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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: 0] [Impact Index Per Article: 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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Momo J, Rawoof A, Kumar A, Islam K, Ahmad I, Ramchiary N. Proteomics of Reproductive Development, Fruit Ripening, and Stress Responses in Tomato. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:65-95. [PMID: 36584279 DOI: 10.1021/acs.jafc.2c06564] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
The fruits of the tomato crop (Solanum lycopersicum L.) are increasingly consumed by humans worldwide. Due to their rich nutritional quality, pharmaceutical properties, and flavor, tomato crops have gained a salient role as standout crops among other plants. Traditional breeding and applied functional research have made progress in varying tomato germplasms to subdue biotic and abiotic stresses. Proteomic investigations within a span of few decades have assisted in consolidating the functional genomics and transcriptomic research. However, due to the volatility and dynamicity of proteins in the regulation of various biosynthetic pathways, there is a need for continuing research in the field of proteomics to establish a network that could enable a more comprehensive understanding of tomato growth and development. With this view, we provide a comprehensive review of proteomic studies conducted on the tomato plant in past years, which will be useful for future breeders and researchers working to improve the tomato crop.
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Affiliation(s)
- John Momo
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Abdul Rawoof
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Ajay Kumar
- Department of Plant Sciences, School of Biological Sciences, Central University of Kerala, Kasaragod, Kerala 671316, India
| | - Khushbu Islam
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Ilyas Ahmad
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
| | - Nirala Ramchiary
- School of Life Sciences, Jawaharlal Nehru University, New Delhi, Delhi 110067, India
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Zhang Z, Zhang Y, Yuan L, Zhou F, Gao Y, Kang Z, Li T, Hu X. Exogenous 5-aminolevulinic acid alleviates low-temperature injury by regulating glutathione metabolism and β-alanine metabolism in tomato seedling roots. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 245:114112. [PMID: 36155340 DOI: 10.1016/j.ecoenv.2022.114112] [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: 06/22/2022] [Revised: 09/12/2022] [Accepted: 09/20/2022] [Indexed: 06/16/2023]
Abstract
Food availability represents a major worldwide concern due to climate change and population growth. Low-temperature stress (LTS) severely restricts the growth of tomato seedlings. Exogenous 5-aminolevulinic acid (ALA) can alleviate the harm of abiotic stress including LTS; however, data on its protective mechanism on tomato seedling roots, the effects of organelle structure, and the regulation of metabolic pathways under LTS are lacking. In this study, we hope to fill the above gaps by exploring the effects of exogenous ALA on morphology, mitochondrial ultrastructure, reactive oxygen species (ROS) enrichment, physiological indicators, related gene expression, and metabolic pathway in tomato seedlings root under LTS. Results showed that ALA pretreatment could increase the activity of antioxidant enzymes and the content of antioxidant substances in tomato seedlings roots under LTS to scavenge the massively accumulated ROS, thereby protecting the mitochondrial structure of roots and promoting root development under LTS. Combined transcriptomic and metabolomic analysis showed that exogenous ALA pretreatment activated the glutathione metabolism and β-alanine metabolism of tomato seedling roots under LTS, further enhanced the scavenging ability of tomato seedling roots to ROS, and improved the low-temperature tolerance of tomato seedlings. The findings provide a new insight into the regulation of the low-temperature tolerance of tomato by exogenous ALA.
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Affiliation(s)
- Zhengda Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China; Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture, Yangling, Shaanxi 712100, China; Shaanxi Protected Agriculture Research Centre, Yangling, Shaanxi 712100, China
| | - Yuhui Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China; Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture, Yangling, Shaanxi 712100, China; Shaanxi Protected Agriculture Research Centre, Yangling, Shaanxi 712100, China
| | - Luqiao Yuan
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China; Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture, Yangling, Shaanxi 712100, China; Shaanxi Protected Agriculture Research Centre, Yangling, Shaanxi 712100, China
| | - Fan Zhou
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Yi Gao
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China
| | - Zhen Kang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China; Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture, Yangling, Shaanxi 712100, China; Shaanxi Protected Agriculture Research Centre, Yangling, Shaanxi 712100, China
| | - Tianlai Li
- College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China.
| | - Xiaohui Hu
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi 712100, China; Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture, Yangling, Shaanxi 712100, China; Shaanxi Protected Agriculture Research Centre, Yangling, Shaanxi 712100, China.
