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Fuchs H, Staszak AM, Vargas PA, Sahrawy M, Serrato AJ, Dyderski MK, Klupczyńska EA, Głodowicz P, Rolle K, Ratajczak E. Redox dynamics in seeds of Acer spp: unraveling adaptation strategies of different seed categories. FRONTIERS IN PLANT SCIENCE 2024; 15:1430695. [PMID: 39114470 PMCID: PMC11303208 DOI: 10.3389/fpls.2024.1430695] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/10/2024] [Accepted: 07/08/2024] [Indexed: 08/10/2024]
Abstract
Background Seeds of woody plant species, such as those in the Acer genus like Norway maple (Acer platanoides L.) and sycamore (Acer pseudoplatanus L.), exhibit unique physiological traits and responses to environmental stress. Thioredoxins (Trxs) play a central role in the redox regulation of cells, interacting with other redox-active proteins such as peroxiredoxins (Prxs), and contributing to plant growth, development, and responses to biotic and abiotic stresses. However, there is limited understanding of potential variations in this system between seeds categorized as recalcitrant and orthodox, which could provide insights into adaptive strategies. Methods Using proteomic analysis and DDA methods we investigated the Trx-h1 target proteins in seed axes. We complemented the results of the proteomic analysis with gene expression analysis of the Trx-h1, 1-Cys-Prx, and TrxR NTRA genes in the embryonic axes of maturing, mature, and stored seeds from two Acer species. Results and discussion The expression of Trx-h1 and TrxR NTRA throughout seed maturation in both species was low. The expression of 1-Cys-Prx remained relatively stable throughout seed maturation. In stored seeds, the expression levels were minimal, with slightly higher levels in sycamore seeds, which may confirm that recalcitrant seeds remain metabolically active during storage. A library of 289 proteins interacting with Trx-h1 was constructed, comprising 68 from Norway maple and 221 from sycamore, with distinct profiles in each seed category. Recalcitrant seed axes displayed a wide array of metabolic, stress response, and signaling proteins, suggesting sustained metabolic activity during storage and the need to address oxidative stress. Conversely, the orthodox seed axes presented a protein profile, reflecting efficient metabolic shutdown, which contributes to their extended viability. The results of the study provide new insights into seed viability and storage longevity mechanisms. They enhance the understanding of seed biology and lay the foundation for further evolutionary research on seeds of different categories.
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Affiliation(s)
- Hanna Fuchs
- Institute of Dendrology, Polish Academy of Sciences, Kórnik, Poland
| | - Aleksandra M. Staszak
- Laboratory of Plant Physiology, Department of Plant Biology and Ecology Faculty of Biology, University of Białystok, Białystok, Poland
| | - Paola A. Vargas
- Department of Biochemistry, Cell and Molecular Biology of Plants, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (CSIC), Granada, Spain
| | - Mariam Sahrawy
- Department of Biochemistry, Cell and Molecular Biology of Plants, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (CSIC), Granada, Spain
| | - Antonio J. Serrato
- Department of Biochemistry, Cell and Molecular Biology of Plants, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (CSIC), Granada, Spain
| | | | | | - Paweł Głodowicz
- Institute of Bioorganic Chemistry, Polish Academy of Sciences, Poznań, Poland
| | - Katarzyna Rolle
- Institute of Bioorganic Chemistry, Polish Academy of Sciences, Poznań, Poland
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Marzorati F, Rossi R, Bernardo L, Mauri P, Silvestre DD, Lauber E, Noël LD, Murgia I, Morandini P. Arabidopsis thaliana Early Foliar Proteome Response to Root Exposure to the Rhizobacterium Pseudomonas simiae WCS417. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2023; 36:737-748. [PMID: 37470457 DOI: 10.1094/mpmi-05-23-0071-r] [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: 07/21/2023]
Abstract
Pseudomonas simiae WCS417 is a plant growth-promoting rhizobacterium that improves plant health and development. In this study, we investigate the early leaf responses of Arabidopsis thaliana to WCS417 exposure and the possible involvement of formate dehydrogenase (FDH) in such responses. In vitro-grown A. thaliana seedlings expressing an FDH::GUS reporter show a significant increase in FDH promoter activity in their roots and shoots after 7 days of indirect exposure (without contact) to WCS417. After root exposure to WCS417, the leaves of FDH::GUS plants grown in the soil also show an increased FDH promoter activity in hydathodes. To elucidate early foliar responses to WCS417 as well as FDH involvement, the roots of A. thaliana wild-type Col and atfdh1-5 knock-out mutant plants grown in soil were exposed to WCS417, and proteins from rosette leaves were subjected to proteomic analysis. The results reveal that chloroplasts, in particular several components of the photosystems PSI and PSII, as well as members of the glutathione S-transferase family, are among the early targets of the metabolic changes induced by WCS417. Taken together, the alterations in the foliar proteome, as observed in the atfdh1-5 mutant, especially after exposure to WCS417 and involving stress-responsive genes, suggest that FDH is a node in the early events triggered by the interactions between A. thaliana and the rhizobacterium WCS417. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
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Affiliation(s)
- Francesca Marzorati
- Department of Environmental Science and Policy, University of Milan, Milan, Italy
| | - Rossana Rossi
- Proteomic and Metabolomic Laboratory, Institute for Biomedical Technologies-National Research Council (ITB-CNR), Segrate, Italy
| | - Letizia Bernardo
- Proteomic and Metabolomic Laboratory, Institute for Biomedical Technologies-National Research Council (ITB-CNR), Segrate, Italy
| | - Pierluigi Mauri
- Proteomic and Metabolomic Laboratory, Institute for Biomedical Technologies-National Research Council (ITB-CNR), Segrate, Italy
| | - Dario Di Silvestre
- Proteomic and Metabolomic Laboratory, Institute for Biomedical Technologies-National Research Council (ITB-CNR), Segrate, Italy
| | - Emmanuelle Lauber
- Laboratoire des interactions plantes-microbes-environnement CNRS-INRAE, University of Toulouse, Castanet-Tolosan, France
| | - Laurent D Noël
- Laboratoire des interactions plantes-microbes-environnement CNRS-INRAE, University of Toulouse, Castanet-Tolosan, France
| | - Irene Murgia
- Department of Environmental Science and Policy, University of Milan, Milan, Italy
| | - Piero Morandini
- Department of Environmental Science and Policy, University of Milan, Milan, Italy
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He Q, Jin J, Li P, Zhu H, Wang Z, Fan W, Yang JL. Involvement of SlSTOP1 regulated SlFDH expression in aluminum tolerance by reducing NAD + to NADH in the tomato root apex. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 113:387-401. [PMID: 36471650 DOI: 10.1111/tpj.16054] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2022] [Revised: 11/28/2022] [Accepted: 11/30/2022] [Indexed: 06/17/2023]
Abstract
Formate dehydrogenase (FDH; EC 1.2.1.2.) has been implicated in plant responses to a variety of stresses, including aluminum (Al) stress in acidic soils. However, the role of this enzyme in Al tolerance is not yet fully understood, and how FDH gene expression is regulated is unknown. Here, we report the identification and functional characterization of the tomato (Solanum lycopersicum) SlFDH gene. SlFDH encodes a mitochondria-localized FDH with Km values of 2.087 mm formate and 29.1 μm NAD+ . Al induced the expression of SlFDH in tomato root tips, but other metals did not, as determined by quantitative reverse transcriptase-polymerase chain reaction. CRISPR/Cas9-generated SlFDH knockout lines were more sensitive to Al stress and formate than wild-type plants. Formate failed to induce SlFDH expression in the tomato root apex, but NAD+ accumulated in response to Al stress. Co-expression network analysis and interaction analysis between genomic DNA and transcription factors (TFs) using PlantRegMap identified seven TFs that might regulate SlFDH expression. One of these TFs, SlSTOP1, positively regulated SlFDH expression by directly binding to its promoter, as demonstrated by a dual-luciferase reporter assay and electrophoretic mobility shift assay. The Al-induced expression of SlFDH was completely abolished in Slstop1 mutants, indicating that SlSTOP1 is a core regulator of SlFDH expression under Al stress. Taken together, our findings demonstrate that SlFDH plays a role in Al tolerance and reveal the transcriptional regulatory mechanism of SlFDH expression in response to Al stress in tomato.
