Resources, Kyung Hee University, Yongin, Republic of Korea
| | - Hyung-Woo Jeon
- Department of Plant & Environmental New Resources, Kyung Hee University, Yongin, Republic of Korea
| | - Min-Ha Kim
- Department of Plant & Environmental New Resources, Kyung Hee University, Yongin, Republic of Korea
| | - Eung-Jun Park
- Division of Forest Biotechnology, Korea Forest Research Institute, Suwon, Republic of Korea
| | - Hyoshin Lee
- Division of Forest Biotechnology, Korea Forest Research Institute, Suwon, Republic of Korea
| | - Indeok Hwang
- Department of Horticulture and Department of Forestry, Michigan State University, East Lansing, MI, USA
| | - Kyung-Hwan Han
- Department of Horticulture and Department of Forestry, Michigan State University, East Lansing, MI, USA
| | - Jae-Heung Ko
- Department of Plant & Environmental New Resources, Kyung Hee University, Yongin, Republic of Korea
| |
Collapse
|
32
|
Yamaoka Y, Choi BY, Kim H, Shin S, Kim Y, Jang S, Song WY, Cho CH, Yoon HS, Kohno K, Lee Y. Identification and functional study of the endoplasmic reticulum stress sensor IRE1 in Chlamydomonas reinhardtii. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2018; 94:91-104. [PMID: 29385296 DOI: 10.1111/tpj.13844] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2017] [Revised: 01/07/2018] [Accepted: 01/15/2018] [Indexed: 06/07/2023]
Abstract
In many eukaryotes, endoplasmic reticulum (ER) stress activates the unfolded protein response (UPR) via the transmembrane endoribonuclease IRE1 to maintain ER homeostasis. The ER stress response in microalgae has not been studied in detail. Here, we identified Chlamydomonas reinhardtii IRE1 (CrIRE1) and characterized two independent knock-down alleles of this gene. CrIRE1 is similar to IRE1s identified in budding yeast, plants, and humans, in terms of conserved domains, but differs in having the tandem zinc-finger domain at the C terminus. CrIRE1 was highly induced under ER stress conditions, and the expression of a chimeric protein consisting of the luminal N-terminal region of CrIRE1 fused to the cytosolic C-terminal region of yeast Ire1p rescued the yeast ∆ire1 mutant. Both allelic ire1 knock-down mutants ire1-1 and ire1-2 were much more sensitive than their parental strain CC-4533 to the ER stress inducers tunicamycin, dithiothreitol and brefeldin A. Treatment with a low concentration of tunicamycin resulted in growth arrest and cytolysis in ire1 mutants, but not in CC-4533 cells. Furthermore, in the mutants, ER stress marker gene expression was reduced, and reactive oxygen species (ROS) marker gene expression was increased. The survival of ire1 mutants treated with tunicamycin improved in the presence of the ROS scavenger glutathione, suggesting that ire1 mutants failed to maintain ROS levels under ER stress. Together, these results indicate that CrIRE1 functions as an important component of the ER stress response in Chlamydomonas, and suggest that the ER stress sensor IRE1 is highly conserved during the evolutionary history.
Collapse
Affiliation(s)
- Yasuyo Yamaoka
- Department of Life Science, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Bae Young Choi
- Department of Integrative Bioscience & Biotechnology, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Hanul Kim
- Department of Life Science, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Seungjun Shin
- Department of Integrative Bioscience & Biotechnology, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Yeongho Kim
- Department of Life Science, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Sunghoon Jang
- Department of Life Science, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Won-Yong Song
- Department of Life Science, Pohang University of Science and Technology, Pohang, 37673, Korea
| | - Chung H Cho
- Department of Biological Sciences, Sungkyunkwan University, Suwon, 16419, Korea
| | - Hwan Su Yoon
- Department of Biological Sciences, Sungkyunkwan University, Suwon, 16419, Korea
| | - Kenji Kohno
- Graduate School of Biological Sciences and Institute for Research Initiatives, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Youngsook Lee
- Department of Life Science, Pohang University of Science and Technology, Pohang, 37673, Korea
- Department of Integrative Bioscience & Biotechnology, Pohang University of Science and Technology, Pohang, 37673, Korea
| |
Collapse
|
33
|
Singh N, Swain S, Singh A, Nandi AK. AtOZF1 Positively Regulates Defense Against Bacterial Pathogens and NPR1-Independent Salicylic Acid Signaling. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2018; 31:323-333. [PMID: 29327969 DOI: 10.1094/mpmi-08-17-0208-r] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
Plant hormone salicylic acid (SA) plays critical roles in defense signaling against biotrophic pathogens. Pathogen inoculation leads to SA accumulation in plants. SA activates a transactivator protein NPR1, which, in turn, transcriptionally activates many defense response genes. Reports also suggest the presence of NPR1-independent pathways for SA signaling in Arabidopsis. Here, we report the characterization of a zinc-finger protein-coding gene AtOZF1 that positively influences NPR1-independent SA signaling. Mutants of AtOZF1 are compromised, whereas AtOZF1-overexpressing plants are hyperactive for defense against virulent and avirulent pathogens. AtOZF1 expression is SA-inducible. AtOZF1 function is not required for pathogenesis-associated biosynthesis and accumulation of SA. However, it is required for SA responsiveness. By generating atozf1npr1 double mutant, we show that contributions of these two genes are additive in terms of defense. We identified AtOZF1-interacting proteins by a yeast-two-hybrid screening of an Arabidopsis cDNA library. VDAC2 and NHL3 are two AtOZF1-interacting proteins, which are positive regulators of basal defense. AtOZF1 interacts with NHL3 and VDAC2 in plasma membrane and mitochondria, respectively. Our results demonstrate that AtOZF1 coordinates multiple steps of plant-pathogen interaction.