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Hasegawa Y, Huarancca Reyes T, Uemura T, Baral A, Fujimaki A, Luo Y, Morita Y, Saeki Y, Maekawa S, Yasuda S, Mukuta K, Fukao Y, Tanaka K, Nakano A, Takagi J, Bhalerao RP, Yamaguchi J, Sato T. The TGN/EE SNARE protein SYP61 and the ubiquitin ligase ATL31 cooperatively regulate plant responses to carbon/nitrogen conditions in Arabidopsis. THE PLANT CELL 2022; 34:1354-1374. [PMID: 35089338 PMCID: PMC8972251 DOI: 10.1093/plcell/koac014] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 12/30/2021] [Indexed: 05/23/2023]
Abstract
Ubiquitination is a post-translational modification involving the reversible attachment of the small protein ubiquitin to a target protein. Ubiquitination is involved in numerous cellular processes, including the membrane trafficking of cargo proteins. However, the ubiquitination of the trafficking machinery components and their involvement in environmental responses are not well understood. Here, we report that the Arabidopsis thaliana trans-Golgi network/early endosome localized SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) protein SYP61 interacts with the transmembrane ubiquitin ligase ATL31, a key regulator of resistance to disrupted carbon (C)/nitrogen/(N)-nutrient conditions. SYP61 is a key component of membrane trafficking in Arabidopsis. The subcellular localization of ATL31 was disrupted in knockdown mutants of SYP61, and the insensitivity of ATL31-overexpressing plants to high C/low N-stress was repressed in these mutants, suggesting that SYP61 and ATL31 cooperatively function in plant responses to nutrient stress. SYP61 is ubiquitinated in plants, and its ubiquitination level is upregulated under low C/high N-nutrient conditions. These findings provide important insights into the ubiquitin signaling and membrane trafficking machinery in plants.
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Affiliation(s)
- Yoko Hasegawa
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Thais Huarancca Reyes
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Tomohiro Uemura
- Graduate School of Humanities and Sciences, Ochanomizu University, Bunkyo-ku, Tokyo 112-8610, Japan
| | - Anirban Baral
- Umeå Plant Science Centre, Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå S-901 83, Sweden
| | - Akari Fujimaki
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Yongming Luo
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Yoshie Morita
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Yasushi Saeki
- Laboratory of Protein Metabolism, Tokyo Metropolitan Institute of Medical Science, Setagaya-ku, Tokyo 156-8506, Japan
| | - Shugo Maekawa
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Shigetaka Yasuda
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Koki Mukuta
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Yoichiro Fukao
- Department of Bioinformatics, Ritsumeikan University, Kusatsu, Shiga 525-8577, Japan
| | - Keiji Tanaka
- Laboratory of Protein Metabolism, Tokyo Metropolitan Institute of Medical Science, Setagaya-ku, Tokyo 156-8506, Japan
| | - Akihiko Nakano
- Live Cell Super-Resolution Imaging Research Team, RIKEN Center for Advanced Photonics, Wako, Saitama 351-0198, Japan
| | - Junpei Takagi
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Rishikesh P Bhalerao
- Umeå Plant Science Centre, Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå S-901 83, Sweden
| | - Junji Yamaguchi
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
| | - Takeo Sato
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Kita-ku N10-W8, Sapporo 060-0810, Japan
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Rodrigo AP, Lopes A, Pereira R, Anjo SI, Manadas B, Grosso AR, Baptista PV, Fernandes AR, Costa PM. Endogenous Fluorescent Proteins in the Mucus of an Intertidal Polychaeta: Clues for Biotechnology. Mar Drugs 2022; 20:md20040224. [PMID: 35447897 PMCID: PMC9028460 DOI: 10.3390/md20040224] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Revised: 03/23/2022] [Accepted: 03/23/2022] [Indexed: 02/04/2023] Open
Abstract
The vast ocean holds many unexplored organisms with unique adaptive features that enable them to thrive in their environment. The secretion of fluorescent proteins is one of them, with reports on the presence of such compounds in marine annelids being scarce. The intertidal Eulalia sp. is an example. The worm secretes copious amounts of mucus, that when purified and concentrated extracts, yield strong fluorescence under UV light. Emission has two main maxima, at 400 nm and at 500 nm, with the latter responsible for the blue–greenish fluorescence. Combining proteomics and transcriptomics techniques, we identified ubiquitin, peroxiredoxin, and 14-3-3 protein as key elements in the mucus. Fluorescence was found to be mainly modulated by redox status and pH, being consistently upheld in extracts prepared in Tris-HCl buffer with reducing agent at pH 7 and excited at 330 nm. One of the proteins associated with the fluorescent signal was localized in secretory cells in the pharynx. The results indicate that the secretion of fluorescent proteinaceous complexes can be an important defense against UV for this dweller. Additionally, the internalization of fluorescent complexes by ovarian cancer cells and modulation of fluorescence of redox status bears important considerations for biotechnological application of mucus components as markers.
