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Zhang X, Chen H, Tian W, Gao Z, Du H, Ding S, Wang H. Overview of RING gene family in maize (Zea mays L.): ZmRING-93 enhances drought tolerance in transgenic Arabidopsis. BMC PLANT BIOLOGY 2025; 25:678. [PMID: 40405093 PMCID: PMC12096597 DOI: 10.1186/s12870-025-06683-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/30/2024] [Accepted: 05/06/2025] [Indexed: 05/24/2025]
Abstract
BACKGROUND RING-type E3 ligases are critical regulators of diverse plant processes, yet their roles in maize remain poorly defined, particularly in drought responses. To address this knowledge gap, we conducted an integrative analysis of maize RING genes, combining evolutionary profiling, and candidate-gene association studies to identify drought-associated candidates. Key genes were further characterized via quantitative expression profiling, subcellular localization, in vitro ubiquitination assay, and functional validation in transgenic Arabidopsis. This study aimed to provide new insights into the maize RING gene family's role in drought stress adaptation. RESULTS We employed three distinct methods and identified a total of 590 proteins. Phylogenetic analysis revealed that these proteins could be grouped into 11 separate clusters. Our findings suggested that the expansion of the RING family in maize was likely due to gene duplication events. Notably, genetic variations in ZmRING-93 were significantly associated with drought tolerance, and its expression was up-regulated under various abiotic stress conditions and hormone treatments. We further discovered that ZmRING-93 was a functional ubiquitin E3 ligase that localized to the nucleus, cytoplasm, and parts of the endoplasmic reticulum. Transgenic Arabidopsis plants overexpressing ZmRING-93 exhibited enhanced drought tolerance, with a lower water loss rate, further supporting the importance of ZmRING-93 in drought tolerance. CONCLUSIONS These findings revealed that ZmRING-93 contributed to drought tolerance in maize and provided a basis for further investigation of the role of RING domain-containing proteins.
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Affiliation(s)
- Xiaotian Zhang
- MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou, 434025, China
| | - Huili Chen
- MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou, 434025, China
| | - Wei Tian
- MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou, 434025, China
| | - Zihui Gao
- MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou, 434025, China
| | - Hewei Du
- College of Life Science, Yangtze University, Jingzhou, 434025, China
| | - Shuangcheng Ding
- MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou, 434025, China.
- Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, 434025, China.
| | - Hongwei Wang
- MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou, 434025, China.
- Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, 434025, China.
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Soni KK, Gurjar K, Ranjan A, Sinha S, Srivastava M, Verma V. Post-translational modifications control the signal at the crossroads of plant-pathogen interactions. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:6957-6979. [PMID: 39177255 DOI: 10.1093/jxb/erae358] [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: 06/14/2024] [Accepted: 08/22/2024] [Indexed: 08/24/2024]
Abstract
The co-evolution of plants and pathogens has enabled them to 'outsmart' each other by promoting their own defence responses and suppressing those of the other. While plants are reliant on their sophisticated immune signalling pathways, pathogens make use of effector proteins to achieve the objective. This entails rapid regulation of underlying molecular mechanisms for prompt induction of associated signalling events in both plants as well as pathogens. The past decade has witnessed the emergence of post-translational modification (PTM) of proteins as a key a factor in modulating cellular responses. The ability of PTMs to expand the functional diversity of the proteome and induce rapid changes at the appropriate time enables them to play crucial roles in the regulation of plant-pathogen interactions. Therefore, this review will delve into the intricate interplay of five major PTMs involved in plant defence and pathogen countermeasures. We discuss how plants employ PTMs to fortify their immune networks, and how pathogen effectors utilize/target host modification systems to gain entry into plants and cause disease. We also emphasize the need for identification of novel PTMs and propose the use of PTM pathways as potential targets for genome editing approaches.
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Affiliation(s)
- Kamlesh Kumar Soni
- Department of Biotechnology, AKS University, Satna, Madhya Pradesh-485001, India
| | - Kishan Gurjar
- Department of Biotechnology, School of Life Sciences, Central University of Rajasthan, Kishangarh, Ajmer, Rajasthan-305817, India
| | - Aastha Ranjan
- Department of Biotechnology, School of Life Sciences, Central University of Rajasthan, Kishangarh, Ajmer, Rajasthan-305817, India
| | - Shashank Sinha
- Department of Biotechnology, School of Life Sciences, Central University of Rajasthan, Kishangarh, Ajmer, Rajasthan-305817, India
| | - Moumita Srivastava
- Plant Biotechnology and Disease Biology, Rajiv Gandhi Centre for Biotechnology, Thycaud Post, Poojappura, Thiruvananthapuram, Kerala-695014, India
| | - Vivek Verma
- Department of Biotechnology, School of Life Sciences, Central University of Rajasthan, Kishangarh, Ajmer, Rajasthan-305817, India
- Plant Biotechnology Department, Gujarat Biotechnology University, Near Gujarat International Finance Tec City, Gandhinagar, Gujarat-382355, India
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Xie W, Lai X, Wu Y, Li Z, Zhu J, Huang Y, Zhang F. Transcription Factor and Protein Regulatory Network of PmACRE1 in Pinus massoniana Response to Pine Wilt Nematode Infection. PLANTS (BASEL, SWITZERLAND) 2024; 13:2672. [PMID: 39409542 PMCID: PMC11479228 DOI: 10.3390/plants13192672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/05/2024] [Revised: 09/17/2024] [Accepted: 09/20/2024] [Indexed: 10/20/2024]
Abstract
Pine wilt disease, caused by Bursaphelenchus xylophilus, is a highly destructive and contagious forest affliction. Often termed the "cancer" of pine trees, it severely impacts the growth of Masson pine (Pinus massoniana). Previous studies have demonstrated that ectopic expression of the PmACRE1 gene from P. massoniana in Arabidopsis thaliana notably enhances resistance to pine wilt nematode infection. To further elucidate the transcriptional regulation and protein interactions of the PmACRE1 in P. massoniana in response to pine wilt nematode infection, we cloned a 1984 bp promoter fragment of the PmACRE1 gene, a transient expression vector was constructed by fusing this promoter with the reporter GFP gene, which successfully activated the GFP expression. DNA pull-down assays identified PmMYB8 as a trans-acting factor regulating PmACRE1 gene expression. Subsequently, we found that the PmACRE1 protein interacts with several proteins, including the ATP synthase CF1 α subunit, ATP synthase CF1 β subunit, extracellular calcium-sensing receptor (PmCAS), caffeoyl-CoA 3-O-methyltransferase (PmCCoAOMT), glutathione peroxidase, NAD+-dependent glyceraldehyde-3-phosphate dehydrogenase, phosphoglycerate kinase 1, cinnamyl alcohol dehydrogenase, auxin response factor 16, and dehydrin 1 protein. Bimolecular fluorescence complementation (BiFC) assays confirmed the interactions between PmACRE1 and PmCCoAOMT, as well as PmCAS proteins in vitro. These findings provide preliminary insights into the regulatory role of PmACRE1 in P. massoniana's defense against pine wilt nematode infection.
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Affiliation(s)
- Wanfeng Xie
- Jinshan College, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (W.X.); (Z.L.)
- Key Laboratory of Integrated Pest Management in Ecological Forests (Fujian Province University), Fujian Agriculture and Forestry University, Fuzhou 350002, China; (X.L.); (Y.W.); (J.Z.)
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Xiaolin Lai
- Key Laboratory of Integrated Pest Management in Ecological Forests (Fujian Province University), Fujian Agriculture and Forestry University, Fuzhou 350002, China; (X.L.); (Y.W.); (J.Z.)
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Yuxiao Wu
- Key Laboratory of Integrated Pest Management in Ecological Forests (Fujian Province University), Fujian Agriculture and Forestry University, Fuzhou 350002, China; (X.L.); (Y.W.); (J.Z.)
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zheyu Li
- Jinshan College, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (W.X.); (Z.L.)
| | - Jingwen Zhu
- Key Laboratory of Integrated Pest Management in Ecological Forests (Fujian Province University), Fujian Agriculture and Forestry University, Fuzhou 350002, China; (X.L.); (Y.W.); (J.Z.)
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Yu Huang
- Fujian Academy of Forestry, Fuzhou 350000, China
| | - Feiping Zhang
- Key Laboratory of Integrated Pest Management in Ecological Forests (Fujian Province University), Fujian Agriculture and Forestry University, Fuzhou 350002, China; (X.L.); (Y.W.); (J.Z.)