Collapse
Affiliation(s)
- Nidhi Singh
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Swadhin Swain
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Anupriya Singh
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - Ashis Kumar Nandi
- School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| |
Collapse
|
34
|
Huang P, Yoshida H, Yano K, Kinoshita S, Kawai K, Koketsu E, Hattori M, Takehara S, Huang J, Hirano K, Ordonio RL, Matsuoka M, Ueguchi-Tanaka M. OsIDD2, a zinc finger and INDETERMINATE DOMAIN protein, regulates secondary cell wall formation. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2018; 60:130-143. [PMID: 28574161 DOI: 10.1111/jipb.12557] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Accepted: 05/29/2017] [Indexed: 05/22/2023]
Abstract
Previously, we found 123 transcription factors (TFs) as candidate regulators of secondary cell wall (SCW) formation in rice by using phylogenetic and co-expression network analyses. Among them, we examined in this work the role of OsIDD2, a zinc finger and indeterminate domain (IDD) family TF. Its overexpressors showed dwarfism, fragile leaves, and decreased lignin content, which are typical phenotypes of plants defective in SCW formation, whereas its knockout plants showed slightly increased lignin content. The RNA-seq and quantitative reverse transcription polymerase chain reaction analyses confirmed that some lignin biosynthetic genes were downregulated in the OsIDD2-overexpressing plants, and revealed the same case for other genes involved in cellulose synthesis and sucrose metabolism. The transient expression assay using rice protoplasts revealed that OsIDD2 negatively regulates the transcription of genes involved in lignin biosynthesis, cinnamyl alcohol dehydrogenase 2 and 3 (CAD2 and 3), and sucrose metabolism, sucrose synthase 5 (SUS5), whereas an AlphaScreen assay, which can detect the interaction between TFs and their target DNA sequences, directly confirmed the interaction between OsIDD2 and the target sequences located in the promoter regions of CAD2 and CAD3. Based on these observations, we conclude that OsIDD2 is negatively involved in SCW formation and other biological events by downregulating its target genes.
Collapse
Affiliation(s)
- Peng Huang
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Hideki Yoshida
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Kenji Yano
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo 113-8657, Japan
| | - Shunsuke Kinoshita
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Kyosuke Kawai
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Eriko Koketsu
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Masako Hattori
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Sayaka Takehara
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Ji Huang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Ko Hirano
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | - Reynante Lacsamana Ordonio
- Plant Breeding and Biotechnology Division, Philippine Rice Research Institute, Maligaya, Science City of Munoz 3119, The Philippines
| | - Makoto Matsuoka
- Bioscience and Biotechnology Center, Nagoya University, Nagoya 464-8601, Japan
| | | |
Collapse
|
35
|
A Knock-In Tristetraprolin (TTP) Zinc Finger Point Mutation in Mice: Comparison with Complete TTP Deficiency. Mol Cell Biol 2018; 38:MCB.00488-17. [PMID: 29203639 DOI: 10.1128/mcb.00488-17] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2017] [Accepted: 11/25/2017] [Indexed: 01/09/2023] Open
Abstract
Tristetraprolin (TTP) is a tandem CCCH zinc finger protein that can bind to AU-rich element-containing mRNAs and promote their decay. TTP knockout mice develop a severe inflammatory syndrome, largely due to excess tumor necrosis factor (TNF), whose mRNA is a direct target of TTP binding and destabilization. TTP's RNA binding activity and its ability to promote mRNA decay are lost when one of the zinc-coordinating residues of either zinc finger is mutated. To address several long-standing questions about TTP activity in intact animals, we developed a knock-in mouse with a cysteine-to-arginine mutation within the first zinc finger. Homozygous knock-in mice developed a severe inflammatory syndrome that was essentially identical to that of complete TTP deficiency, suggesting that TTP's critical anti-inflammatory role in mammalian physiology is secondary to its ability to bind RNA. In addition, there was no evidence for a "dominant-negative" effect of the mutant allele in heterozygotes, as suggested by previous experiments. Finally, mRNA decay experiments in mutant macrophages demonstrated that TTP can regulate the stability of its own mRNA, albeit to a minor extent. These studies suggest that RNA binding is an essential first step in the physiological activities of members of this protein family.