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Affiliation(s)
- Ana P. Rodrigo
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
- Associate Laboratory i4HB, Institute for Health and Bioeconomy, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
- Correspondence: (A.P.R.); (P.M.C.); Tel.: +351-212-948-300 (A.P.R. & P.M.C.)
| | - Ana Lopes
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
| | - Ricardo Pereira
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
| | - Sandra I. Anjo
- Center for Neuroscience and Cell Biology, University of Coimbra, Parque Tecnológico de Cantanhede, Núcleo 04, Lote 8, 3060-197 Cantanhede, Portugal; (S.I.A.); (B.M.)
| | - Bruno Manadas
- Center for Neuroscience and Cell Biology, University of Coimbra, Parque Tecnológico de Cantanhede, Núcleo 04, Lote 8, 3060-197 Cantanhede, Portugal; (S.I.A.); (B.M.)
| | - Ana R. Grosso
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
- Associate Laboratory i4HB, Institute for Health and Bioeconomy, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - Pedro V. Baptista
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
- Associate Laboratory i4HB, Institute for Health and Bioeconomy, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - Alexandra R. Fernandes
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
- Associate Laboratory i4HB, Institute for Health and Bioeconomy, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - Pedro M. Costa
- UCIBIO—Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal; (A.L.); (R.P.); (A.R.G.); (P.V.B.); (A.R.F.)
- Associate Laboratory i4HB, Institute for Health and Bioeconomy, NOVA School of Science and Technology, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
- Correspondence: (A.P.R.); (P.M.C.); Tel.: +351-212-948-300 (A.P.R. & P.M.C.)
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Identification and Expression Analyses of the Special 14-3-3 Gene Family in Papaya and its Involvement in Fruit Development, Ripening, and Abiotic Stress Responses. Biochem Genet 2021; 59:1599-1616. [PMID: 34009493 DOI: 10.1007/s10528-021-10077-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Accepted: 04/29/2021] [Indexed: 10/21/2022]
Abstract
Plant 14-3-3 proteins play key roles in regulating growth, development, and stress responses. However, little is known about this gene family in papaya (Carica papaya L.). We characterized eight 14-3-3 genes from the papaya genome and designed them as CpGRF1-8. Based on phylogenetic, conserved motif, and gene structure analyses, papaya CpGRFs were divided into ε and non-ε groups. Expression analysis showed differential and class-specific transcription patterns in different organs. Quantitative real-time polymerase chain reaction analysis showed that most CpGRFs had large changes in expression during fruit development and ripening. This indicated that the CpGRFs were involved in regulating fruit development and ripening. Significant expression changes occurred after cold, salt, and drought treatments in papaya seedlings, indicating that CpGRFs were also involved in signaling responses to abiotic stress. These results provide a transcription profile of 14-3-3 genes in organs, during fruit development and ripening and in response to stress. Some highly expressed, fruit-specific, and stress-responsive candidate CpGRFs will be identified for further genetic improvement of papayas.
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Cai J, Cai W, Huang X, Yang S, Wen J, Xia X, Yang F, Shi Y, Guan D, He S. Ca14-3-3 Interacts With CaWRKY58 to Positively Modulate Pepper Response to Low-Phosphorus Starvation. FRONTIERS IN PLANT SCIENCE 2021; 11:607878. [PMID: 33519860 PMCID: PMC7840522 DOI: 10.3389/fpls.2020.607878] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Accepted: 12/16/2020] [Indexed: 06/12/2023]
Abstract
Low-phosphorus stress (LPS) and pathogen attack are two important stresses frequently experienced by plants in their natural habitats, but how plant respond to them coordinately remains under-investigated. Here, we demonstrate that CaWRKY58, a known negative regulator of the pepper (Capsicum annuum) response to attack by Ralstonia solanacearum, is upregulated by LPS. Virus-induced gene silencing (VIGS) and overexpression of CaWRKY58 in Nicotiana benthamiana plants in combination with chromatin immunoprecipitation (ChIP) and electrophoretic mobility shift assays (EMSA) demonstrated that CaWRKY58 positively regulates the response of pepper to LPS by directly targeting and regulating genes related to phosphorus-deficiency tolerance, including PHOSPHATE STARVATION RESPONSE1 (PHR1). Yeast two-hybrid assays revealed that CaWRKY58 interacts with a 14-3-3 protein (Ca14-3-3); this interaction was confirmed by pull-down, bimolecular fluorescence complementation (BiFC), and microscale thermophoresis (MST) assays. The interaction between Ca14-3-3 and CaWRKY58 enhanced the activation of PHR1 expression by CaWRKY58, but did not affect the expression of the immunity-related genes CaNPR1 and CaDEF1, which are negatively regulated by CaWRKY58 in pepper upon Ralstonia solanacearum inoculation. Collectively, our data indicate that CaWRKY58 negatively regulates immunity against Ralstonia solanacearum, but positively regulates tolerance to LPS and that Ca14-3-3 transcriptionally activates CaWRKY58 in response to LPS.