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou 350002, China
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Mao Y, Yuan Y, Gao Y, Zeng L, Fan S, Luo J, Sun D. A tree peony RING-H2 finger protein, PsATL33, plays an essential role in cold-induced bud dormancy release by regulating gibberellin content. FRONTIERS IN PLANT SCIENCE 2024; 15:1395530. [PMID: 38887463 PMCID: PMC11180761 DOI: 10.3389/fpls.2024.1395530] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Accepted: 05/16/2024] [Indexed: 06/20/2024]
Abstract
Bud dormancy is crucial for woody perennial plants to resist low-temperature stress in winter. However, the molecular regulatory mechanisms underlying bud dormancy release are largely unclear. Here, a tree peony (Paeonia suffruticosa) transcript ARABIDOPSIS TOXICOS EN LEVADURA 33 (PsATL33), encoding a RING-H2 finger protein, was selected from previously generated RNA sequencing data of chilling-treated buds. The objective of this study is to investigate the role of PsATL33 in the regulation of cold-induced bud dormancy release. Subcellular localization assay revealed that PsATL33 was localized to the nucleus and plasma membrane. Reverse transcription-quantitative PCR analysis showed that PsATL33 was dramatically upregulated during cold-triggered bud dormancy release. Exogenous treatments with gibberellin (GA3) increased, but abscisic acid (ABA) inhibited the transcription of PsATL33. Ectopic transformation assay indicated that overexpression of PsATL33 in petunia promoted seed germination, plant growth, and axillary bud break. Silencing of PsATL33 in tree peony through virus-induced gene silencing assay delayed bud dormancy release. tobacco rattle virus (TRV)-PsATL33-infected buds exhibited reduced expression levels of dormancy break-related genes EARLY BUD-BREAK 1 (PsEBB1) and CARBOXYLESTERASE 15 (PsCXE15). Silencing of PsATL33 decreased the accumulation of bioactive GAs, GA1 and GA3, rather than ABA. Transcript levels of several genes involved in GA biosynthesis and signaling, including GA20-OXIDASE 1 (PsGA20ox1), GA3-OXIDASE 1 (PsGA3ox1), PsGA3ox3, GA2-OXIDASE 1 (PsGA2ox1), and GA-INSENSITIVE 1A (PsGAI1A), were changed by PsATL33 silencing. Taken together, our data suggest that PsATL33 functions as a positive regulator of cold-induced bud dormancy release by modulating GA production.
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Affiliation(s)
- Yanxiang Mao
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
- National Engineering Technology Research Center for Oil Peony, Northwest A&F University, Yangling, Shaanxi, China
| | - Yanping Yuan
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
- National Engineering Technology Research Center for Oil Peony, Northwest A&F University, Yangling, Shaanxi, China
| | - Yeshen Gao
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
| | - Lingling Zeng
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
| | - Siyu Fan
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
- National Engineering Technology Research Center for Oil Peony, Northwest A&F University, Yangling, Shaanxi, China
| | - Jianrang Luo
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
- National Engineering Technology Research Center for Oil Peony, Northwest A&F University, Yangling, Shaanxi, China
| | - Daoyang Sun
- College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi, China
- National Engineering Technology Research Center for Oil Peony, Northwest A&F University, Yangling, Shaanxi, China
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Wu M, Musazade E, Yang X, Yin L, Zhao Z, Zhang Y, Lu J, Guo L. ATL Protein Family: Novel Regulators in Plant Response to Environmental Stresses. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:20419-20440. [PMID: 38100516 DOI: 10.1021/acs.jafc.3c05603] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/17/2023]
Abstract
Plants actively develop intricate regulatory mechanisms to counteract the harmful effects of environmental stresses. The ubiquitin-proteasome pathway, a crucial mechanism, employs E3 ligases (E3s) to facilitate the conjugation of ubiquitin to specific target substrates, effectively marking them for proteolytic degradation. E3s play critical roles in many biological processes, including phytohormonal signaling and adaptation to environmental stresses. Arabidopsis Toxicosa en Levadura (ATL) proteins, belonging to a subfamily of RING-H2 E3s, actively modulate diverse physiological processes and plant responses to environmental stresses. Despite studies on the functions of certain ATL family members in rice and Arabidopsis, most ATLs still need more comprehensive study. This review presents an overview of the ubiquitin-proteasome system (UPS), specifically focusing on the pivotal role of E3s and associated enzymes in plant development and environmental adaptation. Our study seeks to unveil the active modulation of plant responses to environmental stresses by E3s and ATLs, emphasizing the significance of ATLs within this intricate process. By emphasizing the importance of studying the roles of E3s and ATLs, our review contributes to developing more resilient plant varieties and promoting sustainable agricultural practices while establishing a research roadmap for the future.
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Affiliation(s)
- Ming Wu
- College of Life Sciences, Jilin Agricultural University, Changchun 130118, P.R. China
| | - Elshan Musazade
- College of Life Sciences, Jilin Agricultural University, Changchun 130118, P.R. China
| | - Xiao Yang
- College of Life Sciences, Jilin Agricultural University, Changchun 130118, P.R. China
| | - Le Yin
- College of Life Sciences, Jilin Agricultural University, Changchun 130118, P.R. China
| | - Zizhu Zhao
- College of Life Sciences, Jilin Agricultural University, Changchun 130118, P.R. China
| | - Yu Zhang
- Land Requisition Affairs Center of Jilin Province, Changchun 130062, P.R. China
| | - Jingmei Lu
- School of Life Sciences, Northeast Normal University, Changchun 130024, P.R. China
| | - Liquan Guo
- College of Life Sciences, Jilin Agricultural University, Changchun 130118, P.R. China
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6
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Xie W, Xu X, Qiu W, Lai X, Liu M, Zhang F. Expression of PmACRE1 in Arabidopsis thaliana enables host defence against Bursaphelenchus xylophilus infection. BMC PLANT BIOLOGY 2022; 22:541. [PMID: 36418942 PMCID: PMC9682698 DOI: 10.1186/s12870-022-03929-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/06/2022] [Accepted: 11/07/2022] [Indexed: 06/16/2023]
Abstract
BACKGROUND Pine wilt disease (PWD) is a destructive disease that endangers pine trees, resulting in the wilting, with yellowing and browning of the needles, and eventually the death of the trees. Previous studies showed that the Avr9/Cf-9 rapidly elicited (PmACRE1) gene was downregulated by Bursaphelenchus xylophilus infection, suggesting a correlation between PmACRE1 expression and pine tolerance. Here, we used the expression of PmACRE1 in Arabidopsis thaliana to evaluate the role of PmACRE1 in the regulation of host defence against B. xylophilus infection. RESULTS Our results showed that the transformation of PmACRE1 into A. thaliana enhanced plant resistance to the pine wood nematode (PWN); that is, the leaves of the transgenic line remained healthy for a longer period than those of the blank vector group. Ascorbate peroxidase (APX) activity and total phenolic acid and total flavonoid contents were higher in the transgenic line than in the control line. Widely targeted metabolomics analysis of the global secondary metabolites in the transgenic line and the vector control line showed that the contents of 30 compounds were significantly different between these two lines; specifically, the levels of crotaline, neohesperidin, nobiletin, vestitol, and 11 other compounds were significantly increased in the transgenic line. The studies also showed that the ACRE1 protein interacted with serine hydroxymethyltransferase, catalase domain-containing protein, myrosinase, dihydrolipoyl dehydrogenase, ketol-acid reductoisomerase, geranylgeranyl diphosphate reductase, S-adenosylmethionine synthase, glutamine synthetase, and others to comprehensively regulate plant resistance. CONCLUSIONS Taken together, these results indicate that PmACRE1 has a potential role in the regulation of plant defence against PWNs.
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Affiliation(s)
- Wanfeng Xie
- Jinshan College, Fujian Agriculture and Forestry University, Fuzhou, 350002, People's Republic of China
- Key Laboratory of Integrated Pest Management in Ecological Forests, Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
| | - Xiaomei Xu
- Key Laboratory of Integrated Pest Management in Ecological Forests, Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
| | - Wenjing Qiu
- Key Laboratory of Integrated Pest Management in Ecological Forests, Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
| | - Xiaolin Lai
- Key Laboratory of Integrated Pest Management in Ecological Forests, Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
| | - Mengxia Liu
- Key Laboratory of Integrated Pest Management in Ecological Forests, Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China
| | - Feiping Zhang
- Key Laboratory of Integrated Pest Management in Ecological Forests, Fujian Province University, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China.