Collapse
|
36
|
Yang Y, Yu Y, Liang Y, Anderson CT, Cao J. A Profusion of Molecular Scissors for Pectins: Classification, Expression, and Functions of Plant Polygalacturonases. FRONTIERS IN PLANT SCIENCE 2018; 9:1208. [PMID: 30154820 PMCID: PMC6102391 DOI: 10.3389/fpls.2018.01208] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Accepted: 07/27/2018] [Indexed: 05/21/2023]
Abstract
In plants, the construction, differentiation, maturation, and degradation of the cell wall are essential for development. Pectins, which are major constituents of primary cell walls in eudicots, function in multiple developmental processes through their synthesis, modification, and degradation. Several pectin modifying enzymes regulate pectin degradation via different modes of action. Polygalacturonases (PGs), which function in the last step of pectin degradation, are a crucial class of pectin-modifying enzymes. Based on differences in their hydrolyzing activities, PGs can be divided into three main types: exo-PGs, endo-PGs, and rhamno-PGs. Their functions were initially investigated based on the expression patterns of PG genes and measurements of total PG activity in organs. In most plant species, PGs are encoded by a large, multigene family. However, due to the lack of genome sequencing data in early studies, the number of identified PG genes was initially limited. Little was initially known about the evolution and expression patterns of PG family members in different species. Furthermore, the functions of PGs in cell dynamics and developmental processes, as well as the regulatory pathways that govern these functions, are far from fully understood. In this review, we focus on how recent studies have begun to fill in these blanks. On the basis of identified PG family members in multiple species, we review their structural characteristics, classification, and molecular evolution in terms of plant phylogenetics. We also highlight the diverse expression patterns and biological functions of PGs during various developmental processes, as well as their mechanisms of action in cell dynamic processes. How PG functions are potentially regulated by hormones, transcription factors, environmental factors, pH and Ca2+ is discussed, indicating directions for future research into PG function and regulation.
Collapse
Affiliation(s)
- Yang Yang
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture – Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, China
| | - Youjian Yu
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
- Department of Horticulture, College of Agriculture and Food Science, Zhejiang A & F University, Hangzhou, China
| | - Ying Liang
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture – Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, China
| | - Charles T. Anderson
- Department of Biology, The Pennsylvania State University, University Park, Pennsylvania, PA, United States
- Center for Lignocellulose Structure and Formation, The Pennsylvania State University, University Park, Pennsylvania, PA, United States
| | - Jiashu Cao
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture – Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Hangzhou, China
- *Correspondence: Jiashu Cao,
| |
Collapse
|
37
|
Liu H, Huang R, Ma J, Sui S, Guo Y, Liu D, Li Z, Lin Y, Li M. Two C3H Type Zinc Finger Protein Genes, CpCZF1 and CpCZF2, from Chimonanthus praecox Affect Stamen Development in Arabidopsis. Genes (Basel) 2017; 8:E199. [PMID: 28796196 PMCID: PMC5575663 DOI: 10.3390/genes8080199] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2017] [Revised: 07/24/2017] [Accepted: 08/07/2017] [Indexed: 12/13/2022] Open
Abstract
Wintersweet (Chimonanthus praecox) is a popular garden plant because of its flowering time, sweet fragrance, and ornamental value. However, research into the molecular mechanism that regulates flower development in wintersweet is still limited. In this study, we sought to investigate the molecular characteristics, expression patterns, and potential functions of two C3H-type zinc finger (CZF) protein genes, CpCZF1 and CpCZF2, which were isolated from the wintersweet flowers based on the flower developmental transcriptome database. CpCZF1 and CpCZF2 were more highly expressed in flower organs than in vegetative tissues, and during the flower development, their expression profiles were associated with flower primordial differentiation, especially that of petal and stamen primordial differentiation. Overexpression of either CpCZF1 or CpCZF2 caused alterations on stamens in transgenic Arabidopsis. The expression levels of the stamen identity-related genes, such as AGAMOUS (AG), PISTILLATA (PI), SEPALLATA1 (SEP1), SEPALLATA2 (SEP2), SEPALLATA3 (SEP3), APETALA1 (AP1), APETALA2 (AP2), and boundary gene RABBIT EAR (RBE) were significantly up-regulated in CpCZF1 overexpression lines. Additionally, the transcripts of AG, PI, APETALA3SEP1-3, AP1, and RBE were markedly increased in CpCZF2 overexpressed plant inflorescences. Moreover, CpCZF1 and CpCZF2 could interact with each other by using yeast two-hybrid and bimolecular fluorescence complementation assays. Our results suggest that CpCZF1 and CpCZF2 may be involved in the regulation of stamen development and cause the formation of abnormal flowers in transgenic Arabidopsis plants.