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Affiliation(s)
- Jinsen Cai
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Weiwei Cai
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Xueying Huang
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Sheng Yang
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Jiayu Wen
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Xiaoqin Xia
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Feng Yang
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Yuanyuan Shi
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Deyi Guan
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Shuilin He
- National Education Ministry Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Applied Genetics of Universities in Fujian Province, Fujian Agriculture and Forestry University, Fuzhou, China
- Agricultural College, Fujian Agriculture and Forestry University, Fuzhou, China
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Gimenez MD, Vazquez DV, Trepat F, Cambiaso V, Rodríguez GR. Fruit quality and DNA methylation are affected by parental order in reciprocal crosses of tomato. PLANT CELL REPORTS 2021; 40:171-186. [PMID: 33079280 DOI: 10.1007/s00299-020-02624-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2020] [Accepted: 10/03/2020] [Indexed: 06/11/2023]
Abstract
Reciprocal effects were found for tomato fruit quality and DNA methylation. The epigenetic identity of reciprocal hybrids indicates that DNA methylation might be one of the mechanisms involved in POEs. Crosses between different genotypes and even between different species are commonly used in plant breeding programs. Reciprocal hybrids are obtained by changing the cross direction (or the sexual role) of parental genotypes in a cross. Phenotypic differences between these hybrids constitute reciprocal effects (REs). The aim of this study was to evaluate phenotypic differences in tomato fruit traits and DNA methylation profiles in three inter- and intraspecific reciprocal crosses. REs were detected for 13 of the 16 fruit traits analyzed. The number of traits with REs was the lowest in the interspecific cross, whereas the highest was found in the cross between recombinant inbred lines (RILs) derived from the same interspecific cross. An extension of gene action analysis was proposed to incorporate parent-of-origin effects (POEs). Maternal and paternal dominance were found in four fruit traits. REs and paternal inheritance were found for epiloci located at coding and non-coding regions. The epigenetic identity displayed by the reciprocal hybrids accounts for the phenotypic differences among them, indicating that DNA methylation might be one of the mechanisms involved in POEs.
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Affiliation(s)
- Magalí Diana Gimenez
- Instituto de Investigaciones en Ciencias Agrarias de Rosario (IICAR-CONICET-UNR), Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina
- CIGEOBIO, (CONICET-UNSJ), Complejo Universitario "Islas Malvinas", FCEFN, Universidad de San Juan, Av. Ignacio de la Roza 590, J5402DCS, Rivadavia, San Juan, Argentina
| | - Dana Valeria Vazquez
- Instituto de Investigaciones en Ciencias Agrarias de Rosario (IICAR-CONICET-UNR), Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina
| | - Felipe Trepat
- Cátedra de Genética, Facultad de Ciencias Agrarias, Universidad Nacional de Rosario, Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina
| | - Vladimir Cambiaso
- Instituto de Investigaciones en Ciencias Agrarias de Rosario (IICAR-CONICET-UNR), Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina
- Cátedra de Genética, Facultad de Ciencias Agrarias, Universidad Nacional de Rosario, Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina
| | - Gustavo Rubén Rodríguez
- Instituto de Investigaciones en Ciencias Agrarias de Rosario (IICAR-CONICET-UNR), Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina.
- Cátedra de Genética, Facultad de Ciencias Agrarias, Universidad Nacional de Rosario, Campo Experimental Villarino, S2125ZAA, Zavalla, Santa Fe, Argentina.
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Sanmartín N, Pastor V, Pastor-Fernández J, Flors V, Pozo MJ, Sánchez-Bel P. Role and mechanisms of callose priming in mycorrhiza-induced resistance. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:2769-2781. [PMID: 31985797 PMCID: PMC7210776 DOI: 10.1093/jxb/eraa030] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2019] [Accepted: 03/11/2020] [Indexed: 05/12/2023]
Abstract
Mycorrhizal plants display enhanced resistance to several pathogens. However, the molecular mechanisms regulating mycorrhiza-induced resistance (MIR) are still elusive. We aim to study the mechanisms underlying MIR against Botrytis cinerea and the role of callose accumulation during this process. Mycorrhizal tomato plants inoculated with Rhizoglomus irregularis displayed callose priming upon B. cinerea infection. The callose inhibitor 2-deoxy-d-glucose abolished MIR, confirming the relevance of callose in the bioprotection phenomena. While studying the mechanisms underlying mycorrhiza-induced callose priming, we found that mycorrhizal plants display an enhanced starch degradation rate that is correlated with increased levels of β-amylase1 transcripts following pathogen infection. Starch mobilization in mycorrhizal plants seems coordinated with the increased transcription of sugar transporter and invertase genes. Moreover, the expression levels of genes encoding the vesicular trafficking proteins ATL31 and SYP121 and callose synthase PMR4 were higher in the mycorrhizal plants and further boosted by subsequent pathogen infection. All these proteins play a key role in the priming of callose accumulation in Arabidopsis, suggesting that callose priming is an induced resistance mechanism conserved in different plant species. This evidence highlights the importance of sugar mobilization and vesicular trafficking in the priming of callose as a defence mechanism in mycorrhiza-induced resistance.