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Affiliation(s)
- Qiyu He
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Jianfeng Jin
- Department of Horticulture, Zhejiang University, Zijingang Campus, 866 Yuhangtang Road, Hangzhou, 310058, China
| | - Pengfei Li
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Huihui Zhu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Zhanqi Wang
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, College of Life Sciences, Huzhou University, Huzhou, 313000, China
| | - Wei Fan
- College of Horticulture and Landscape, Yunnan Agricultural University, Kunming, China
| | - Jian Li Yang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
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4
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Cardoso JLS, Souza AA, Vieira MLC. Molecular basis for host responses to Xanthomonas infection. PLANTA 2022; 256:84. [PMID: 36114308 DOI: 10.1007/s00425-022-03994-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Accepted: 09/05/2022] [Indexed: 06/15/2023]
Abstract
This review highlights the most relevant and recent updated information available on the defense responses of selected hosts against Xanthomonas spp. Xanthomonas is one of the most important genera of Gram-negative phytopathogenic bacteria, severely affecting the productivity of economically important crops worldwide, colonizing either the vascular system or the mesophyll tissue of the host. Due to its rapid propagation, Xanthomonas poses an enormous challenge to farmers, because it is usually controlled using huge quantities of copper-based chemicals, adversely impacting the environment. Thus, developing new ways of preventing colonization by these bacteria has become essential. Advances in genomic and transcriptomic technologies have significantly elucidated at molecular level interactions between various crops and Xanthomonas species. Understanding how these hosts respond to the infection is crucial if we are to exploit potential approaches for improving crop breeding and cutting productivity losses. This review focuses on our current knowledge of the defense response mechanisms in agricultural crops after Xanthomonas infection. We describe the molecular basis of host-bacterium interactions over a broad spectrum with the aim of improving our fundamental understanding of which genes are involved and how they work in this interaction, providing information that can help to speed up plant breeding programs, namely using gene editing approaches.
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Affiliation(s)
- Jéssica L S Cardoso
- Genetics Department, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, SP, 13418-900, Brazil
| | - Alessandra A Souza
- Citrus Research Center "Sylvio Moreira", Agronomic Institute (IAC), Cordeirópolis, SP, 13490-000, Brazil
| | - Maria Lucia C Vieira
- Genetics Department, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, SP, 13418-900, Brazil.
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5
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Lee S, Vemanna RS, Oh S, Rojas CM, Oh Y, Kaundal A, Kwon T, Lee HK, Senthil-Kumar M, Mysore KS. Functional role of formate dehydrogenase 1 (FDH1) for host and nonhost disease resistance against bacterial pathogens. PLoS One 2022; 17:e0264917. [PMID: 35594245 PMCID: PMC9122214 DOI: 10.1371/journal.pone.0264917] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2021] [Accepted: 02/21/2022] [Indexed: 11/24/2022] Open
Abstract
Nonhost disease resistance is the most common type of plant defense mechanism against potential pathogens. In the present study, the metabolic enzyme formate dehydrogenase 1 (FDH1) was identified to associate with nonhost disease resistance in Nicotiana benthamiana and Arabidopsis thaliana. In Arabidopsis, AtFDH1 was highly upregulated in response to both host and nonhost bacterial pathogens. The Atfdh1 mutants were compromised in nonhost resistance, basal resistance, and gene-for-gene resistance. The expression patterns of salicylic acid (SA) and jasmonic acid (JA) marker genes after pathogen infections in Atfdh1 mutant indicated that both SA and JA are involved in the FDH1-mediated plant defense response to both host and nonhost bacterial pathogens. Previous studies reported that FDH1 localizes to mitochondria, or both mitochondria and chloroplasts. Our results showed that the AtFDH1 mainly localized to mitochondria, and the expression level of FDH1 was drastically increased upon infection with host or nonhost pathogens. Furthermore, we identified the potential co-localization of mitochondria expressing FDH1 with chloroplasts after the infection with nonhost pathogens in Arabidopsis. This finding suggests the possible role of FDH1 in mitochondria and chloroplasts during defense responses against bacterial pathogens in plants.