Collapse
Affiliation(s)
- Huamin Liu
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Renwei Huang
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Jing Ma
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Shunzhao Sui
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Yulong Guo
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Daofeng Liu
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Zhineng Li
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| | - Yechun Lin
- Upland Flue-Cured Tobacco Quality and Ecology Key Laboratory of China Tobacco, Guizhou Academy of Tobacco Science, Guiyang 550003, China.
| | - Mingyang Li
- Chongqing Engineering Research Center for Floriculture, Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, College of Horticulture and Landscape, Southwest University, Chongqing 400715, China.
| |
Collapse
|
38
|
Han M, Jin X, Yao W, Kong L, Huang G, Tao Y, Li L, Wang X, Wang Y. A Mini Zinc-Finger Protein (MIF) from Gerbera hybrida Activates the GASA Protein Family Gene, GEG, to Inhibit Ray Petal Elongation. FRONTIERS IN PLANT SCIENCE 2017; 8:1649. [PMID: 29018462 PMCID: PMC5615213 DOI: 10.3389/fpls.2017.01649] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2017] [Accepted: 09/08/2017] [Indexed: 05/19/2023]
Abstract
Petal appearance is an important horticultural trail that is generally used to evaluate the ornamental value of plants. However, knowledge of the molecular regulation of petal growth is mostly derived from analyses of Arabidopsis thaliana, and relatively little is known about this process in ornamental plants. Previously, GEG (Gerbera hybrida homolog of the gibberellin [GA]-stimulated transcript 1 [GAST1] from tomato), a gene from the GA stimulated Arabidopsis (GASA) family, was reported to be an inhibitor of ray petal growth in the ornamental species, G. hybrida. To explore the molecular regulatory mechanism of GEG in petal growth inhibition, a mini zinc-finger protein (MIF) was identified using yeast one-hybrid (Y1H) screen. The direct binding of GhMIF to the GEG promoter was verified by using an electrophoretic mobility shift assay and a dual-luciferase assay. A yeast two-hybrid (Y2H) revealed that GhMIF acts as a transcriptional activator. Transient transformation assay indicated that GhMIF is involved in inhibiting ray petal elongation by activating the expression of GEG. Spatiotemporal expression analyses and hormone treatment assay showed that the expression of GhMIF and GEG is coordinated during petal development. Taken together, these results suggest that GhMIF acts as a direct transcriptional activator of GEG, a gene from the GASA protein family to regulate the petal elongation.
Collapse
Affiliation(s)
- Meixiang Han
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Xuefeng Jin
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Wei Yao
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Lingjie Kong
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Gan Huang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Yujin Tao
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Lingfei Li
- Key Laboratory of Southern Subtropical Plant Diversity, Fairy Lake Botanical Garden, Shenzhen and Chinese Academy of SciencesShenzhen, China
| | - Xiaojing Wang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
| | - Yaqin Wang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal UniversityGuangzhou, China
- *Correspondence: Yaqin Wang,
| |
Collapse
|
39
|
Bhasin H, Hülskamp M. ANGUSTIFOLIA, a Plant Homolog of CtBP/BARS Localizes to Stress Granules and Regulates Their Formation. FRONTIERS IN PLANT SCIENCE 2017; 8:1004. [PMID: 28659951 PMCID: PMC5469197 DOI: 10.3389/fpls.2017.01004] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2017] [Accepted: 05/26/2017] [Indexed: 05/12/2023]
Abstract
The ANGUSTIFOLIA (AN) gene in Arabidopsis is important for a plethora of morphological phenotypes. Recently, AN was also reported to be involved in responses to biotic and abiotic stresses. It encodes a homolog of the animal C-terminal binding proteins (CtBPs). In contrast to animal CtBPs, AN does not appear to function as a transcriptional co-repressor and instead functions outside nucleus where it might be involved in Golgi-associated membrane trafficking. In this study, we report a novel and unexplored role of AN as a component of stress granules (SGs). Interaction studies identified several RNA binding proteins that are associated with AN. AN co-localizes with several messenger ribonucleoprotein granule markers to SGs in a stress dependent manner. an mutants exhibit an altered SG formation. We provide evidence that the NAD(H) binding domain of AN is relevant in this context as proteins carrying mutations in this domain localize to a much higher degree to SGs and strongly reduce AN dimerization and its interaction with one interactor but not the others. Finally, we show that AN is a negative regulator of salt and osmotic stress responses in Arabidopsis suggesting a functional relevance in SGs.