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Affiliation(s)
- Neus Sanmartín
- Metabolic Integration and Cell Signaling Laboratory, Plant Physiology Section, Unidad Asociada al Consejo Superior de Investigaciones Científicas (EEZ-CSIC)-Department of Ciencias Agrarias y del Medio Natural, Universitat Jaume I, Castellón, Spain
| | - Victoria Pastor
- Metabolic Integration and Cell Signaling Laboratory, Plant Physiology Section, Unidad Asociada al Consejo Superior de Investigaciones Científicas (EEZ-CSIC)-Department of Ciencias Agrarias y del Medio Natural, Universitat Jaume I, Castellón, Spain
| | - Julia Pastor-Fernández
- Metabolic Integration and Cell Signaling Laboratory, Plant Physiology Section, Unidad Asociada al Consejo Superior de Investigaciones Científicas (EEZ-CSIC)-Department of Ciencias Agrarias y del Medio Natural, Universitat Jaume I, Castellón, Spain
| | - Victor Flors
- Metabolic Integration and Cell Signaling Laboratory, Plant Physiology Section, Unidad Asociada al Consejo Superior de Investigaciones Científicas (EEZ-CSIC)-Department of Ciencias Agrarias y del Medio Natural, Universitat Jaume I, Castellón, Spain
| | - Maria Jose Pozo
- Department of Soil Microbiology and Symbiotic Systems, Estación Experimental del Zaidín (CSIC), Granada, Spain
| | - Paloma Sánchez-Bel
- Metabolic Integration and Cell Signaling Laboratory, Plant Physiology Section, Unidad Asociada al Consejo Superior de Investigaciones Científicas (EEZ-CSIC)-Department of Ciencias Agrarias y del Medio Natural, Universitat Jaume I, Castellón, Spain
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10
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Abstract
Tomato is a major crop plant and an important constituent of the human diet. Exclusive features such as bearing fleshy fruits and undergoing a phase transition from partially photosynthetic to fully heterotrophic metabolism make tomato fruit a model system for fruit development studies. Although the tomato genome has been completely sequenced, functional proteomics studies are still at their starting stage. Proteomics technologies, especially the combination of multiple approaches, provide a very powerful tool to accurately identify functional proteins and investigate certain sets of proteins in more detail. The direct binding of plant 14-3-3 proteins to their multiple target proteins modulates the functions of the latter, suggesting that these 14-3-3 proteins are directly involved in various physiological pathways. This chapter outline methods for the identification of 14-3-3 protein complexes in tomato fruit tissues. These methods include detailed protocols for protein extraction, coimmunoprecipitation, SDS-PAGE, SYPRO Ruby staining, in-gel trypsin digestion, and LC-MS/MS analysis for 14-3-3 interactomics.
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11
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MacGowan SA, Madeira F, Britto‐Borges T, Warowny M, Drozdetskiy A, Procter JB, Barton GJ. The Dundee Resource for Sequence Analysis and Structure Prediction. Protein Sci 2020; 29:277-297. [PMID: 31710725 PMCID: PMC6933851 DOI: 10.1002/pro.3783] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Revised: 11/07/2019] [Accepted: 11/07/2019] [Indexed: 11/06/2022]
Abstract
The Dundee Resource for Sequence Analysis and Structure Prediction (DRSASP; http://www.compbio.dundee.ac.uk/drsasp.html) is a collection of web services provided by the Barton Group at the University of Dundee. DRSASP's flagship services are the JPred4 webserver for secondary structure and solvent accessibility prediction and the JABAWS 2.2 webserver for multiple sequence alignment, disorder prediction, amino acid conservation calculations, and specificity-determining site prediction. DRSASP resources are available through conventional web interfaces and APIs but are also integrated into the Jalview sequence analysis workbench, which enables the composition of multitool interactive workflows. Other existing Barton Group tools are being brought under the banner of DRSASP, including NoD (Nucleolar localization sequence detector) and 14-3-3-Pred. New resources are being developed that enable the analysis of population genetic data in evolutionary and 3D structural contexts. Existing resources are actively developed to exploit new technologies and maintain parity with evolving web standards. DRSASP provides substantial computational resources for public use, and since 2016 DRSASP services have completed over 1.5 million jobs.