- Forestry College, Fujian Agriculture and Forestry University, Fuzhou, 350000, People's Republic of China.
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Song Q, Wang X, Wu F, Zhao J, Liu Y, Yang X. StATL2-like could affect growth and cold tolerance of plant by interacting with StCBFs. PLANT CELL REPORTS 2022; 41:1827-1841. [PMID: 35732839 DOI: 10.1007/s00299-022-02890-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2022] [Accepted: 05/25/2022] [Indexed: 06/15/2023]
Abstract
Our results confirmed that StATL2-like could interact with StCBFs and regulate plant growth. Meanwhile, StATL2-like acted as a negative regulator on low-temperature tolerance in plants. As important transcription factors for resisting many kinds of stresses, C-repeat-binding factors (CBF) play a key role in plant low-temperature tolerance by increasing COR genes expressions. Here, we report that StATL2-like, a RING-H2 E3 ubiquitin in Solanum tuberosum L., interacted with StCBF1 and StCBF4, respectively. AtATL2 is a highly homologous gene of StATL2-like in Arabidopsis thaliana. Under normal conditions, atl2 Arabidopsis mutant showed a growth inhibition phenotype while overexpressed StATL2-like in wild type Arabidopsis and atl2 mutant promoted plant growth. Besides, atl2 mutant had better low-temperature tolerance compared with wild type and StATL2-like transgenic lines which demonstrated that StATL2-like acted as a negatively regulator on low-temperature tolerance in plant. Moreover, atl2 mutant improved the scavenging capacity of reactive oxygen species (ROS) and alleviate the damage of photosynthetic system II (PSII) compared with StATL2-like transgenic lines under cold conditions. These results suggested a new component in CBF-dependent pathway to regulate plant growth and response to low-temperature stress in potato plants.
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Affiliation(s)
- Qiping Song
- College of Life Science, State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, China
| | - Xipan Wang
- College of Life Science, State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, China
| | - Fuchao Wu
- College of Life Science, State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, China
| | - Jintao Zhao
- College of Life Science, State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, China
| | - Yang Liu
- College of Life Science, State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, China
| | - Xinghong Yang
- College of Life Science, State Key Laboratory of Crop Biology, Shandong Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, China.
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Han G, Qiao Z, Li Y, Yang Z, Wang C, Zhang Y, Liu L, Wang B. RING Zinc Finger Proteins in Plant Abiotic Stress Tolerance. FRONTIERS IN PLANT SCIENCE 2022; 13:877011. [PMID: 35498666 PMCID: PMC9047180 DOI: 10.3389/fpls.2022.877011] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Accepted: 03/22/2022] [Indexed: 05/03/2023]
Abstract
RING zinc finger proteins have a conserved RING domain, mainly function as E3 ubiquitin ligases, and play important roles in plant growth, development, and the responses to abiotic stresses such as drought, salt, temperature, reactive oxygen species, and harmful metals. RING zinc finger proteins act in abiotic stress responses mainly by modifying and degrading stress-related proteins. Here, we review the latest progress in research on RING zinc finger proteins, including their structural characteristics, classification, subcellular localization, and physiological functions, with an emphasis on abiotic stress tolerance. Under abiotic stress, RING zinc finger proteins on the plasma membrane may function as sensors or abscisic acid (ABA) receptors in abiotic stress signaling. Some RING zinc finger proteins accumulate in the nucleus may act like transcription factors to regulate the expression of downstream abiotic stress marker genes through direct or indirect ways. Most RING zinc finger proteins usually accumulate in the cytoplasm or nucleus and act as E3 ubiquitin ligases in the abiotic stress response through ABA, mitogen-activated protein kinase (MAPK), and ethylene signaling pathways. We also highlight areas where further research on RING zinc finger proteins in plants is needed.
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Affiliation(s)
- Guoliang Han
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
- Dongying Institute, Shandong Normal University, Dongying, China
| | - Ziqi Qiao
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
| | - Yuxia Li
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
| | - Zongran Yang
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
| | - Chengfeng Wang
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
| | - Yuanyuan Zhang
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
| | - Lili Liu
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
| | - Baoshan Wang
- Shandong Provincial Key Laboratory of Plant Stress Research, College of Life Science, Shandong Normal University, Jinan, China
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Zhang H, Zheng D, Song F, Jiang M. Expression Patterns and Functional Analysis of 11 E3 Ubiquitin Ligase Genes in Rice. FRONTIERS IN PLANT SCIENCE 2022; 13:840360. [PMID: 35310657 PMCID: PMC8924586 DOI: 10.3389/fpls.2022.840360] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Accepted: 02/10/2022] [Indexed: 05/27/2023]
Abstract
E3 ubiquitin ligases are involved in many processes, regulating the response to biotic and abiotic stresses. In this study, 11 E3 ubiquitin ligase genes from Arabidopsis, which were hypothesized to function in response to biotic or abiotic stresses were selected, and the homologous genes in rice were found. Their functions were analyzed in rice. These 11 E3 ubiquitin ligase genes showed different patterns of expression under different treatments. The BMV:OsPUB39-infiltrated seedlings showed decreased resistance to Magnaporthe grisea (M. grisea) when compared with BMV:00-infiltrated seedlings, whereas the BMV:OsPUB34- and BMV:OsPUB33-infiltrated seedlings showed increased resistance. The involvement of these genes in the resistance against M. grisea may be attributed to the regulation of the accumulation of reactive oxygen species (ROS) and expression levels of defense-related genes. Seedlings infiltrated by BMV:OsATL69 showed decreased tolerance to drought stress, whereas BMV:OsPUB33-infiltraed seedlings showed increased tolerance, possibly through the regulation of proline content, sugar content, and expression of drought-responsive genes. BMV:OsATL32-infiltrated seedlings showed decreased tolerance to cold stress by regulating malondialdehyde (MDA) content and the expression of cold-responsive genes.
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Affiliation(s)
- Huijuan Zhang
- College of Life Science, Taizhou University, Taizhou, China
| | - Dewei Zheng
- College of Life Science, Taizhou University, Taizhou, China
| | - Fengming Song
- National Key Laboratory for Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, China
| | - Ming Jiang
- College of Life Science, Taizhou University, Taizhou, China
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Mishra GP, Aski MS, Bosamia T, Chaurasia S, Mishra DC, Bhati J, Kumar A, Javeria S, Tripathi K, Kohli M, Kumar RR, Singh AK, Devi J, Kumar S, Dikshit HK. Insights into the Host-Pathogen Interaction Pathways through RNA-Seq Analysis of Lens culinaris Medik. in Response to Rhizoctonia bataticola Infection. Genes (Basel) 2021; 13:genes13010090. [PMID: 35052429 PMCID: PMC8774501 DOI: 10.3390/genes13010090] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 12/20/2021] [Accepted: 12/23/2021] [Indexed: 12/13/2022] Open
Abstract
Dry root rot (Rhizoctonia bataticola) is an important disease of lentils (Lens culinaris Medik.).To gain an insight into the molecular aspects of host-pathogen interactions, the RNA-seq approach was used in lentils following inoculation with R.bataticola. The RNA-Seq has generated >450 million high-quality reads (HQRs) and nearly 96.97% were properly aligned to the reference genome. Very high similarity in FPKM (fragments per kilobase of exon per million mapped fragments) values (R > 0.9) among biological replicates showed the consistency of the RNA-Seq results. The study revealed various DEGs (differentially expressed genes) that were associated with changes in phenolic compounds, transcription factors (TFs), antioxidants, receptor kinases, hormone signals which corresponded to the cell wall modification enzymes, defense-related metabolites, and jasmonic acid (JA)/ethylene (ET) pathways. Gene ontology (GO) categorization also showed similar kinds of significantly enriched similar GO terms. Interestingly, of the total unigenes (42,606), 12,648 got assembled and showed significant hit with Rhizoctonia species. String analysis also revealed the role of various disease responsive proteins viz., LRR family proteins, LRR-RLKs, protein kinases, etc. in the host-pathogen interaction. Insilico validation analysis was performed using Genevestigator® and DEGs belonging to six major defense-response groups viz., defense-related enzymes, disease responsive genes, hormones, kinases, PR (pathogenesis related) proteins, and TFs were validated. For the first time some key miRNA targets viz. miR156, miR159, miR167, miR169, and miR482 were identified from the studied transcriptome, which may have some vital role in Rhizoctonia-based responses in lentils. The study has revealed the molecular mechanisms of the lentil/R.bataticola interactions and also provided a theoretical approach for the development of lentil genotypes resistant to R.bataticola.