Collapse
|
40
|
Kim DW, Jeon SJ, Hwang SM, Hong JC, Bahk JD. The C3H-type zinc finger protein GDS1/C3H42 is a nuclear-speckle-localized protein that is essential for normal growth and development in Arabidopsis. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2016; 250:141-153. [PMID: 27457991 DOI: 10.1016/j.plantsci.2016.06.010] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2016] [Revised: 06/10/2016] [Accepted: 06/12/2016] [Indexed: 05/27/2023]
Abstract
Eukaryotic C3H-type zinc finger proteins (Znfs) comprise a large family of regulatory proteins involved in many aspects of plant stress response, growth and development. However, compared to mammalian, only a few plant Znfs have been functionally characterized. Here, T-DNA inserted gds1 (growth, development and splicing 1) mutant, displayed abnormal growth throughout the lifecycle owing to the reduction of cell size and number. Inverse PCR analysis revealed that the abnormal growth was caused by the disruption of At3g47120, which encodes a C3H42 protein belonging to the C-X7-C-X5-C-X3-H class of the Znf family. GDS1 was ubiquitously transcribed, but shows high levels of expression in young seedling and unexpanded new leaves. In gds1, the transcripts of many growth- and development-related genes were down-regulated, and the auxin response was dramatically reduced. A fluorescence-based assay revealed that the GDS1 protein was localized to the nucleus, prominently in the speckle compartments. Its arginine/serine dipeptide-rich-like (RS-like) domain was essential for nuclear localization. In addition, the SR1, SRm102 and U1-70K components of the U1 spliceosome interacted with GDS1 in the nuclear speckle compartments. Taken together, these suggest that GDS1, a nuclear-speckle-associated Znf, might play a significant role in splicing during plant growth and development.
Collapse
Affiliation(s)
- Dae Won Kim
- Division of Applied Life Science (BK21Plus), PMBBRC, Graduate School of Gyeongsang National University, Jinju 660-701, Republic of Korea
| | - Su Jeong Jeon
- Division of Applied Life Science (BK21Plus), PMBBRC, Graduate School of Gyeongsang National University, Jinju 660-701, Republic of Korea
| | - Sung Min Hwang
- Division of Applied Life Science (BK21Plus), PMBBRC, Graduate School of Gyeongsang National University, Jinju 660-701, Republic of Korea
| | - Jong Chan Hong
- Division of Applied Life Science (BK21Plus), PMBBRC, Graduate School of Gyeongsang National University, Jinju 660-701, Republic of Korea
| | - Jeong Dong Bahk
- Division of Applied Life Science (BK21Plus), PMBBRC, Graduate School of Gyeongsang National University, Jinju 660-701, Republic of Korea.
| |
Collapse
|
41
|
Wang Y, He J, Yang L, Wang Y, Chen W, Wan S, Chu P, Guan R. Fine mapping of a major locus controlling plant height using a high-density single-nucleotide polymorphism map in Brassica napus. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2016; 129:1479-91. [PMID: 27147069 DOI: 10.1007/s00122-016-2718-y] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2015] [Accepted: 04/19/2016] [Indexed: 05/08/2023]
Abstract
A saturated map was constructed using SNP markers to fine-map a Brassica napus dominant locus for dwarf mutant onto a 152-kb interval of chromosome A09 containing 14 genes. Major dwarf loci in crops may play important roles in crop improvement and developmental genetics. The present study investigated and fine-mapped a Brassica napus dwarf-dominant locus BnDWF1. Plants carrying the BnDWF1 locus in populations derived from 'zhongshuang11' and Bndwf1 have deep-green leaves and dwarf architecture that differ sharply from tall plants with normal green leaves. BnDWF1, as a major locus controlling plant height, showed a very high heritability (0.91-0.95). To map this locus, a high-density single-nucleotide polymorphism map was constructed, and the BnDWF1 locus was mapped at an interval between single-nucleotide polymorphism markers, M19704 and M19695, on linkage group A09 of B. napus, with five co-segregating single-nucleotide polymorphism markers. Furthermore, fine mapping narrowed the interval harboring BnDWF1 to 152 kb in length in B. napus. This interval contains 14 annotated or predicted genes, seven of which are candidates responsible for the dwarf trait. This study provides an effective foundation for the study of plant height regulation and plant type breeding in B. napus.