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Affiliation(s)
- Seonghee Lee
- Noble Research Institute, LLC, Ardmore, OK, United States of America
- Gulf Coast Research and Education Center, Institute of Food and Agricultural Science, University of Florida, Wimauma, FL, United States of America
| | - Ramu S. Vemanna
- Noble Research Institute, LLC, Ardmore, OK, United States of America
| | - Sunhee Oh
- Noble Research Institute, LLC, Ardmore, OK, United States of America
| | | | - Youngjae Oh
- Gulf Coast Research and Education Center, Institute of Food and Agricultural Science, University of Florida, Wimauma, FL, United States of America
| | - Amita Kaundal
- Noble Research Institute, LLC, Ardmore, OK, United States of America
| | - Taegun Kwon
- Noble Research Institute, LLC, Ardmore, OK, United States of America
| | - Hee-Kyung Lee
- Noble Research Institute, LLC, Ardmore, OK, United States of America
| | | | - Kirankumar S. Mysore
- Noble Research Institute, LLC, Ardmore, OK, United States of America
- Institute for Agricultural Biosciences, Oklahoma State University, Ardmore, OK, United States of America
- Department of Biochemistry and Molecular Biology, Oklahoma State University, Stillwater, OK, United States of America
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Sudha M, Karthikeyan A, Madhumitha B, Veera Ranjani R, Kanimoli Mathivathana M, Dhasarathan M, Murukarthick J, Samu Shihabdeen MN, Eraivan Arutkani Aiyanathan K, Pandiyan M, Senthil N, Raveendran M. Dynamic Transcriptome Profiling of Mungbean Genotypes Unveil the Genes Respond to the Infection of Mungbean Yellow Mosaic Virus. Pathogens 2022; 11:pathogens11020190. [PMID: 35215133 PMCID: PMC8874377 DOI: 10.3390/pathogens11020190] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Revised: 01/14/2022] [Accepted: 01/21/2022] [Indexed: 12/13/2022] Open
Abstract
Yellow mosaic disease (YMD), incited by mungbean yellow mosaic virus (MYMV), is a primary viral disease that reduces mungbean production in South Asia, especially in India. There is no detailed knowledge regarding the genes and molecular mechanisms conferring resistance of mungbean to MYMV. Therefore, disclosing the genetic and molecular bases related to MYMV resistance helps to develop the mungbean genotypes with MYMV resistance. In this study, transcriptomes of mungbean genotypes, VGGRU-1 (resistant) and VRM (Gg) 1 (susceptible) infected with MYMV were compared to those of uninfected controls. The number of differentially expressed genes (DEGs) in the resistant and susceptible genotypes was 896 and 506, respectively. Among them, 275 DEGs were common between the resistant and susceptible genotypes. Functional annotation of DEGs revealed that the DEGs belonged to the following categories defense and pathogenesis, receptor-like kinases; serine/threonine protein kinases, hormone signaling, transcription factors, and chaperons, and secondary metabolites. Further, we have confirmed the expression pattern of several DEGs by quantitative real-time PCR (qRT-PCR) analysis. Collectively, the information obtained in this study unveils the new insights into characterizing the MYMV resistance and paved the way for breeding MYMV resistant mungbean in the future.
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Affiliation(s)
- Manickam Sudha
- Department of Plant Biotechnology, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore 641003, Tamil Nadu, India; (R.V.R.); (M.N.S.S.); (M.R.)
- Correspondence:
| | - Adhimoolam Karthikeyan
- Department of Biotechnology, Centre of Innovation, Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai 625104, Tamil Nadu, India;
| | - Balasubramaniam Madhumitha
- Department of Plant Pathology, Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai 625104, Tamil Nadu, India;
| | - Rajagopalan Veera Ranjani
- Department of Plant Biotechnology, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore 641003, Tamil Nadu, India; (R.V.R.); (M.N.S.S.); (M.R.)
| | - Mayalagu Kanimoli Mathivathana
- Department of Plant Breeding and Genetics, Agricultural College and Research Institute, Tamil Nadu Agricultural University, Madurai 625104, Tamil Nadu, India;
| | - Manickam Dhasarathan
- Agroclimate Research Centre, Directorate of Crop Management, Tamil Nadu Agricultural University, Coimbatore 641003, Tamil Nadu, India;
| | - Jayakodi Murukarthick
- Gene Bank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Stadt See land, 06466 Seeland, OT Gatersleben, Germany;
| | - Madiha Natchi Samu Shihabdeen
- Department of Plant Biotechnology, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore 641003, Tamil Nadu, India; (R.V.R.); (M.N.S.S.); (M.R.)
| | | | - Muthaiyan Pandiyan
- Regional Research Station, Tamil Nadu Agricultural University, Virudhachalam 606001, Tamil Nadu, India;
| | - Natesan Senthil
- Department of Plant Molecular Biology and Bioinformatics, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore 641003, Tamil Nadu, India;
| | - Muthurajan Raveendran
- Department of Plant Biotechnology, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore 641003, Tamil Nadu, India; (R.V.R.); (M.N.S.S.); (M.R.)
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Kijak H, Ratajczak E. What Do We Know About the Genetic Basis of Seed Desiccation Tolerance and Longevity? Int J Mol Sci 2020; 21:E3612. [PMID: 32443842 PMCID: PMC7279459 DOI: 10.3390/ijms21103612] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Revised: 05/15/2020] [Accepted: 05/18/2020] [Indexed: 01/02/2023] Open
Abstract
Long-term seed storage is important for protecting both economic interests and biodiversity. The extraordinary properties of seeds allow us to store them in the right conditions for years. However, not all types of seeds are resilient, and some do not tolerate extreme desiccation or low temperature. Seeds can be divided into three categories: (1) orthodox seeds, which tolerate water losses of up to 7% of their water content and can be stored at low temperature; (2) recalcitrant seeds, which require a humidity of 27%; and (3) intermediate seeds, which lose their viability relatively quickly compared to orthodox seeds. In this article, we discuss the genetic bases for desiccation tolerance and longevity in seeds and the differences in gene expression profiles between the mentioned types of seeds.
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Affiliation(s)
- Hanna Kijak
- Institute of Dendrology, Polish Academy of Sciences, 62-035 Kórnik, Poland;
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8
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Papavasileiou A, Tanou G, Samaras A, Samiotaki M, Molassiotis A, Karaoglanidis G. Proteomic analysis upon peach fruit infection with Monilinia fructicola and M. laxa identify responses contributing to brown rot resistance. Sci Rep 2020; 10:7807. [PMID: 32385387 PMCID: PMC7210933 DOI: 10.1038/s41598-020-64864-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Accepted: 04/17/2020] [Indexed: 12/28/2022] Open
Abstract
Brown rot, caused by Monilinia spp., is a major peach disease worldwide. In this study, the response of peach cultivars Royal Glory (RG) and Rich Lady (RL) to infection by Monilinia fructicola or Monilinia laxa, was characterized. Phenotypic data, after artificial inoculations, revealed that ‘RL’ was relatively susceptible whereas ‘RG’ was moderately resistant to Monilinia spp. Comparative proteomic analysis identified mesocarp proteins of the 2 cultivars whose accumulation were altered by the 2 Monilinia species. Functional analysis indicated that pathogen-affected proteins in ‘RG’ were mainly involved in energy and metabolism, while, differentially accumulated proteins by the pathogen presence in ‘RL’ were involved in disease/defense and metabolism. A higher number of proteins was differentiated in ‘RG’ fruit compared to ‘RL’. Upon Monilinia spp. infection, various proteins were-down accumulated in ‘RL’ fruit. Protein identification by mass spectrometric analysis revealed that several defense-related proteins including thaumatin, formate dehydrogenase, S-formylglutathione hydrolase, CBS domain-containing protein, HSP70, and glutathione S-transferase were up-accumulated in ‘RG’ fruit following inoculation. The expression profile of selected defense-related genes, such as major latex allergen, 1-aminocyclopropane-1-carboxylate deaminase and UDP-glycoltransferase was assessed by RT-PCR. This is the first study deciphering differential regulations of peach fruit proteome upon Monilinia infection elucidating resistance responses.