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Affiliation(s)
- Gyan P. Mishra
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Muraleedhar S. Aski
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Tejas Bosamia
- Plant Omics Division, Central Salt and Marine Chemicals Research Institute, Bhavnagar 364002, India;
| | - Shiksha Chaurasia
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Dwijesh Chandra Mishra
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi 110012, India; (D.C.M.); (J.B.)
| | - Jyotika Bhati
- Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute, New Delhi 110012, India; (D.C.M.); (J.B.)
| | - Atul Kumar
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi 110012, India; (A.K.); (S.J.)
| | - Shaily Javeria
- Division of Seed Science and Technology, Indian Agricultural Research Institute, New Delhi 110012, India; (A.K.); (S.J.)
| | - Kuldeep Tripathi
- Germplasm Evaluation Division, National Bureau of Plant Genetic Resources, New Delhi 110012, India;
| | - Manju Kohli
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
| | - Ranjeet Ranjan Kumar
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi 110012, India;
| | - Amit Kumar Singh
- Division of Genomic Resources, National Bureau of Plant Genetic Resources, New Delhi 110012, India;
| | - Jyoti Devi
- Division of Crop Improvement, Indian Institute of Vegetable Research, Varanasi 221305, India;
| | - Shiv Kumar
- Biodiversity and Integrated Gene Management Program, International Center for Agricultural Research in the Dry Areas, Avenue HafianeCherkaoui, Rabat 10112, Morocco
- Correspondence: (S.K.); (H.K.D.)
| | - Harsh Kumar Dikshit
- Division of Genetics, Indian Agricultural Research Institute, New Delhi 110012, India; (G.P.M.); (M.S.A.); (S.C.); (M.K.)
- Correspondence: (S.K.); (H.K.D.)
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11
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Yin J, Yan J, Hou L, Jiang L, Xian W, Guo Q. Identification and functional deciphering suggested the regulatory roles of long intergenic ncRNAs (lincRNAs) in increasing grafting pepper resistance to Phytophthora capsici. BMC Genomics 2021; 22:868. [PMID: 34856924 PMCID: PMC8638555 DOI: 10.1186/s12864-021-08183-z] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2021] [Accepted: 11/12/2021] [Indexed: 12/13/2022] Open
Abstract
BACKGROUND As a popular and valuable technique, grafting is widely used to protect against soil-borne diseases and nematodes in vegetable production. Growing evidences have revealed that long intergenic ncRNAs (lincRNAs) are strictly regulated and play essential roles in plants development and stress responses. Nevertheless, genome-wide identification and function deciphering of pepper lincRNAs, especially for their roles in improving grafting pepper resistance to Phytophthora capsici is largely unknown. RESULTS In this study, RNA-seq data of grafting and control pepper plants with or without P. capsici inoculation were used to identify lincRNAs. In total, 2,388 reliable lincRNAs were identified. They were relatively longer and contained few exons than protein-coding genes. Similar to coding genes, lincRNAs had higher densities in euchromatin regions; and longer chromosome transcribed more lincRNAs. Expression pattern profiling suggested that lincRNAs commonly had lower expression than mRNAs. Totally, 607 differentially expressed lincRNAs (DE-lincRANs) were identified, of which 172 were found between P. capsici resistance grafting pepper sample GR and susceptible sample LDS. The neighboring genes of DE-lincRNAs and miRNAs competitively sponged by DE-lincRNAs were identified. Subsequently, the expression level of DE-lincRNAs was further confirmed by qRT-PCR and regulation patterns between DE-lincRNAs and neighboring mRNAs were also validated. Function annotation revealed that DE-lincRNAs increased the resistance of grafting prepper to P. capsici by modulating the expression of disease-defense related genes through cis-regulating and/or lincRNA-miRNA-mRNA interaction networks. CONCLUSIONS This study identified pepper lincRNAs and suggested their potential roles in increasing the resistance level of grafting pepper to P. capsici.
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Affiliation(s)
- Junliang Yin
- Qinghai Academy of Agriculture and Forestry Science, Key Laboratory of Agricultural Integrated Pest Management, State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Qinghai University, 810016 Xining, Qinghai Province China
- Hubei Key Laboratory of Waterlogging Disaster and Agricultural Use of Wetland, College of Agriculture, Yangtze University, 434000 Jingzhou, Hubei China
| | - Jiahui Yan
- Qinghai Academy of Agriculture and Forestry Science, Key Laboratory of Agricultural Integrated Pest Management, State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Qinghai University, 810016 Xining, Qinghai Province China
| | - Lu Hou
- Qinghai Academy of Agriculture and Forestry Science, Key Laboratory of Agricultural Integrated Pest Management, State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Qinghai University, 810016 Xining, Qinghai Province China
| | - Liling Jiang
- Qinghai Academy of Agriculture and Forestry Science, Key Laboratory of Agricultural Integrated Pest Management, State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Qinghai University, 810016 Xining, Qinghai Province China
| | - Wenrong Xian
- Qinghai Academy of Agriculture and Forestry Science, Key Laboratory of Agricultural Integrated Pest Management, State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Qinghai University, 810016 Xining, Qinghai Province China
| | - Qingyun Guo
- Qinghai Academy of Agriculture and Forestry Science, Key Laboratory of Agricultural Integrated Pest Management, State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Qinghai University, 810016 Xining, Qinghai Province China
- Qinghai Academy of Agriculture and Forestry Science, Qinghai University, 810016 Xining, China
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12
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Du B, Nie N, Sun S, Hu Y, Bai Y, He S, Zhao N, Liu Q, Zhai H. A novel sweetpotato RING-H2 type E3 ubiquitin ligase gene IbATL38 enhances salt tolerance in transgenic Arabidopsis. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2021; 304:110802. [PMID: 33568301 DOI: 10.1016/j.plantsci.2020.110802] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2020] [Revised: 12/08/2020] [Accepted: 12/12/2020] [Indexed: 05/16/2023]
Abstract
Arabidopsis Toxicos en Levadura (ATL) proteins compose a subfamily of E3 ubiquitin ligases and play major roles in regulating plant growth, cold, drought, oxidative stresses response and pathogen defense in plants. However, the role in enhancing salt tolerance has not been reported to date. Here, we cloned a novel RING-H2 type E3 ubiquitin ligase gene, named IbATL38, from sweetpotato cultivar Lushu 3. This gene was highly expressed in the leaves of sweetpotato and strongly induced by NaCl and abscisic acid (ABA). This IbATL38 was localized to nucleus and plasm membrane and possessed E3 ubiquitin ligase activity. Overexpression of IbATL38 in Arabidopsis significantly enhanced salt tolerance, along with inducible expression of a series of stress-responsive genes and prominently decrease of H2O2 content. These results suggest that IbATL38 as a novel E3 ubiquitin ligase may play an important role in salt stress response.
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Affiliation(s)
- Bing Du
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Nan Nie
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Sifan Sun
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Yuanfeng Hu
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Yidong Bai
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Shaozhen He
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Ning Zhao
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Qingchang Liu
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China
| | - Hong Zhai
- Key Laboratory of Sweetpotato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis and Utilization, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing 100193, China.
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13
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Li W, Deng Y, Ning Y, He Z, Wang GL. Exploiting Broad-Spectrum Disease Resistance in Crops: From Molecular Dissection to Breeding. ANNUAL REVIEW OF PLANT BIOLOGY 2020; 71:575-603. [PMID: 32197052 DOI: 10.1146/annurev-arplant-010720-022215] [Citation(s) in RCA: 131] [Impact Index Per Article: 26.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Plant diseases reduce crop yields and threaten global food security, making the selection of disease-resistant cultivars a major goal of crop breeding. Broad-spectrum resistance (BSR) is a desirable trait because it confers resistance against more than one pathogen species or against the majority of races or strains of the same pathogen. Many BSR genes have been cloned in plants and have been found to encode pattern recognition receptors, nucleotide-binding and leucine-rich repeat receptors, and defense-signaling and pathogenesis-related proteins. In addition, the BSR genes that underlie quantitative trait loci, loss of susceptibility and nonhost resistance have been characterized. Here, we comprehensively review the advances made in the identification and characterization of BSR genes in various species and examine their application in crop breeding. We also discuss the challenges and their solutions for the use of BSR genes in the breeding of disease-resistant crops.