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Affiliation(s)
- Stuart A. MacGowan
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
| | - Fábio Madeira
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
| | - Thiago Britto‐Borges
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
| | - Mateusz Warowny
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
| | - Alexey Drozdetskiy
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
| | - James B. Procter
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
| | - Geoffrey J. Barton
- Division of Computational BiologyCollege of Life Sciences, University of DundeeUK
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12
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Arae T, Morita K, Imahori R, Suzuki Y, Yasuda S, Sato T, Yamaguchi J, Chiba Y. Identification of Arabidopsis CCR4-NOT Complexes with Pumilio RNA-Binding Proteins, APUM5 and APUM2. PLANT & CELL PHYSIOLOGY 2019; 60:2015-2025. [PMID: 31093672 DOI: 10.1093/pcp/pcz089] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Accepted: 04/22/2019] [Indexed: 06/09/2023]
Abstract
CCR4/CAF1 are widely conserved deadenylases in eukaryotes. They form a large complex that includes NOT1 as a scaffold protein and various NOT proteins that are core components of multiple levels of gene expression control. The CCR4-NOT complex also contains several RNA-binding proteins as accessory proteins, which are required for target recognition by CCR4/CAF1 deadenylases. AtCCR4a/b, orthologs of human CCR4 in Arabidopsis, have various physiological effects. AtCCR4 isoforms are likely to have specific target mRNAs related to each physiological effect; however, AtCCR4 does not have RNA-binding capability. Therefore, identifying factors that interact with AtCCR4a/b is indispensable to understand its function as a regulator of gene expression, as well as the target mRNA recognition mechanism. Here, we identified putative components of the AtCCR4-NOT complex using co-immunoprecipitation in combination with mass spectrometry using FLAG-tagged AtCCR4b and subsequent verification with a yeast two-hybrid assay. Interestingly, four of 11 AtCAF1 isoforms interacted with both AtCCR4b and AtNOT1, whereas two isoforms interacted only with AtNOT1 in yeast two-hybrid assays. These results imply that Arabidopsis has multiple CCR4-NOT complexes with various combinations of deadenylases. We also revealed that the RNA-binding protein Arabidopsis Pumilio 5 and 2 interacted with AtCCR4a/b in the cytoplasm with a few foci.
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Affiliation(s)
- Toshihiro Arae
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Kotone Morita
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Riko Imahori
- School of Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Yuya Suzuki
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Shigetaka Yasuda
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Takeo Sato
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
- Faculty of Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Junji Yamaguchi
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
- Faculty of Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
| | - Yukako Chiba
- Graduate School of Life Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
- Faculty of Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Japan
- JST PRESTO, Kawaguchi, Japan
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13
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Luo Y, Aoyama S, Fukao Y, Chiba Y, Sato T, Yamaguchi J. Involvement of the membrane-localized ubiquitin ligase ATL8 in sugar starvation response in Arabidopsis. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2019; 36:107-112. [PMID: 31768111 PMCID: PMC6847778 DOI: 10.5511/plantbiotechnology.19.0328a] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2019] [Accepted: 03/28/2019] [Indexed: 05/11/2023]
Abstract
As major components of the ubiquitin system, ubiquitin ligases mediate the transfer of ubiquitin to specific target substrates, thereby playing important roles in regulating a wide range of cellular processes. The Arabidopsis Tóxicos en Levadura (ATL) family is a group of plant-specific RING-type ubiquitin ligases with N-terminal transmembrane-like domains. To date, 91 ATL isoforms have been identified in the Arabidopsis genome, with some reported to regulate plant responses to environmental stresses. However, the functions of most ATLs remain unclear. This study showed that ATL8 is a sugar starvation response gene and that ATL8 expression was significantly increased by sugar starvation conditions but repressed by exogenous sugar supply. The ATL8 protein was found to possess ubiquitin ligase activity in vitro and to localize to membrane-bound compartments in plant cells. In addition, Starch Synthase 4 was identified as a putative interactor with ATL8, suggesting that ATL8 may be involved in modulating starch accumulation in response to sugar availability. These findings suggest that ATL8 functions as a membrane-localized ubiquitin ligase likely to be involved in the adaptation of Arabidopsis plants to sugar starvation stress.
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Affiliation(s)
- Yongming Luo
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Shoki Aoyama
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Yoichiro Fukao
- Department of Bioinformatics, College of Life Sciences, Ritsumeikan University, Shiga 525-8577, Japan
| | - Yukako Chiba
- 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
| | - Junji Yamaguchi
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
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14
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Huarancca Reyes T, Scartazza A, Pompeiano A, Ciurli A, Lu Y, Guglielminetti L, Yamaguchi J. Nitrate Reductase Modulation in Response to Changes in C/N Balance and Nitrogen Source in Arabidopsis. PLANT & CELL PHYSIOLOGY 2018; 59:1248-1254. [PMID: 29860377 DOI: 10.1093/pcp/pcy065] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2017] [Accepted: 03/18/2018] [Indexed: 05/20/2023]
Abstract
Environmental cues modulate the balance of carbon (C) and nitrogen (N) which are essential elements for plant metabolism and growth. In Arabidopsis, photochemical efficiency of PSII, phosphorylation status and localization of many enzymes, and the level of total soluble sugars were affected by an unbalanced C/N ratio. Since differences in C/N affect these parameters, here we checked whether different sources of N have different effects when a high C/N ratio is imposed. NO3- and NH4+ were separately provided in C/N medium. We investigated the effects on photochemical efficiency of PSII, the level of total soluble sugars and nitrate reductase activity under stressful C/N conditions compared with control conditions. We found that treated plants accumulated more total soluble sugars when compared with control. Photochemical efficiency of PSII did not show significant differences between the two sources of nitrogen after 24 h. The actual nitrate reductase activity was the result of a combination of activity, activation state and protein level. This activity constantly decreased starting from time zero in control conditions; in contrast, the actual nitrate reductase activity showed a peak at 2 h after treatment with NO3-, and at 30 min with NH4+. This, according to the level of total soluble sugars, can be explained by the existence of a cross-talk between the sugars in excess and low nitrate in the medium that blocks the activity of nitrate reductase in stressful sugar conditions until the plant is adapted to the stress.