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Affiliation(s)
- Antonios Papavasileiou
- Laboratory of Plant Pathology, Faculty of Agriculture, Forestry and Natural Environment, Aristotle University, POB 269, 54124, Thessaloniki, Greece
| | - Georgia Tanou
- Institute of Soil and Water Resources, ELGO-Demeter Thermi, Thessaloniki, Greece
| | - Anastasios Samaras
- Laboratory of Plant Pathology, Faculty of Agriculture, Forestry and Natural Environment, Aristotle University, POB 269, 54124, Thessaloniki, Greece
| | - Martina Samiotaki
- Biomedical Sciences Research Center "Alexander Fleming", Vari, 16672, Greece
| | - Athanassios Molassiotis
- Laboratory of Pomology, Faculty of Agriculture, Forestry and Natural Environment, Aristotle University, 570 01, Thessaloniki-Thermi, Greece.
| | - George Karaoglanidis
- Laboratory of Plant Pathology, Faculty of Agriculture, Forestry and Natural Environment, Aristotle University, POB 269, 54124, Thessaloniki, Greece.
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Møller IM, Igamberdiev AU, Bykova NV, Finkemeier I, Rasmusson AG, Schwarzländer M. Matrix Redox Physiology Governs the Regulation of Plant Mitochondrial Metabolism through Posttranslational Protein Modifications. THE PLANT CELL 2020; 32:573-594. [PMID: 31911454 PMCID: PMC7054041 DOI: 10.1105/tpc.19.00535] [Citation(s) in RCA: 49] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2019] [Revised: 10/28/2019] [Accepted: 01/06/2020] [Indexed: 05/18/2023]
Abstract
Mitochondria function as hubs of plant metabolism. Oxidative phosphorylation produces ATP, but it is also a central high-capacity electron sink required by many metabolic pathways that must be flexibly coordinated and integrated. Here, we review the crucial roles of redox-associated posttranslational protein modifications (PTMs) in mitochondrial metabolic regulation. We discuss several major concepts. First, the major redox couples in the mitochondrial matrix (NAD, NADP, thioredoxin, glutathione, and ascorbate) are in kinetic steady state rather than thermodynamic equilibrium. Second, targeted proteomics have produced long lists of proteins potentially regulated by Cys oxidation/thioredoxin, Met-SO formation, phosphorylation, or Lys acetylation, but we currently only understand the functional importance of a few of these PTMs. Some site modifications may represent molecular noise caused by spurious reactions. Third, different PTMs on the same protein or on different proteins in the same metabolic pathway can interact to fine-tune metabolic regulation. Fourth, PTMs take part in the repair of stress-induced damage (e.g., by reducing Met and Cys oxidation products) as well as adjusting metabolic functions in response to environmental variation, such as changes in light irradiance or oxygen availability. Finally, PTMs form a multidimensional regulatory system that provides the speed and flexibility needed for mitochondrial coordination far beyond that provided by changes in nuclear gene expression alone.
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Affiliation(s)
- Ian Max Møller
- Department of Molecular Biology and Genetics, Aarhus University, DK-4200 Slagelse, Denmark
| | - Abir U Igamberdiev
- Department of Biology, Memorial University of Newfoundland, St. John's, Newfoundland A1B 3X9, Canada
| | - Natalia V Bykova
- Agriculture and Agri-Food Canada, Morden Research and Development Centre, Morden, Manitoba R6M 1Y5, Canada
| | - Iris Finkemeier
- Institute of Plant Biology and Biotechnology, University of Münster, DE-48149 Münster, Germany
| | | | - Markus Schwarzländer
- Institute of Plant Biology and Biotechnology, University of Münster, DE-48143 Münster, Germany
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Stavrinides AK, Dussert S, Combes MC, Fock-Bastide I, Severac D, Minier J, Bastos-Siqueira A, Demolombe V, Hem S, Lashermes P, Joët T. Seed comparative genomics in three coffee species identify desiccation tolerance mechanisms in intermediate seeds. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:1418-1433. [PMID: 31790120 PMCID: PMC7031068 DOI: 10.1093/jxb/erz508] [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: 05/17/2019] [Accepted: 11/10/2019] [Indexed: 05/13/2023]
Abstract
In contrast to desiccation-tolerant 'orthodox' seeds, so-called 'intermediate' seeds cannot survive complete drying and are short-lived. All species of the genus Coffea produce intermediate seeds, but they show a considerable variability in seed desiccation tolerance (DT), which may help to decipher the molecular basis of seed DT in plants. We performed a comparative transcriptome analysis of developing seeds in three coffee species with contrasting desiccation tolerance. Seeds of all species shared a major transcriptional switch during late maturation that governs a general slow-down of metabolism. However, numerous key stress-related genes, including those coding for the late embryogenesis abundant protein EM6 and the osmosensitive calcium channel ERD4, were up-regulated during DT acquisition in the two species with high seed DT, C. arabica and C. eugenioides. By contrast, we detected up-regulation of numerous genes involved in the metabolism, transport, and perception of auxin in C. canephora seeds with low DT. Moreover, species with high DT showed a stronger down-regulation of the mitochondrial machinery dedicated to the tricarboxylic acid cycle and oxidative phosphorylation. Accordingly, respiration measurements during seed dehydration demonstrated that intermediate seeds with the highest DT are better prepared to cease respiration and avoid oxidative stresses.