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Affiliation(s)
- Wei Li
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, College of Plant Protection, Hunan Agricultural University, Changsha 410128, China
| | - Yiwen Deng
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China;
| | - 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
| | - Zuhua He
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China;
| | - Guo-Liang Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
- Department of Plant Pathology, The Ohio State University, Columbus, Ohio 43210, USA;
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14
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Qi X, Tang X, Liu W, Fu X, Luo H, Ghimire S, Zhang N, Si H. A potato RING-finger protein gene StRFP2 is involved in drought tolerance. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 146:438-446. [PMID: 31812009 DOI: 10.1016/j.plaphy.2019.11.042] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2019] [Revised: 11/29/2019] [Accepted: 11/29/2019] [Indexed: 05/16/2023]
Abstract
The ubiquitin/26S proteasome pathway is widely related to plant growth and metabolism and response to treatment by specifically degrading ubiquitin-modified proteins, including RING-finger-type E3 ubiquitin ligase (RING). The RING finger protein (RFP) gene family, determining the specificity of the ubiquitination process, is numerous and complex in function. In this study, we constructed a pCEGFP-StRFP2 fusion protein expression vector and transformed it into tobacco to achieve transient expression, thereby confirming that StRFP2 is localized in the cell membrane and cytoplasm. The result of qRT-PCR analysis showed that StRFP2 gene was significantly expressed in potato leaves, and the expression level of StRFP2 was significantly up-regulated under drought treatment. The transgenic plants of overexpressing StRFP2 gene were obtained with Agrobacterium tumefaciens-mediated transformation. Plant height, stem diameter, root length, fresh weight and root-shoot ratio of transgenic plants were significantly higher than those of non-transgenic plants (WT), indicating that the growth of plants was significantly promoted after overexpression of StRFP2 gene. Under PEG osmotic stress, the expressional level of StRFP2 in transgenic potato plants was significantly higher than that of WT. Furthermore, the free proline content and CAT activity in transgenic plants were higher than WT, on the contrary, MDA was lower than WT, and transgenic plants have stronger water retention capacity under simulated drought stress treatment, which indicated that StRFP2 could strengthen the tolerance of plants responding to drought stress. The above evidence strongly suggested that the StRFP2 gene is obviously up-regulated expression by drought stress, thereby enhancing the drought tolerance of the potato.
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Affiliation(s)
- Xuehong Qi
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, China; Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China
| | - Xun Tang
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, China; Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China
| | - Weigang Liu
- Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China; College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, China
| | - Xue Fu
- Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China; College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, China
| | - Hongyu Luo
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, China
| | - Shantwana Ghimire
- Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China; College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, China
| | - Ning Zhang
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, China
| | - Huaijun Si
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, China; Gansu Provincial Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou, 730070, China.
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15
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Zhong C, Ren Y, Qi Y, Yu X, Wu X, Tian Z. PAMP-responsive ATL gene StRFP1 and its orthologue NbATL60 positively regulate Phytophthora infestans resistance in potato and Nicotiana benthamiana. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2018; 270:47-57. [PMID: 29576086 DOI: 10.1016/j.plantsci.2018.01.016] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2017] [Revised: 01/29/2018] [Accepted: 01/31/2018] [Indexed: 05/11/2023]
Abstract
Ubiquitination is a post-translational modification that plays a crucial role during the regulation of plant immune signalling. The plant ATL family consists of a large number of putative RING type ubiquitin ligases. We show that potato ATL family gene StRFP1 and its orthologue NbATL60 from N. benthamiana both respond to Phytophthora infestans culture filtrate (CF) and flg22 induction. StRFP1 positively regulates immunity against P. infestans in potato. Ectopic transient expression of StRFP1 or expression of NbATL60 in N. benthamiana also enhances late blight resistance. By contrast, silencing NbATL60 in N. benthamiana reduces late blight resistance and leads to plant growth inhibition. Both StRFP1 and NbATL60 localize to the plasma membrane and intracellular puncta and possess E3 Ligase activity in vitro. Furthermore we demonstrate that the RING finger domain mutants of StRFP1 and NbATL60 lost E3 ligase activity and fail to suppress P. infestans colonization in N. benthamiana, indicating that E3 ligase activity is critical for StRFP1 and NbATL60 to regulate immunity. Overexpression or RNA interference of StRFP1 in transgenic potato led to increased or decreased expression of PTI maker genes (WRKY7, WRKY8, ACRE31 and Pti5) respectively. Similarly silencing of NbATL60 in N. benthamiana decreases expression of these PTI marker genes. Moreover, VIGS of NbATL60 in N. benthamiana did not compromise P. infestans PAMP INF1 or R2/Avr2, R3a/AVR3a, Rx/Cp and Pto/AvrPto triggered cell death. These results indicate that ATL genes StRFP1 and NbATL60 contribute to basal immunity (PTI) in Solanaceous plants.
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Affiliation(s)
- Cheng Zhong
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Kaili University, Kaili, Guizhou, 556011, People's Republic of China.
| | - Yajuan Ren
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, People's Republic of China.
| | - Yetong Qi
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, People's Republic of China.
| | - Xiaoling Yu
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, People's Republic of China.
| | - Xintong Wu
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, People's Republic of China.
| | - Zhendong Tian
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan 430070, People's Republic of China; Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, People's Republic of China.
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16
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Wong DCJ, Ariani P, Castellarin S, Polverari A, Vandelle E. Co-expression network analysis and cis-regulatory element enrichment determine putative functions and regulatory mechanisms of grapevine ATL E3 ubiquitin ligases. Sci Rep 2018; 8:3151. [PMID: 29453355 PMCID: PMC5816651 DOI: 10.1038/s41598-018-21377-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2017] [Accepted: 02/02/2018] [Indexed: 02/06/2023] Open
Abstract
Arabidopsis thaliana Toxicos en Levadura (ATL) proteins are a subclass of the RING-H2 zinc finger binding E3 ubiquitin ligases. The grapevine (Vitis vinifera) ATL family was recently characterized, revealing 96 members that are likely to be involved in several physiological processes through protein ubiquitination. However, the final targets and biological functions of most ATL E3 ligases are still unknown. We analyzed the co-expression networks among grapevine ATL genes across a set of transcriptomic data related to defense and abiotic stress, combined with a condition-independent dataset. This revealed strong correlations between ATL proteins and diverse signal transduction components and transcriptional regulators, in particular those involved in immunity. An enrichment analysis of cis-regulatory elements in ATL gene promoters and related co-expressed genes highlighted the importance of hormones in the regulation of ATL gene expression. Our work identified several ATL proteins as candidates for further studies aiming to decipher specific grapevine resistance mechanisms activated in response to pathogens.
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Affiliation(s)
- Darren C J Wong
- Wine Research Centre, University of British Columbia, 2205 East Mall, Vancouver, BC V6T 1Z4, Canada
- Ecology and Evolution, Research School of Biology, The Australian National University, Acton, ACT 2601, Australia
| | - Pietro Ariani
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Verona, 37134, Italy
| | - Simone Castellarin
- Wine Research Centre, University of British Columbia, 2205 East Mall, Vancouver, BC V6T 1Z4, Canada
| | - Annalisa Polverari
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Verona, 37134, Italy.
| | - Elodie Vandelle
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Verona, 37134, Italy.