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Affiliation(s)
- Thais Huarancca Reyes
- Department of Agriculture, Food and Environment, University of Pisa, Pisa 56124, Italy
| | - Andrea Scartazza
- Institute of Agro-environmental and Forest Biology, National Research Council, Monterotondo Scalo, RM 00016, Italy
| | - Antonio Pompeiano
- Center for Translational Medicine (CTM), International Clinical Research Center (ICRC), St. Anne's University Hospital, Brno 62500, Czech Republic
| | - Andrea Ciurli
- Department of Agriculture, Food and Environment, University of Pisa, Pisa 56124, Italy
| | - Yu Lu
- Faculty of Science and Graduate School of Life Science, Hokkaido University Kita-ku N10-W8, Sapporo, 060-0810 Japan
| | | | - Junji Yamaguchi
- Faculty of Science and Graduate School of Life Science, Hokkaido University Kita-ku N10-W8, Sapporo, 060-0810 Japan
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15
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Aoyama S, Terada S, Sanagi M, Hasegawa Y, Lu Y, Morita Y, Chiba Y, Sato T, Yamaguchi J. Membrane-localized ubiquitin ligase ATL15 functions in sugar-responsive growth regulation in Arabidopsis. Biochem Biophys Res Commun 2017; 491:33-39. [PMID: 28690153 DOI: 10.1016/j.bbrc.2017.07.028] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2017] [Accepted: 07/05/2017] [Indexed: 12/12/2022]
Abstract
Ubiquitin ligases play important roles in regulating various cellular processes by modulating the protein function of specific ubiquitination targets. The Arabidopsis Tóxicos en Levadura (ATL) family is a group of plant-specific RING-type ubiquitin ligases that localize to membranes via their N-terminal transmembrane-like domains. To date, 91 ATL isoforms have been identified in the Arabidopsis genome, with several ATLs reported to be involved in regulating plant responses to environmental stresses. However, the functions of most ATLs remain unknown. This study, involving transcriptome database analysis, identifies ATL15 as a sugar responsive ATL gene in Arabidopsis. ATL15 expression was rapidly down-regulated in the presence of sugar. The ATL15 protein showed ubiquitin ligase activity in vitro and localized to plasma membrane and endomembrane compartments. Further genetic analyses demonstrated that the atl15 knockout mutants are insensitive to high glucose concentrations, whereas ATL15 overexpression depresses plant growth. In addition, endogenous glucose and starch amounts were reciprocally affected in the atl15 knockout mutants and the ATL15 overexpressors. These results suggest that ATL15 protein plays a significant role as a membrane-localized ubiquitin ligase that regulates sugar-responsive plant growth in Arabidopsis.
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Affiliation(s)
- Shoki Aoyama
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Saki Terada
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Miho Sanagi
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Yoko Hasegawa
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Yu Lu
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Yoshie Morita
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Yukako Chiba
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Takeo Sato
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan
| | - Junji Yamaguchi
- Faculty of Science and Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810, Japan.
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16
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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: 0.6] [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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17
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Hong JP, Adams E, Yanagawa Y, Matsui M, Shin R. AtSKIP18 and AtSKIP31, F-box subunits of the SCF E3 ubiquitin ligase complex, mediate the degradation of 14-3-3 proteins in Arabidopsis. Biochem Biophys Res Commun 2017; 485:174-180. [DOI: 10.1016/j.bbrc.2017.02.046] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2017] [Accepted: 02/07/2017] [Indexed: 10/20/2022]
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18
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Guo X, Xu J, Cui X, Chen H, Qi H. iTRAQ-based Protein Profiling and Fruit Quality Changes at Different Development Stages of Oriental Melon. BMC PLANT BIOLOGY 2017; 17:28. [PMID: 28129739 PMCID: PMC5273850 DOI: 10.1186/s12870-017-0977-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2016] [Accepted: 01/17/2017] [Indexed: 05/05/2023]
Abstract
BACKGROUND Oriental melon is one of the most popular crops for its nutritional and flavour quality. Components that determine melon quality, such as sugar, colour, texture, flavour and aroma, among other factors, accumulate in different developmental stages. Thus, correlating the proteomic profiles with the biochemical and physiological changes occurring in the oriental melon is very important for advancing our understanding of oriental melon quality in the ripening processes. RESULTS iTRAQ-based protein profiling was conducted on 'YuMeiren' oriental melon fruit at different developmental stages. Physiological quality indices, including firmness, rind colour, soluble solids content (SSC), ethylene production, sugar content and volatile compounds were also characterized during four maturity periods of the melon, including 5, 15, 25 and 35 days after anthesis (DAA). A principal component analysis (PCA) revealed that the aroma volatiles at 5 DAA and 15 DAA were similar and separated from that of 35 DAA. More than 5835 proteins were identified and quantified in the two biological repeats and divided into 4 clusters by hierarchical cluster analysis. A functional analysis was performed using Blast2GO software based on the enrichment of a GO analysis for biological process, molecular function and cellular components. The main KEGG pathways, such as glycolysis, α-linolenic acid and starch and sucrose metabolism, were analyzed. The gene family members corresponding to differentially expressed proteins, including lipoxygenase (CmLOX01-18) and alcohol acetyltransferase (CmAAT1-4) involved in the α-linolenic acid metabolic pathway, were verified with real-time qPCR. The results showed that the expression patterns of 64.7% of the genes were consistent with the expression patterns of the corresponding proteins. CONCLUSIONS This study combined the variation of the quality index and differentially expressed proteins of oriental melon at different developmental stages that laid the foundation for the subsequent protein and gene function validation.