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Affiliation(s)
| | | | | | | | - Dany Severac
- MGX-Montpellier GenomiX, c/o Institut de Génomique Fonctionnelle, Montpellier Cedex 5, France
| | | | | | - Vincent Demolombe
- BPMP, CNRS, INRA, Montpellier SupAgro, Univ Montpellier, Montpellier, France
| | - Sonia Hem
- BPMP, CNRS, INRA, Montpellier SupAgro, Univ Montpellier, Montpellier, France
| | | | - Thierry Joët
- IRD, Université Montpellier, UMR DIADE, Montpellier, France
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11
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Finney AJ, Lowden R, Fleszar M, Albareda M, Coulthurst SJ, Sargent F. The plant pathogen Pectobacterium atrosepticum contains a functional formate hydrogenlyase-2 complex. Mol Microbiol 2019; 112:1440-1452. [PMID: 31420965 PMCID: PMC7384014 DOI: 10.1111/mmi.14370] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/13/2019] [Indexed: 12/19/2022]
Abstract
Pectobacterium atrosepticum SCRI1043 is a phytopathogenic Gram-negative enterobacterium. Genomic analysis has identified that genes required for both respiration and fermentation are expressed under anaerobic conditions. One set of anaerobically expressed genes is predicted to encode an important but poorly understood membrane-bound enzyme termed formate hydrogenlyase-2 (FHL-2), which has fascinating evolutionary links to the mitochondrial NADH dehydrogenase (Complex I). In this work, molecular genetic and biochemical approaches were taken to establish that FHL-2 is fully functional in P. atrosepticum and is the major source of molecular hydrogen gas generated by this bacterium. The FHL-2 complex was shown to comprise a rare example of an active [NiFe]-hydrogenase-4 (Hyd-4) isoenzyme, itself linked to an unusual selenium-free formate dehydrogenase in the final complex. In addition, further genetic dissection of the genes encoding the predicted membrane arm of FHL-2 established surprisingly that the majority of genes encoding this domain are not required for physiological hydrogen production activity. Overall, this study presents P. atrosepticum as a new model bacterial system for understanding anaerobic formate and hydrogen metabolism in general, and FHL-2 function and structure in particular.
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Affiliation(s)
- Alexander J Finney
- School of Natural & Environmental Sciences, Newcastle University, Newcastle Upon Tyne, NE1 7RU, UK.,School of Life Sciences, University of Dundee, Dundee, DD1 5EH, UK
| | - Rebecca Lowden
- School of Life Sciences, University of Dundee, Dundee, DD1 5EH, UK
| | - Michal Fleszar
- School of Life Sciences, University of Dundee, Dundee, DD1 5EH, UK
| | - Marta Albareda
- School of Life Sciences, University of Dundee, Dundee, DD1 5EH, UK.,Centro de Biotecnología y Genómica de Plantas (C.B.G.P.) UPM-INIA, Universidad Politécnica de Madrid, Campus de Montegancedo, Pozuelo de Alarcón, 28223, Spain
| | | | - Frank Sargent
- School of Natural & Environmental Sciences, Newcastle University, Newcastle Upon Tyne, NE1 7RU, UK.,School of Life Sciences, University of Dundee, Dundee, DD1 5EH, UK
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12
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Wang J, Deng Y, Zhou Y, Liu D, Yu H, Zhou Y, Lv J, Ou L, Li X, Ma Y, Dai X, Liu F, Zou X, Ouyang B, Li F. Full-length mRNA sequencing and gene expression profiling reveal broad involvement of natural antisense transcript gene pairs in pepper development and response to stresses. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 99:763-783. [PMID: 31009127 DOI: 10.1111/tpj.14351] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2019] [Revised: 03/18/2019] [Accepted: 03/27/2019] [Indexed: 06/09/2023]
Abstract
Pepper is an important vegetable with great economic value and unique biological features. In the past few years, significant development has been made toward understanding the huge complex pepper genome; however, pepper functional genomics has not been well studied. To better understand the pepper gene structure and pepper gene regulation, we conducted full-length mRNA sequencing by PacBio sequencing and obtained 57 862 high-quality full-length mRNA sequences derived from 18 362 previously annotated and 5769 newly detected genes. New gene models were built that combined the full-length mRNA sequences and corrected approximately 500 fragmented gene models from previous annotations. Based on the full-length mRNA, we identified 4114 and 5880 pepper genes forming natural antisense transcript (NAT) genes in-cis and in-trans, respectively. Most of these genes accumulate small RNAs in their overlapping regions. By analyzing these NAT gene expression patterns in our transcriptome data, we identified many NAT pairs responsive to a variety of biological processes in pepper. Pepper formate dehydrogenase 1 (FDH1), which is required for R-gene-mediated disease resistance, may be regulated by nat-siRNAs and participate in a positive feedback loop in salicylic acid biosynthesis during resistance responses. Several cis-NAT pairs and subgroups of trans-NAT genes were responsive to pepper pericarp and placenta development, which may play roles in capsanthin and capsaicin biosynthesis. Using a comparative genomics approach, the evolutionary mechanisms of cis-NATs were investigated, and we found that an increase in intergenic sequences accounted for the loss of most cis-NATs, while transposon insertion contributed to the formation of most new cis-NATs. OPEN RESEARCH BADGES: This article has earned an Open Data Badge for making publicly available the digitally-shareable data necessary to reproduce the reported results. The data is available at http://bigd.big.ac.cn/gsa Accession number, CRA001412.
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Affiliation(s)
- Jubin Wang
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Yingtian Deng
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Yingjia Zhou
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Dan Liu
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Huiyang Yu
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Yuhong Zhou
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Junheng Lv
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Lijun Ou
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Xuefeng Li
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Yanqing Ma
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Xiongze Dai
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Feng Liu
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Xuexiao Zou
- Hunan Institute of Vegetable Research, Academy of Agricultural Sciences of Hunan Province, Changsha, HN, China
| | - Bo Ouyang
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
| | - Feng Li
- Key Laboratory of Horticultural Plant Biology (MOE), College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, HB, China
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13
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Li S, Liu Z, Jia Y, Ye J, Yang X, Zhang L, Song X. Analysis of metabolic pathways related to fertility restoration and identification of fertility candidate genes associated with Aegilops kotschyi cytoplasm in wheat (Triticum aestivum L.). BMC PLANT BIOLOGY 2019; 19:252. [PMID: 31185903 PMCID: PMC6560861 DOI: 10.1186/s12870-019-1824-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2018] [Accepted: 05/09/2019] [Indexed: 05/10/2023]
Abstract
BACKGROUND Thermo-sensitive male-sterility based on Aegilops kotschyi cytoplasm (K-TCMS) plays an important role in hybrid wheat breeding. This has important possible applications in two-line hybrid wheat breeding but the genetic basis and molecular regulation mechanism related to fertility restoration are poorly understood. In this study, comparative transcriptome profiling based on RNA sequencing was conducted for two near-isogenic lines comprising KTM3315R and its sterile counterpart KTM3315A, a total of six samples (3 repetitions per group), in order to identify fertility restoration genes and their metabolic pathways. RESULTS In total, 2642 significant differentially expressed genes (DEGs) were detected, among which 1238 were down-regulated and 1404 were up-regulated in fertile anthers. Functional annotation enrichment analysis identified important pathways related to fertility restoration, such as carbohydrate metabolism, phenylpropanoid metabolism and biosynthesis, as well as candidate genes encoding pectin methylesterase and flavanone 3-hydroxylase. Moreover, transcription factor analysis showed that a large number of DEGs were mainly involved with the WRKY, bHLH, and MYB transcription factor families. Determination of total soluble sugar and flavonoid contents demonstrated that important metabolic pathways and candidate genes are associated with fertility restoration. Twelve DEGs were selected and detected by quantitative reverse-transcribed PCR, and the results indicated that the transcriptome sequencing results were reliable. CONCLUSIONS Our results indicate that identified DEGs were related to the fertility restoration and they proved to be crucial in Aegilops kotschyi cytoplasm. These findings also provide a basis for exploring the molecular regulation mechanism associated with wheat fertility restoration as well as screening and cloning related genes.