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17
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Khorramdelazad M, Bar I, Whatmore P, Smetham G, Bhaaskaria V, Yang Y, Bai SH, Mantri N, Zhou Y, Ford R. Transcriptome profiling of lentil (Lens culinaris) through the first 24 hours of Ascochyta lentis infection reveals key defence response genes. BMC Genomics 2018; 19:108. [PMID: 29385986 PMCID: PMC5793396 DOI: 10.1186/s12864-018-4488-1] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2017] [Accepted: 01/17/2018] [Indexed: 09/14/2023] Open
Abstract
Background Ascochyta blight, caused by the fungus Ascochyta lentis, is one of the most destructive lentil diseases worldwide, resulting in over $16 million AUD annual loss in Australia alone. The use of resistant cultivars is currently considered the most effective and environmentally sustainable strategy to control this disease. However, little is known about the genes and molecular mechanisms underlying lentil resistance against A. lentis. Results To uncover the genetic basis of lentil resistance to A. lentis, differentially expressed genes were profiled in lentil plants during the early stages of A. lentis infection. The resistant ‘ILL7537’ and susceptible ‘ILL6002’ lentil genotypes were examined at 2, 6, and 24 h post inoculation utilising high throughput RNA-Sequencing. Genotype and time-dependent differential expression analysis identified genes which play key roles in several functions of the defence response: fungal elicitors recognition and early signalling; structural response; biochemical response; transcription regulators; hypersensitive reaction and cell death; and systemic acquired resistance. Overall, the resistant genotype displayed an earlier and faster detection and signalling response to the A. lentis infection and demonstrated higher expression levels of structural defence-related genes. Conclusions This study presents a first-time defence-related transcriptome of lentil to A. lentis, including a comprehensive characterisation of the molecular mechanism through which defence against A. lentis is induced in the resistant lentil genotype. Electronic supplementary material The online version of this article (10.1186/s12864-018-4488-1) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Mahsa Khorramdelazad
- Glycomics institute, School of Sciences, Griffith University, 58 Parklands Dr., Southport, Gold Coast, 4215, QLD, Australia
| | - Ido Bar
- Environmental Futures Research Institute, School of Natural Sciences, Griffith University, 170 Kessels Rd., Nathan, 4111, QLD, Australia.
| | - Paul Whatmore
- Environmental Futures Research Institute, School of Natural Sciences, Griffith University, 170 Kessels Rd., Nathan, 4111, QLD, Australia.,Genecology Research Centre, Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Maroochydore DC, 4558, Queensland, Australia
| | - Gabrielle Smetham
- Fish Nutrition and Feed Safety, the National Institute of Nutrition and Seafood Research (NIFES), Strandgaten 229, Bergen, 5002, Norway
| | - Vijay Bhaaskaria
- Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, 142 University St., Parkville, 3053, VIC, Australia
| | - Yuedong Yang
- Pangenomics Group, School of Sciences, RMIT University, Bundoora, 3083, VIC, Australia
| | - Shahla Hosseini Bai
- Glycomics institute, School of Sciences, Griffith University, 58 Parklands Dr., Southport, Gold Coast, 4215, QLD, Australia
| | - Nitin Mantri
- Environmental Futures Research Institute, School of Natural Sciences, Griffith University, 170 Kessels Rd., Nathan, 4111, QLD, Australia.,Genecology Research Centre, Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Maroochydore DC, 4558, Queensland, Australia
| | - Yaoqi Zhou
- Pangenomics Group, School of Sciences, RMIT University, Bundoora, 3083, VIC, Australia
| | - Rebecca Ford
- Glycomics institute, School of Sciences, Griffith University, 58 Parklands Dr., Southport, Gold Coast, 4215, QLD, Australia
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Li X, Hasegawa Y, Lu Y, Sato T. Ubiquitin related enzymes and plant-specific ubiquitin ligase ATL family in tomato plants. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2017; 34:71-78. [PMID: 31275011 PMCID: PMC6543760 DOI: 10.5511/plantbiotechnology.17.0306a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Accepted: 03/06/2017] [Indexed: 05/28/2023]
Abstract
Ubiquitination is one of the fundamental post-translational modifications of proteins with ubiquitin, a conserved 76-amino acid protein present in eukaryotes, which is catalyzed by ubiquitin ligase. Compared with humans, the number of ubiquitin ligase genes is nearly double in plant species such as Arabidopsis and rice, suggesting that this enzyme plays critical roles in many aspects of plant growth, including development and abiotic and biotic environmental stress responses. In addition to its fundamental activities in eukaryotic cells, ubiquitin signaling mediates plant specific cellular functions, including phytohormone response, seed and fruit development, and biotic and abiotic stress responses. The ATL family is a RING-H2 type ubiquitin ligase widely conserved in plant species. We previously showed that the plant specific ubiquitin ligase ATL31 regulates the carbon/nitrogen-nutrient response and pathogen resistance in Arabidopsis, and we identified and characterized the basic biochemical function of an ATL31 homologue in tomato plants (Solanum lycopersicum L.). This protein, called SlATL31, may act as a ubiquitin ligase in tomato fruit. The tomato is a major crop plant and a model system for fleshy fruit development. This review provides an overview of the ubiquitin ligases and related enzymes, and highlights the ubiquitin ligase ATL family in tomato plants.
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Affiliation(s)
- Xingwen Li
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Yoko Hasegawa
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Yu Lu
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Takeo Sato
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
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Ariani P, Regaiolo A, Lovato A, Giorgetti A, Porceddu A, Camiolo S, Wong D, Castellarin S, Vandelle E, Polverari A. Genome-wide characterisation and expression profile of the grapevine ATL ubiquitin ligase family reveal biotic and abiotic stress-responsive and development-related members. Sci Rep 2016; 6:38260. [PMID: 27910910 PMCID: PMC5133618 DOI: 10.1038/srep38260] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2016] [Accepted: 11/08/2016] [Indexed: 01/09/2023] Open
Abstract
The Arabidopsis Tóxicos en Levadura (ATL) protein family is a class of E3 ubiquitin ligases with a characteristic RING-H2 Zn-finger structure that mediates diverse physiological processes and stress responses in plants. We carried out a genome-wide survey of grapevine (Vitis vinifera L.) ATL genes and retrieved 96 sequences containing the canonical ATL RING-H2 domain. We analysed their genomic organisation, gene structure and evolution, protein domains and phylogenetic relationships. Clustering revealed several clades, as already reported in Arabidopsis thaliana and rice (Oryza sativa), with an expanded subgroup of grapevine-specific genes. Most of the grapevine ATL genes lacked introns and were scattered among the 19 chromosomes, with a high level of duplication retention. Expression profiling revealed that some ATL genes are expressed specifically during early or late development and may participate in the juvenile to mature plant transition, whereas others may play a role in pathogen and/or abiotic stress responses, making them key candidates for further functional analysis. Our data offer the first genome-wide overview and annotation of the grapevine ATL family, and provide a basis for investigating the roles of specific family members in grapevine physiology and stress responses, as well as potential biotechnological applications.
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Affiliation(s)
- Pietro Ariani
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Strada Le Grazie 15, Verona, 37134, Italy
| | - Alice Regaiolo
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Strada Le Grazie 15, Verona, 37134, Italy
| | - Arianna Lovato
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Strada Le Grazie 15, Verona, 37134, Italy
| | - Alejandro Giorgetti
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Strada Le Grazie 15, Verona, 37134, Italy
| | - Andrea Porceddu
- Università degli Studi di Sassari, Dipartimento di Agraria, SACEG, Via Enrico De Nicola 1, Sassari, 07100, Italy
| | - Salvatore Camiolo
- Università degli Studi di Sassari, Dipartimento di Agraria, SACEG, Via Enrico De Nicola 1, Sassari, 07100, Italy
| | - Darren Wong
- Wine Research Centre, University of British Columbia, 326-2205 East Mall, Vancouver, BC V6T 1Z4, Canada
| | - Simone Castellarin
- Wine Research Centre, University of British Columbia, 326-2205 East Mall, Vancouver, BC V6T 1Z4, Canada
| | - Elodie Vandelle
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Strada Le Grazie 15, Verona, 37134, Italy
| | - Annalisa Polverari
- Dipartimento di Biotecnologie, Università degli Studi di Verona, Strada Le Grazie 15, Verona, 37134, Italy
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Baldacci-Cresp F, Moussawi J, Leplé JC, Van Acker R, Kohler A, Candiracci J, Twyffels L, Spokevicius AV, Bossinger G, Laurans F, Brunel N, Vermeersch M, Boerjan W, El Jaziri M, Baucher M. PtaRHE1, a Populus tremula × Populus alba RING-H2 protein of the ATL family, has a regulatory role in secondary phloem fibre development. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2015; 82:978-990. [PMID: 25912812 DOI: 10.1111/tpj.12867] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2015] [Revised: 04/21/2015] [Accepted: 04/21/2015] [Indexed: 06/04/2023]
Abstract
REALLY INTERESTING NEW GENE (RING) proteins play important roles in the regulation of many processes by recognizing target proteins for ubiquitination. Previously, we have shown that the expression of PtaRHE1, encoding a Populus tremula × Populus alba RING-H2 protein with E3 ubiquitin ligase activity, is associated with tissues undergoing secondary growth. To further elucidate the role of PtaRHE1 in vascular tissues, we have undertaken a reverse genetic analysis in poplar. Within stem secondary vascular tissues, PtaRHE1 and its corresponding protein are expressed predominantly in the phloem. The downregulation of PtaRHE1 in poplar by artificial miRNA triggers alterations in phloem fibre patterning, characterized by an increased portion of secondary phloem fibres that have a reduced cell wall thickness and a change in lignin composition, with lower levels of syringyl units as compared with wild-type plants. Following an RNA-seq analysis, a biological network involving hormone stress signalling, as well as developmental processes, could be delineated. Several candidate genes possibly associated with the altered phloem fibre phenotype observed in amiRPtaRHE1 poplar were identified. Altogether, our data suggest a regulatory role for PtaRHE1 in secondary phloem fibre development.