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Affiliation(s)
- Xiaoou Guo
- College of Horticulture, Key Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Collaborative innovation center of protected vegetable suround Bohai gulf region Shenyang, Shenyang Agricultural University, Liaoning, 110866 People’s Republic of China
| | - Jingjing Xu
- College of Horticulture, Key Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Collaborative innovation center of protected vegetable suround Bohai gulf region Shenyang, Shenyang Agricultural University, Liaoning, 110866 People’s Republic of China
| | - Xiaohui Cui
- College of Horticulture, Key Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Collaborative innovation center of protected vegetable suround Bohai gulf region Shenyang, Shenyang Agricultural University, Liaoning, 110866 People’s Republic of China
| | - Hao Chen
- College of Horticulture, Key Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Collaborative innovation center of protected vegetable suround Bohai gulf region Shenyang, Shenyang Agricultural University, Liaoning, 110866 People’s Republic of China
| | - Hongyan Qi
- College of Horticulture, Key Laboratory of Protected Horticulture of Education Ministry and Liaoning Province, Collaborative innovation center of protected vegetable suround Bohai gulf region Shenyang, Shenyang Agricultural University, Liaoning, 110866 People’s Republic of China
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19
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Li M, Ren L, Xu B, Yang X, Xia Q, He P, Xiao S, Guo A, Hu W, Jin Z. Genome-Wide Identification, Phylogeny, and Expression Analyses of the 14-3-3 Family Reveal Their Involvement in the Development, Ripening, and Abiotic Stress Response in Banana. FRONTIERS IN PLANT SCIENCE 2016; 7:1442. [PMID: 27713761 PMCID: PMC5031707 DOI: 10.3389/fpls.2016.01442] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2016] [Accepted: 09/09/2016] [Indexed: 05/19/2023]
Abstract
Plant 14-3-3 proteins act as critical components of various cellular signaling processes and play an important role in regulating multiple physiological processes. However, less information is known about the 14-3-3 gene family in banana. In this study, 25 14-3-3 genes were identified from the banana genome. Based on the evolutionary analysis, banana 14-3-3 proteins were clustered into ε and non-ε groups. Conserved motif analysis showed that all identified banana 14-3-3 genes had the typical 14-3-3 motif. The gene structure of banana 14-3-3 genes showed distinct class-specific divergence between the ε group and the non-ε group. Most banana 14-3-3 genes showed strong transcript accumulation changes during fruit development and postharvest ripening in two banana varieties, indicating that they might be involved in regulating fruit development and ripening. Moreover, some 14-3-3 genes also showed great changes after osmotic, cold, and salt treatments in two banana varieties, suggested their potential role in regulating banana response to abiotic stress. Taken together, this systemic analysis reveals the involvement of banana 14-3-3 genes in fruit development, postharvest ripening, and response to abiotic stress and provides useful information for understanding the functions of 14-3-3 genes in banana.
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Affiliation(s)
- Meiying Li
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
| | - Licheng Ren
- Department of Biology, Hainan Medical CollegeHaikou, China
| | - Biyu Xu
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
| | - Xiaoliang Yang
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
| | - Qiyu Xia
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
| | - Pingping He
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
| | - Susheng Xiao
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
| | - Anping Guo
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
- *Correspondence: Anping Guo
| | - Wei Hu
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
- Wei Hu
| | - Zhiqiang Jin
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural SciencesHaikou, China
- Key Laboratory of Genetic Improvement of Bananas, Hainan province, Haikou Experimental Station, Chinese Academy of Tropical Agricultural SciencesHaikou, China
- Zhiqiang Jin
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