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Affiliation(s)
- Sha Li
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
| | - Zihan Liu
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
| | - Yulin Jia
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
| | - Jiali Ye
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
| | - Xuetong Yang
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
| | - Lingli Zhang
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
| | - Xiyue Song
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi China
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14
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Kallamadi PR, Dandu K, Kirti PB, Rao CM, Thakur SS, Mulpuri S. An Insight into Powdery Mildew-Infected, Susceptible, Resistant, and Immune Sunflower Genotypes. Proteomics 2018; 18:e1700418. [DOI: 10.1002/pmic.201700418] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2017] [Revised: 05/26/2018] [Indexed: 12/24/2022]
Affiliation(s)
- Prathap Reddy Kallamadi
- ICAR- Indian Institute of Oilseeds Research; Rajendranagar 500 030 Hyderabad India
- University of Hyderabad; Prof. C.R. Rao Road 500 046 Hyderabad India
| | - Kamakshi Dandu
- CSIR- Centre for Cellular and Molecular Biology; Uppal Road, Habsiguda 500 007 Hyderabad India
| | | | - Chintalagiri Mohan Rao
- CSIR- Centre for Cellular and Molecular Biology; Uppal Road, Habsiguda 500 007 Hyderabad India
| | - Suman S Thakur
- CSIR- Centre for Cellular and Molecular Biology; Uppal Road, Habsiguda 500 007 Hyderabad India
| | - Sujatha Mulpuri
- ICAR- Indian Institute of Oilseeds Research; Rajendranagar 500 030 Hyderabad India
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15
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McNeilly D, Schofield A, Stone SL. Degradation of the stress-responsive enzyme formate dehydrogenase by the RING-type E3 ligase Keep on Going and the ubiquitin 26S proteasome system. PLANT MOLECULAR BIOLOGY 2018; 96:265-278. [PMID: 29270890 DOI: 10.1007/s11103-017-0691-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2017] [Accepted: 12/08/2017] [Indexed: 06/07/2023]
Abstract
KEG is involved in mediating the proteasome-dependent degradation of FDH, a stress-responsive enzyme. The UPS may function to suppress FDH mediated stress responses under favorable growth conditions. Formate dehydrogenase (FDH) has been studied in bacteria and yeasts for the purpose of industrial application of NADH co-factor regeneration. In plants, FDH is regarded as a universal stress protein involved in responses to various abiotic and biotic stresses. Here we show that FDH abundance is regulated by the ubiquitin proteasome system (UPS). FDH is ubiquitinated in planta and degraded by the 26S proteasome. Interaction assays identified FDH as a potential substrate for the RING-type ubiquitin ligase Keep on Going (KEG). KEG is capable of attaching ubiquitin to FDH in in vitro assays and the turnover of FDH was increased when co-expressed with a functional KEG in planta, suggesting that KEG contributes to FDH degradation. Consistent with a role in regulating FDH abundance, transgenic plants overexpressing KEG were more sensitive to the inhibitory effects of formate. In addition, FDH is a phosphoprotein and dephosphorylation was found to increase the stability of FDH in degradation assays. Based on results from this and previous studies, we propose a model where KEG mediates the ubiquitination and subsequent degradation of phosphorylated FDH and, in response to unfavourable growth conditions, reduction in FDH phosphorylation levels may prohibit turnover allowing the stabilized FDH to facilitate stress responses.
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Affiliation(s)
- Daryl McNeilly
- Department of Biology, Dalhousie University, Halifax, NS, B3H4R2, Canada
| | - Andrew Schofield
- Department of Biology, Dalhousie University, Halifax, NS, B3H4R2, Canada
| | - Sophia L Stone
- Department of Biology, Dalhousie University, Halifax, NS, B3H4R2, Canada.
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16
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Abstract
Despite of their economical and nutritional interest, the biology of fruits is still little studied in comparison with reports of other plant organs such as leaves and roots. Accordingly, research at subcellular and molecular levels is necessary not only to understand the physiology of fruits, but also to improve crop qualities. Efforts addressed to gain knowledge of the peroxisome proteome and how it interacts with the overall metabolism of fruits will provide tools to be used in breeding strategies of agricultural species with added value. In this work, special attention will be paid to peroxisomal proteins involved in the metabolism of reactive oxygen species (ROS) due to the relevant role of these compounds at fruit ripening. The proteome of peroxisomes purified from sweet pepper (Capsicum annuum L.) fruit is reported, where an iron-superoxide dismutase (Fe-SOD) was localized in these organelles, besides other antioxidant enzymes such as catalase and a Mn-SOD, as well as enzymes involved in the metabolism of carbohydrates, malate, lipids and fatty acids, amino acids, the glyoxylate cycle and in the potential organelles' movements.