Collapse
Affiliation(s)
- Yankun Wang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China
| | - Jianbo He
- Soybean Research Institute, Nanjing Agricultural University, Nanjing, 210095, Jiangsu, China
| | - Li Yang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China
| | - Yu Wang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China
| | - Wenjing Chen
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China
| | - Shubei Wan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China
| | - Pu Chu
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China
| | - Rongzhan Guan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China.
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing, Jiangsu, China.
| |
Collapse
|
42
|
Woo HR, Koo HJ, Kim J, Jeong H, Yang JO, Lee IH, Jun JH, Choi SH, Park SJ, Kang B, Kim YW, Phee BK, Kim JH, Seo C, Park C, Kim SC, Park S, Lee B, Lee S, Hwang D, Nam HG, Lim PO. Programming of Plant Leaf Senescence with Temporal and Inter-Organellar Coordination of Transcriptome in Arabidopsis. PLANT PHYSIOLOGY 2016; 171:452-67. [PMID: 26966169 PMCID: PMC4854694 DOI: 10.1104/pp.15.01929] [Citation(s) in RCA: 92] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2015] [Accepted: 03/07/2016] [Indexed: 05/20/2023]
Abstract
Plant leaves, harvesting light energy and fixing CO2, are a major source of foods on the earth. Leaves undergo developmental and physiological shifts during their lifespan, ending with senescence and death. We characterized the key regulatory features of the leaf transcriptome during aging by analyzing total- and small-RNA transcriptomes throughout the lifespan of Arabidopsis (Arabidopsis thaliana) leaves at multidimensions, including age, RNA-type, and organelle. Intriguingly, senescing leaves showed more coordinated temporal changes in transcriptomes than growing leaves, with sophisticated regulatory networks comprising transcription factors and diverse small regulatory RNAs. The chloroplast transcriptome, but not the mitochondrial transcriptome, showed major changes during leaf aging, with a strongly shared expression pattern of nuclear transcripts encoding chloroplast-targeted proteins. Thus, unlike animal aging, leaf senescence proceeds with tight temporal and distinct interorganellar coordination of various transcriptomes that would be critical for the highly regulated degeneration and nutrient recycling contributing to plant fitness and productivity.
Collapse
Affiliation(s)
- Hye Ryun Woo
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Hee Jung Koo
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Jeongsik Kim
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Hyobin Jeong
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Jin Ok Yang
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Il Hwan Lee
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Ji Hyung Jun
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Seung Hee Choi
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Su Jin Park
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Byeongsoo Kang
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - You Wang Kim
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Bong-Kwan Phee
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Jin Hee Kim
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Chaehwa Seo
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Charny Park
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Sang Cheol Kim
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Seongjin Park
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Byungwook Lee
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Sanghyuk Lee
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Daehee Hwang
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Hong Gil Nam
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| | - Pyung Ok Lim
- Department of New Biology, DGIST, Daegu, Republic of Korea (H.R.W., D.H., H.G.N., P.O.L.);Center for Plant Aging Research, Institute for Basic Science (IBS), Daegu, Republic of Korea (H.J.K., J.K., H.J., I.H.L., S.H.C., S.J.P., B.K., Y.W.K., B.-K.P., J.H.K., D.H., H.G.N.);School of Interdisciplinary Bioscience and Bioengineering, POSTECH, Pohang, Republic of Korea (H.J.K.);Korean Bioinformation Center, KRIBB, Daejeon, Republic of Korea (J.O.Y., S.C.K., S.P., B.L.);Division of Molecular Life Sciences, POSTECH, Pohang, Republic of Korea (I.H.L., J.H.J., S.H.C.);Division of Integrative Biosciences and Biotechnologies, POSTECH, Pohang, Republic of Korea (S.J.P.);DNA Link Inc., Seoul, Republic of Korea (C.S.); andEwha Research Center for Systems Biology and Department of Life Science, Ewha Womans University, Seoul, Republic of Korea (C.P., S.L.)