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Affiliation(s)
- Fabien Baldacci-Cresp
- Laboratoire de Biotechnologie Végétale, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
| | - Jihad Moussawi
- Laboratoire de Biotechnologie Végétale, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
| | - Jean-Charles Leplé
- Unité de Recherche Amélioration Génétique et Physiologie Forestières (UR0588), Institut National de la Recherche Agronomique (INRA), 45075, Orléans Cedex 02, France
| | - Rebecca Van Acker
- Department of Plant Systems Biology, VIB, 9052, Ghent, Belgium
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052, Ghent, Belgium
| | - Annegret Kohler
- Unité Mixte de Recherche 1136, Interactions Arbres-Microorganismes, Laboratory of Excellence ARBRE, INRA, 54280, Champenoux, France
- Unité Mixte de Recherche 1136, Interactions Arbres-Microorganismes, Laboratory of Excellence ARBRE, Lorraine University, 54500, Vandoeuvre-lès-Nancy, France
| | - Julie Candiracci
- Laboratoire de Biotechnologie Végétale, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
| | - Laure Twyffels
- Center for Microscopy and Molecular Imaging-CMMI, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
| | - Antanas V Spokevicius
- School of Ecosystem and Forest Sciences, The University of Melbourne, Water Street, Creswick, Vic., 3363, Australia
| | - Gerd Bossinger
- School of Ecosystem and Forest Sciences, The University of Melbourne, Water Street, Creswick, Vic., 3363, Australia
| | - Françoise Laurans
- Unité de Recherche Amélioration Génétique et Physiologie Forestières (UR0588), Institut National de la Recherche Agronomique (INRA), 45075, Orléans Cedex 02, France
| | - Nicole Brunel
- UMR A547 PIAF, Clermont Université, Université Blaise Pascal, BP 10448, 63000, Clermont-Ferrand, France
- UMR A547 PIAF, INRA, 63100, Clermont-Ferrand, France
| | - Marjorie Vermeersch
- Center for Microscopy and Molecular Imaging-CMMI, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
- Laboratoire de Parasitologie Moléculaire, IBMM, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
| | - Wout Boerjan
- Department of Plant Systems Biology, VIB, 9052, Ghent, Belgium
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052, Ghent, Belgium
| | - Mondher El Jaziri
- Laboratoire de Biotechnologie Végétale, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
| | - Marie Baucher
- Laboratoire de Biotechnologie Végétale, Université Libre de Bruxelles (ULB), 6041, Gosselies, Belgium
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Ueda Y, Frimpong F, Qi Y, Matthus E, Wu L, Höller S, Kraska T, Frei M. Genetic dissection of ozone tolerance in rice (Oryza sativa L.) by a genome-wide association study. JOURNAL OF EXPERIMENTAL BOTANY 2015; 66:293-306. [PMID: 25371505 PMCID: PMC4265164 DOI: 10.1093/jxb/eru419] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Tropospheric ozone causes various negative effects on plants and affects the yield and quality of agricultural crops. Here, we report a genome-wide association study (GWAS) in rice (Oryza sativa L.) to determine candidate loci associated with ozone tolerance. A diversity panel consisting of 328 accessions representing all subgroups of O. sativa was exposed to ozone stress at 60 nl l(-1) for 7h every day throughout the growth season, or to control conditions. Averaged over all genotypes, ozone significantly affected biomass-related traits (plant height -1.0%, shoot dry weight -15.9%, tiller number -8.3%, grain weight -9.3%, total panicle weight -19.7%, single panicle weight -5.5%) and biochemical/physiological traits (symptom formation, SPAD value -4.4%, foliar lignin content +3.4%). A wide range of genotypic variance in response to ozone stress were observed in all phenotypes. Association mapping based on more than 30 000 single-nucleotide polymorphism (SNP) markers yielded 16 significant markers throughout the genome by applying a significance threshold of P<0.0001. Furthermore, by determining linkage disequilibrium blocks associated with significant SNPs, we gained a total of 195 candidate genes for these traits. The following sequence analysis revealed a number of novel polymorphisms in two candidate genes for the formation of visible leaf symptoms, a RING and an EREBP gene, both of which are involved in cell death and stress defence reactions. This study demonstrated substantial natural variation of responses to ozone in rice and the possibility of using GWAS in elucidating the genetic factors underlying ozone tolerance.
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Affiliation(s)
- Yoshiaki Ueda
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Karlrobert-Kreiten Strasse 13, 53115 Bonn, Germany
| | - Felix Frimpong
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Karlrobert-Kreiten Strasse 13, 53115 Bonn, Germany
| | - Yitao Qi
- Key Laboratory of Crop Genetics & Physiology of Jiangsu Province, Yangzhou University, Yangzhou 225009, PR China
| | - Elsa Matthus
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Karlrobert-Kreiten Strasse 13, 53115 Bonn, Germany
| | - Linbo Wu
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Karlrobert-Kreiten Strasse 13, 53115 Bonn, Germany
| | - Stefanie Höller
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Karlrobert-Kreiten Strasse 13, 53115 Bonn, Germany
| | - Thorsten Kraska
- Campus Klein-Altendorf, University of Bonn, Klein-Altendorf 2, 53359 Rheinbach, Germany
| | - Michael Frei
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Karlrobert-Kreiten Strasse 13, 53115 Bonn, Germany
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Zhou H, Steffenson BJ, Muehlbauer G, Wanyera R, Njau P, Ndeda S. Association mapping of stem rust race TTKSK resistance in US barley breeding germplasm. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2014; 127:1293-304. [PMID: 24710821 PMCID: PMC4035542 DOI: 10.1007/s00122-014-2297-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2013] [Accepted: 03/12/2014] [Indexed: 05/18/2023]
Abstract
Loci conferring resistance to the highly virulent African stem rust race TTKSK were identified in advanced barley breeding germplasm and positioned to chromosomes 5H and 7H using an association mapping approach. African races of the stem rust pathogen (Puccinia graminis f. sp. tritici) are a serious threat to barley production worldwide because of their wide virulence. To discover and characterize resistance to African stem rust race TTKSK in US barley breeding germplasm, over 3,000 lines/cultivars were assessed for resistance at the seedling stage in the greenhouse and also the adult plant stage in the field in Kenya. Only 12 (0.3 %) and 64 (2.1 %) lines exhibited a resistance level comparable to the resistant control at the seedling and adult plant stage, respectively. To map quantitative trait loci (QTL) for resistance to race TTKSK, an association mapping approach was conducted, utilizing 3,072 single nucleotide polymorphism (SNP) markers. At the seedling stage, two neighboring SNP markers (0.8 cM apart) on chromosome 7H (11_21491 and 12_30528) were found significantly associated with resistance. The most significant one found was 12_30528; thus, the resistance QTL was named Rpg-qtl-7H-12_30528. At the adult plant stage, two SNP markers on chromosome 5H (11_11355 and 12_31427) were found significantly associated with resistance. This resistance QTL was named Rpg-qtl-5H-11_11355 for the most significant marker identified. Adult plant resistance is of paramount importance for stem rust. The marker associated with Rpg-qtl-5H-11_11355 for adult plant resistance explained only a small portion of the phenotypic variation (0.02); however, this QTL reduced disease severity up to 55.0 % under low disease pressure and up to 21.1 % under heavy disease pressure. SNP marker 11_11355 will be valuable for marker-assisted selection of adult plant stem rust resistance in barley breeding.