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17
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Kang YJ, Shim KC, Lee HS, Jeon YA, Kim SH, Kang JW, Yun YT, Park IK, Ahn SN. Fine mapping and candidate gene analysis of the quantitative trait locus gw8.1 associated with grain length in rice. Genes Genomics 2017; 40:389-397. [PMID: 29892844 DOI: 10.1007/s13258-017-0640-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2017] [Accepted: 12/08/2017] [Indexed: 11/30/2022]
Abstract
A quantitative trait locus (QTL) gw8.1 was detected in the population derived from a cross between the elite japonica cultivar, 'Hwaseong' and Oryza rufipogon (IRGC 105491). Near isogenic lines (NILs) harboring the O. rufipogon segment on chromosome 8 showed increased grain length and weight compared to those of the recurrent parent, Hwaseong. This QTL was mapped to a 175.3-kb region containing 28 genes, of which four were considered as candidates based on the presence of mutations in their coding regions and as per the RNA expression pattern during the inflorescence stage. Leaves and panicles obtained from plants harvested 5 days after heading showed differences in gene expression between Hwaseong and gw8.1-NILs. Most genes were upregulated in O. rufipogon and gw8.1-NIL than in Hwaseong. Scanning electron microscopy analysis of the lemma inner epidermal cells indicated that cell length was higher in gw8.1 NIL than in Hwaseong, indicating that gw8.1 might regulate cell elongation. Among the candidate genes, LOC_Os08g34380 encoding a putative receptor-like kinase and LOC_Os08g34550 encoding putative RING-H2 finger protein were considered as possible candidates based on their functional similarity.
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Affiliation(s)
- Yun-Joo Kang
- Department of Agronomy, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, 34134, South Korea
| | - Kyu-Chan Shim
- Department of Agronomy, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, 34134, South Korea
| | - Hyun-Sook Lee
- Department of Agronomy, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, 34134, South Korea
| | - Yun-A Jeon
- Department of Agronomy, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, 34134, South Korea
| | - Sun-Ha Kim
- Department of Agronomy, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, 34134, South Korea
| | - Ju-Won Kang
- Department of Southern Area Crop Science, National Institute of Crop Science, Milyang, 50424, South Korea
| | - Yeo-Tae Yun
- Chungcheongnamdo Agricultural Research and Extension Services, Yesan, 340-861, South Korea
| | - In-Kyu Park
- K-Herb Research Center, Korea Institute of Oriental Medicine, Daejeon, 34054, South Korea
| | - Sang-Nag Ahn
- Department of Agronomy, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, 34134, South Korea.
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Witzel K, Buhtz A, Grosch R. Temporal impact of the vascular wilt pathogen Verticillium dahliae on tomato root proteome. J Proteomics 2017; 169:215-224. [PMID: 28428141 DOI: 10.1016/j.jprot.2017.04.008] [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: 12/08/2016] [Revised: 02/23/2017] [Accepted: 04/04/2017] [Indexed: 11/26/2022]
Abstract
The soil-borne fungus Verticillium dahliae is the causal agent of wilting disease and affects a wide range of plant species worldwide. Here, we report on the time-resolved analysis of the tomato root proteome in response to fungal colonization. Tomato (Solanum lycopersicum cv. Hildares) was inoculated with V. dahliae at the two-leaf stage and roots were harvested at 7, 14 and 21 days post inoculation (dpi). In order to identify proteins related to the fungal spread at the different time points, a subsequent proteome analysis by two-dimensional differential gel electrophoresis (2D-DIGE) was conducted on samples from three independent experiments. Hierarchical clustering and k-means clustering of identified proteins distinguished early and late responses to fungal colonization. The results underline that plant defense and adaptation responses are timely coordinated. Proteins involved in oxidative stress were down-regulated at 7 dpi but induced 21 dpi indicating versatile reactive oxygen species signaling interacting with salicylic acid defence signaling at that stage of infection. Drought-stress proteins were induced at 21 dpi, reflecting the beginning of wilting symptoms. Notably, two proteins involved in energy-generating pathways were induced throughout all sampling dates and may reflect the increase in metabolic activity to maintain root growth and, concurrently, activate defense responses. BIOLOGICAL SIGNIFICANCE Mounting of defense responses requires a substantial flux of carbon and nitrogen from primary to secondary metabolites. In-depth understanding of these key metabolic pathways required for growth and defense responses, especially at proteome level, will allow the development of breeding strategies for crops where Verticillium tolerance is absent. Our data show early and late responses of tomato root proteins towards pathogen infection and identify primary metabolism enzymes affected by V. dahliae. Those proteins represent candidates for plant improvement.
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Affiliation(s)
- Katja Witzel
- Leibniz Institute of Vegetable and Ornamental Crops, Theodor-Echtermeyer-Weg 1, 14979 Großbeeren, Germany.
| | - Anja Buhtz
- Leibniz Institute of Vegetable and Ornamental Crops, Theodor-Echtermeyer-Weg 1, 14979 Großbeeren, Germany
| | - Rita Grosch
- Leibniz Institute of Vegetable and Ornamental Crops, Theodor-Echtermeyer-Weg 1, 14979 Großbeeren, Germany
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19
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Wu S, Ning F, Wu X, Wang W. Proteomic Characterization of Differential Abundant Proteins Accumulated between Lower and Upper Epidermises of Fleshy Scales in Onion (Allium cepa L.) Bulbs. PLoS One 2016; 11:e0168959. [PMID: 28036352 PMCID: PMC5201266 DOI: 10.1371/journal.pone.0168959] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2016] [Accepted: 12/08/2016] [Indexed: 02/03/2023] Open
Abstract
The onion (Allium cepa L.) is widely planted worldwide as a valuable vegetable crop. The scales of an onion bulb are a modified type of leaf. The one-layer-cell epidermis of onion scales is commonly used as a model experimental material in botany and molecular biology. The lower epidermis (LE) and upper epidermis (UE) of onion scales display obvious differences in microscopic structure, cell differentiation and pigment synthesis; however, associated proteomic differences are unclear. LE and UE can be easily sampled as single-layer-cell tissues for comparative proteomic analysis. In this study, a proteomic approach based on 2-DE and mass spectrometry (MS) was applied to compare LE and UE of fleshy scales from yellow and red onions. We identified 47 differential abundant protein spots (representing 31 unique proteins) between LE and UE in red and yellow onions. These proteins are mainly involved in pigment synthesis, stress response, and cell division. Particularly, the differentially accumulated chalcone-flavanone isomerase and flavone O-methyltransferase 1-like in LE may result in the differences in the onion scale color between red and yellow onions. Moreover, stress-related proteins abundantly accumulated in both LE and UE. In addition, the differential accumulation of UDP-arabinopyranose mutase 1-like protein and β-1,3-glucanase in the LE may be related to the different cell sizes between LE and UE of the two types of onion. The data derived from this study provides new insight into the differences in differentiation and developmental processes between onion epidermises. This study may also make a contribution to onion breeding, such as improving resistances and changing colors.