| |
Collapse
|
43
|
Barrière Y, Courtial A, Chateigner-Boutin AL, Denoue D, Grima-Pettenati J. Breeding maize for silage and biofuel production, an illustration of a step forward with the genome sequence. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2016; 242:310-329. [PMID: 26566848 DOI: 10.1016/j.plantsci.2015.08.007] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2015] [Revised: 08/04/2015] [Accepted: 08/13/2015] [Indexed: 05/21/2023]
Abstract
The knowledge of the gene families mostly impacting cell wall digestibility variations would significantly increase the efficiency of marker-assisted selection when breeding maize and grass varieties with improved silage feeding value and/or with better straw fermentability into alcohol or methane. The maize genome sequence of the B73 inbred line was released at the end of 2009, opening up new avenues to identify the genetic determinants of quantitative traits. Colocalizations between a large set of candidate genes putatively involved in secondary cell wall assembly and QTLs for cell wall digestibility (IVNDFD) were then investigated, considering physical positions of both genes and QTLs. Based on available data from six RIL progenies, 59 QTLs corresponding to 38 non-overlapping positions were matched up with a list of 442 genes distributed all over the genome. Altogether, 176 genes colocalized with IVNDFD QTLs and most often, several candidate genes colocalized at each QTL position. Frequent QTL colocalizations were found firstly with genes encoding ZmMYB and ZmNAC transcription factors, and secondly with genes encoding zinc finger, bHLH, and xylogen regulation factors. In contrast, close colocalizations were less frequent with genes involved in monolignol biosynthesis, and found only with the C4H2, CCoAOMT5, and CCR1 genes. Close colocalizations were also infrequent with genes involved in cell wall feruloylation and cross-linkages. Altogether, investigated colocalizations between candidate genes and cell wall digestibility QTLs suggested a prevalent role of regulation factors over constitutive cell wall genes on digestibility variations.
Collapse
Affiliation(s)
- Yves Barrière
- INRA, UR889, Unité de Génétique et d'Amélioration des Plantes Fourragères, 86600 Lusignan, France.
| | - Audrey Courtial
- LRSV, Laboratoire de Recherche en Sciences Végétales, UMR5546, Université Paul Sabatier Toulouse III / CNRS, Auzeville, BP 42617, 31326 Castanet-Tolosan, France; INRA, US1258, Centre National de Ressources Génomiques Végétales, CS 52627, 31326 Castanet-Tolosan, France
| | | | - Dominique Denoue
- INRA, UR889, Unité de Génétique et d'Amélioration des Plantes Fourragères, 86600 Lusignan, France
| | - Jacqueline Grima-Pettenati
- LRSV, Laboratoire de Recherche en Sciences Végétales, UMR5546, Université Paul Sabatier Toulouse III / CNRS, Auzeville, BP 42617, 31326 Castanet-Tolosan, France
| |
Collapse
|
44
|
Du Q, Avci U, Li S, Gallego-Giraldo L, Pattathil S, Qi L, Hahn MG, Wang H. Activation of miR165b represses AtHB15 expression and induces pith secondary wall development in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2015; 83:388-400. [PMID: 26043238 DOI: 10.1111/tpj.12897] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2015] [Revised: 05/20/2015] [Accepted: 05/22/2015] [Indexed: 06/04/2023]
Abstract
Secondary cell-wall thickening takes place in sclerenchyma cells, but not in surrounding parenchyma cells. The molecular mechanism of switching on and off secondary wall synthesis in various cell types is still elusive. Here, we report the identification of a dominant mutant stp-2d showing secondary wall thickening in pith cells (STP). Immunohistochemistry assays confirmed accumulation of secondary cell walls in the pith cells of the stp-2d mutant. Activation of microRNA 165b (miR165b) expression is responsible for the STP phenotype, as demonstrated by transgenic over-expression experiments. The expression of three class III HD-ZIP transcription factor genes, including AtHB15, was repressed in the stp-2d mutant. Transgenic over-expression of a mutant form of AtHB15 that is resistant to miR165-mediated cleavage reversed the stp-2d mutant phenotype to wild-type, indicating that AtHB15 represses secondary wall development in pith. Characterization of two athb15 mutant alleles further confirmed that functional AtHB15 is necessary for retaining primary walls in parenchyma pith cells. Expression analyses of cell-wall synthetic genes and wall-related transcription factors indicated that a transcriptional pathway is involved in AtHB15 function. These results provide insight into the molecular mechanism of secondary cell-wall development.