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Affiliation(s)
- H. Zhou
- Department of Plant Pathology, University of Minnesota, St. Paul, MN USA
| | - B. J. Steffenson
- Department of Plant Pathology, University of Minnesota, St. Paul, MN USA
| | - Gary Muehlbauer
- Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, MN USA
- Department of Plant Biology, University of Minnesota, St. Paul, MN USA
| | - Ruth Wanyera
- Kenya Agricultural Research Institute, Njoro, Kenya
| | - Peter Njau
- Kenya Agricultural Research Institute, Njoro, Kenya
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23
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Zhang P, Yang P, Zhang Z, Han B, Wang W, Wang Y, Cao Y, Hu T. Isolation and characterization of a buffalograss (Buchloe dactyloides) dehydration responsive element binding transcription factor, BdDREB2. Gene 2014; 536:123-8. [PMID: 24333268 DOI: 10.1016/j.gene.2013.11.060] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2013] [Revised: 11/15/2013] [Accepted: 11/27/2013] [Indexed: 11/23/2022]
Abstract
Dehydration responsive element binding (DREB) transcription factors play an important role in the regulation of stress-related genes. These factors contribute to resistance to different abiotic stresses. In the present study, a novel DREB transcription factor, BdDREB2, isolated from Buchloe dactyloides, was cloned and characterized. The BdDREB2 protein was estimated to have a molecular weight of 28.36kDa, a pI of 5.53 and a typical AP2/ERF domain. The expression of BdDREB2 was involved in responses to drought and salt stresses. Overexpression of BdDREB2 in tobacco showed higher relative water and proline content, and was associated with lower MDA content under drought stress, suggesting that the transgenic tobacco may tolerate drought stress better. Results demonstrate that BdDREB2 may play an important role in the regulation of abiotic stress responses, and mediate many physiological pathways that enhance stress tolerance in plants.
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Affiliation(s)
- Pan Zhang
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Peizhi Yang
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Zhiqiang Zhang
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Bo Han
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Weidong Wang
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Yafang Wang
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Yuman Cao
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
| | - Tianming Hu
- Department of Grassland Science, College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, China.
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Abstract
An abundant class of E3 ubiquitin ligases encodes the RING-finger domain. The RING finger binds to the E2 ubiquitin-conjugating enzyme and brings together both the E2 and substrate. It is predicted that 477 RING finger E3 ligases exist in Arabidopsis thaliana. A particular family among them, named Arabidopsis Tóxicos en Levadura (ATL), consists of 91 members that contain the RING-H2 variation and a hydrophobic domain located at the N-terminal end. Transmembrane E3 ligases are important in several biological processes. For instance, some transmembrane RING finger E3 ligases are main participants in the endoplasmic reticulum-associated degradation pathway that targets misfolded proteins. Functional analysis of a number of ATLs has shown that some of them regulate distinct pathways in plants. Several ATLs have been shown to participate in defense responses, while others play a role in the regulation of the carbon/nitrogen response during post-germinative seedling growth transition, in the regulation of cell death during root development, in endosperm development, or in the transition to flowering under short day conditions. The ATL family has also been instrumental in evolution studies for showing how gene families are expanded in plant genomes.
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Affiliation(s)
- Plinio Guzmán
- Departamento de Ingeniería Genética de Plantas Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Irapuato, México.
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Maekawa S, Sato T, Asada Y, Yasuda S, Yoshida M, Chiba Y, Yamaguchi J. The Arabidopsis ubiquitin ligases ATL31 and ATL6 control the defense response as well as the carbon/nitrogen response. PLANT MOLECULAR BIOLOGY 2012; 79:217-27. [PMID: 22481162 DOI: 10.1007/s11103-012-9907-0] [Citation(s) in RCA: 77] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2011] [Accepted: 03/23/2012] [Indexed: 05/02/2023]
Abstract
In higher plants, the metabolism of carbon (C) and nitrogen nutrients (N) is mutually regulated and referred to as the C and N balance (C/N). Plants are thus able to optimize their growth depending on their cellular C/N status. Arabidopsis ATL31 and ATL6 encode a RING-type ubiquitin ligases which play a critical role in the C/N status response (Sato et al. in Plant J 60:852-864, 2009). Since many ATL members are involved in the plant defense response, the present study evaluated whether the C/N response regulators ATL31 and ATL6 are involved in defense responses. Our results confirmed that ATL31 and ATL6 expression is up-regulated with the microbe-associated molecular patterns elicitors flg22 and chitin as well as with infections with Pseudomonas syringae pv. tomato DC3000 (Pst. DC3000). Moreover, transgenic plants overexpressing ATL31 and ATL6 displayed increased resistance to Pst. DC3000. In accordance with these data, loss of ATL31 and ATL6 function in an atl31 atl6 double knockout mutant resulted in reduced resistance to Pst. DC3000. In addition, the molecular cross-talk between C/N and the defense response was investigated by mining public databases. The analysis identified the transcription factors MYB51 and WRKY33, which are involved in the defense response, and their transcripts levels correlate closely with ATL31 and ATL6. Further study demonstrated that the expression of ATL31, ATL6 and defense marker genes including MYB51 and WRKY33 were regulated by C/N conditions. Taken together, these results indicate that ATL31 and ATL6 function as key components of both C/N regulation and the defense response in Arabidopsis.
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Affiliation(s)
- Shugo Maekawa
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo, 060-0810, Japan
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Molecular cloning and characterization of a novel RING zinc-finger protein gene up-regulated under in vitro salt stress in cassava. Mol Biol Rep 2012; 39:6513-9. [PMID: 22307786 DOI: 10.1007/s11033-012-1479-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2011] [Accepted: 01/24/2012] [Indexed: 01/14/2023]
Abstract
Cassava (Manihot esculenta Crantz) is one of the world's most important food crops. It is cultivated mainly in developing countries of tropics, since its root is a major source of calories for low-income people due to its high productivity and resistance to many abiotic and biotic factors. A previous study has identified a partial cDNA sequence coding for a putative RING zinc finger in cassava storage root. The RING zinc finger protein is a specialized type of zinc finger protein found in many organisms. Here, we isolated the full-length cDNA sequence coding for M. esculenta RZF (MeRZF) protein by a combination of 5' and 3' RACE assays. BLAST analysis showed that its deduced amino acid sequence has a high level of similarity to plant proteins of RZF family. MeRZF protein contains a signature sequence motif for a RING zinc finger at its C-terminal region. In addition, this protein showed a histidine residue at the fifth coordination site, likely belonging to the RING-H2 subgroup, as confirmed by our phylogenetic analysis. There is also a transmembrane domain in its N-terminal region. Finally, semi-quantitative RT-PCR assays showed that MeRZF expression is increased in detached leaves treated with sodium chloride. Here, we report the first evidence of a RING zinc finger gene of cassava showing potential role in response to salt stress.
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27
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Aguilar-Hernández V, Aguilar-Henonin L, Guzmán P. Diversity in the architecture of ATLs, a family of plant ubiquitin-ligases, leads to recognition and targeting of substrates in different cellular environments. PLoS One 2011; 6:e23934. [PMID: 21887349 PMCID: PMC3161093 DOI: 10.1371/journal.pone.0023934] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2011] [Accepted: 07/28/2011] [Indexed: 01/23/2023] Open
Abstract
Ubiquitin-ligases or E3s are components of the ubiquitin proteasome system (UPS) that coordinate the transfer of ubiquitin to the target protein. A major class of ubiquitin-ligases consists of RING-finger domain proteins that include the substrate recognition sequences in the same polypeptide; these are known as single-subunit RING finger E3s. We are studying a particular family of RING finger E3s, named ATL, that contain a transmembrane domain and the RING-H2 finger domain; none of the member of the family contains any other previously described domain. Although the study of a few members in A. thaliana and O. sativa has been reported, the role of this family in the life cycle of a plant is still vague. To provide tools to advance on the functional analysis of this family we have undertaken a phylogenetic analysis of ATLs in twenty-four plant genomes. ATLs were found in all the 24 plant species analyzed, in numbers ranging from 20–28 in two basal species to 162 in soybean. Analysis of ATLs arrayed in tandem indicates that sets of genes are expanding in a species-specific manner. To get insights into the domain architecture of ATLs we generated 75 pHMM LOGOs from 1815 ATLs, and unraveled potential protein-protein interaction regions by means of yeast two-hybrid assays. Several ATLs were found to interact with DSK2a/ubiquilin through a region at the amino-terminal end, suggesting that this is a widespread interaction that may assist in the mode of action of ATLs; the region was traced to a distinct sequence LOGO. Our analysis provides significant observations on the evolution and expansion of the ATL family in addition to information on the domain structure of this class of ubiquitin-ligases that may be involved in plant adaptation to environmental stress.
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Affiliation(s)
- Victor Aguilar-Hernández
- Departamento de Ingeniería Genética de Plantas, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Irapuato, México
| | - Laura Aguilar-Henonin
- Departamento de Ingeniería Genética de Plantas, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Irapuato, México
| | - Plinio Guzmán
- Departamento de Ingeniería Genética de Plantas, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Irapuato, México
- * E-mail:
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