Collapse
Affiliation(s)
- Qian Du
- Department of Plant Science and Landscape Architecture, University of Connecticut, Storrs, CT, 06269, USA
| | - Utku Avci
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA, 30602, USA
| | - Shengben Li
- Agricultural Genome Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 158120, China
| | - Lina Gallego-Giraldo
- Department of Biological Sciences, University of North Texas, Denton, TX, 76203, USA
| | - Sivakumar Pattathil
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA, 30602, USA
| | - Liying Qi
- Department of Plant Science and Landscape Architecture, University of Connecticut, Storrs, CT, 06269, USA
| | - Michael G Hahn
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA, 30602, USA
| | - Huanzhong Wang
- Department of Plant Science and Landscape Architecture, University of Connecticut, Storrs, CT, 06269, USA
| |
Collapse
|
45
|
Nakano Y, Yamaguchi M, Endo H, Rejab NA, Ohtani M. NAC-MYB-based transcriptional regulation of secondary cell wall biosynthesis in land plants. FRONTIERS IN PLANT SCIENCE 2015; 6:288. [PMID: 25999964 PMCID: PMC4419676 DOI: 10.3389/fpls.2015.00288] [Citation(s) in RCA: 277] [Impact Index Per Article: 30.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2015] [Accepted: 04/09/2015] [Indexed: 05/08/2023]
Abstract
Plant cells biosynthesize primary cell walls (PCW) in all cells and produce secondary cell walls (SCWs) in specific cell types that conduct water and/or provide mechanical support, such as xylem vessels and fibers. The characteristic mechanical stiffness, chemical recalcitrance, and hydrophobic nature of SCWs result from the organization of SCW-specific biopolymers, i.e., highly ordered cellulose, hemicellulose, and lignin. Synthesis of these SCW-specific biopolymers requires SCW-specific enzymes that are regulated by SCW-specific transcription factors. In this review, we summarize our current knowledge of the transcriptional regulation of SCW formation in plant cells. Advances in research on SCW biosynthesis during the past decade have expanded our understanding of the transcriptional regulation of SCW formation, particularly the functions of the NAC and MYB transcription factors. Focusing on the NAC-MYB-based transcriptional network, we discuss the regulatory systems that evolved in land plants to modify the cell wall to serve as a key component of structures that conduct water and provide mechanical support.
Collapse
Affiliation(s)
- Yoshimi Nakano
- Graduate School of Biological Sciences, Nara Institute of Science and TechnologyIkoma, Japan
| | - Masatoshi Yamaguchi
- Division of Strategic Research and Development, Graduate School of Science and Engineering, Saitama UniversitySaitama, Japan
- PRESTO (Precursory Research for Embryonic Science and Technology), Japan Science and Technology AgencyKawaguchi, Japan
| | - Hitoshi Endo
- Graduate School of Biological Sciences, Nara Institute of Science and TechnologyIkoma, Japan
| | - Nur Ardiyana Rejab
- Graduate School of Biological Sciences, Nara Institute of Science and TechnologyIkoma, Japan
- Faculty of Science, Institute of Biological Sciences, University of MalayaKuala Lumpur, Malaysia
| | - Misato Ohtani
- Graduate School of Biological Sciences, Nara Institute of Science and TechnologyIkoma, Japan
- Biomass Engineering Program Cooperation Division, RIKEN Center for Sustainable Resource ScienceYokohama, Japan
| |
Collapse
|
46
|
Chai G, Kong Y, Zhu M, Yu L, Qi G, Tang X, Wang Z, Cao Y, Yu C, Zhou G. Arabidopsis C3H14 and C3H15 have overlapping roles in the regulation of secondary wall thickening and anther development. JOURNAL OF EXPERIMENTAL BOTANY 2015; 66:2595-609. [PMID: 25732536 DOI: 10.1093/jxb/erv060] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Plant tandem CCCH zinc finger (TZF) proteins play diverse roles in developmental and adaptive processes. Arabidopsis C3H14 has been shown to act as a potential regulator of secondary wall biosynthesis. However, there is lack of direct evidence to support its functions in Arabidopsis. It is demonstrated here that C3H14 and its homologue C3H15 redundantly regulate secondary wall formation and that they additionally function in anther development. Plants with double, but not single, T-DNA mutants for C3H14 or C3H15 have few pollen grains and thinner stem secondary walls than the wild type. Plants homozygous for c3h14 and heterozygous for c3h15 [c3h14 c3h15(±)] have slightly thinner secondary walls than plants heterozygous for c3h14 and homozygous for c3h15 [c3h14(±) c3h15], and c3h14(±) c3h15 have lower fertility. Overexpression of C3H14 or C3H15 led to increased secondary wall thickness in stems and the ectopic deposition of secondary walls in various tissues, but did not affect anther morphology. Transcript profiles from the C3H14/15 overexpression and c3h14 c3h15 plants revealed marked changes in the expression of many genes associated with cell wall metabolism and pollen formation. Subcellular localization and biochemical analyses suggest that C3H14/15 might function at both the transcriptional and post-transcriptional levels.
Collapse
Affiliation(s)
- Guohua Chai
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Yingzhen Kong
- Key Llaboratory of Tobacco Gene Resource, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China
| | - Ming Zhu
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Li Yu
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Guang Qi
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Xianfeng Tang
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Zengguang Wang
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Yingping Cao
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Changjiang Yu
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Gongke Zhou
- Key Laboratory of Biofuels, Chinese Academy of Sciences, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| |
Collapse
|