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Affiliation(s)
- Si Wu
- College of Sciences, Henan Agricultural University, Zhengzhou, China
| | - Fen Ning
- College of Sciences, Henan Agricultural University, Zhengzhou, China
| | - Xiaolin Wu
- College of Sciences, Henan Agricultural University, Zhengzhou, China
| | - Wei Wang
- College of Sciences, Henan Agricultural University, Zhengzhou, China
- * E-mail:
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20
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Choi DS, Lim CW, Hwang BK. Proteomics and functional analyses of Arabidopsis nitrilases involved in the defense response to microbial pathogens. PLANTA 2016; 244:449-465. [PMID: 27095107 DOI: 10.1007/s00425-016-2525-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2016] [Accepted: 04/07/2016] [Indexed: 06/05/2023]
Abstract
Proteomics and functional analyses of the Arabidopsis - Pseudomonas syringae pv. tomato interactions reveal that Arabidopsis nitrilases are required for plant defense and R gene-mediated resistant responses to microbial pathogens. A high-throughput in planta proteome screen has identified Arabidopsis nitrilase 2 (AtNIT2), which was de novo-induced by Pseudomonas syringae pv. tomato (Pst) infection. The AtNIT2, AtNIT3, and AtNIT4 genes, but not AtNIT1, were distinctly induced in Arabidopsis leaves by Pst infection. Notably, avirulent Pst DC3000 (avrRpt2) infection led to significant induction of AtNIT2 and AtNIT4 in leaves. Pst DC3000 and Pst DC3000 (avrRpt2) significantly grew well in leaves of nitrilase transgenic (nit2i-2) and mutant (nit1-1 and nit3-1) lines compared to the wild-type leaves. In contrast, NIT2 overexpression in nit2 mutants led to significantly high growth of the two Pst strains in leaves. The nitrilase transgenic and mutant lines exhibited enhanced susceptibility to Hyaloperonospora arabidopsidis infection. The nit2 mutation enhanced Pst DC3000 (avrRpt2) growth in salicylic acid (SA)-deficient NahG transgenic and sid2 and npr1 mutant lines. Infection with Pst DC3000 or Pst DC3000 (avrRpt2) induced lower levels of indole-3-acetic acid (IAA) in nit2i and nit2i NahG plants than in wild-type plants, but did not alter the IAA level in NahG transgenic plants. This suggests that Arabidopsis nitrilase 2 is involved in IAA signaling of defense and R gene-mediated resistance responses to Pst infection. Quantification of SA in these transgenic and mutant plants demonstrates that Arabidopsis nitrilase 2 is not required for SA-mediated defense response to the virulent Pst DC3000 but regulates SA-mediated resistance to the avirulent Pst DC3000 (avrRpt2). These results collectively suggest that Arabidopsis nitrilase genes are involved in plant defense and R gene-mediated resistant responses to microbial pathogens.
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Affiliation(s)
- Du Seok Choi
- Laboratory of Molecular Plant Pathology, College of Life Sciences and Biotechnology, Korea University, Anam-dong, Sungbuk-ku, Seoul, 02841, Republic of Korea
- Department of Plant Pathology and Microbiology, University of California Riverside, Riverside, CA, 92521, USA
| | - Chae Woo Lim
- Laboratory of Molecular Plant Pathology, College of Life Sciences and Biotechnology, Korea University, Anam-dong, Sungbuk-ku, Seoul, 02841, Republic of Korea
- Department of Life Science, Chung-Ang University, Seoul, 06974, Republic of Korea
| | - Byung Kook Hwang
- Laboratory of Molecular Plant Pathology, College of Life Sciences and Biotechnology, Korea University, Anam-dong, Sungbuk-ku, Seoul, 02841, Republic of Korea.
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21
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Lou HQ, Gong YL, Fan W, Xu JM, Liu Y, Cao MJ, Wang MH, Yang JL, Zheng SJ. A Formate Dehydrogenase Confers Tolerance to Aluminum and Low pH. PLANT PHYSIOLOGY 2016; 171:294-305. [PMID: 27021188 PMCID: PMC4854670 DOI: 10.1104/pp.16.01105] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2016] [Accepted: 03/26/2016] [Indexed: 05/22/2023]
Abstract
Formate dehydrogenase (FDH) is involved in various higher plant abiotic stress responses. Here, we investigated the role of rice bean (Vigna umbellata) VuFDH in Al and low pH (H(+)) tolerance. Screening of various potential substrates for the VuFDH protein demonstrated that it functions as a formate dehydrogenase. Quantitative reverse transcription-PCR and histochemical analysis showed that the expression of VuFDH is induced in rice bean root tips by Al or H(+) stresses. Fluorescence microscopic observation of VuFDH-GFP in transgenic Arabidopsis plants indicated that VuFDH is localized in the mitochondria. Accumulation of formate is induced by Al and H(+) stress in rice bean root tips, and exogenous application of formate increases internal formate content that results in the inhibition of root elongation and induction of VuFDH expression, suggesting that formate accumulation is involved in both H(+)- and Al-induced root growth inhibition. Over-expression of VuFDH in tobacco (Nicotiana tabacum) results in decreased sensitivity to Al and H(+) stress due to less production of formate in the transgenic tobacco lines under Al and H(+) stresses. Moreover, NtMATE and NtALS3 expression showed no changes versus wild type in these over-expression lines, suggesting that herein known Al-resistant mechanisms are not involved. Thus, the increased Al tolerance of VuFDH over-expression lines is likely attributable to their decreased Al-induced formate production. Taken together, our findings advance understanding of higher plant Al toxicity mechanisms, and suggest a possible new route toward the improvement of plant performance in acidic soils, where Al toxicity and H(+) stress coexist.
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Affiliation(s)
- He Qiang Lou
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Yu Long Gong
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Wei Fan
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Jia Meng Xu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Yu Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Meng Jie Cao
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Ming-Hu Wang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Jian Li Yang
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
| | - Shao Jian Zheng
- State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China (H.Q.L., Y.L.G., J.M.X., Y.L., M.J.C., J.L.Y., S.J.Z.); College of Resources and Environment, Yunnan Agricultural University, Kunming 650201, China (W.F.); and Ningbo Municipal Head Station for Crop Farming Administration, Ningbo 315012, China (M.-H.W.)
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Isolation and Characterization of Pepper Genes Interacting with the CMV-P1 Helicase Domain. PLoS One 2016; 11:e0146320. [PMID: 26751216 PMCID: PMC4709182 DOI: 10.1371/journal.pone.0146320] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2015] [Accepted: 12/14/2015] [Indexed: 01/04/2023] Open
Abstract
Cucumber mosaic virus (CMV) is a destructive pathogen affecting Capsicum annuum (pepper) production. The pepper Cmr1 gene confers resistance to most CMV strains, but is overcome by CMV-P1 in a process dependent on the CMV-P1 RNA1 helicase domain (P1 helicase). Here, to identify host factors involved in CMV-P1 infection in pepper, a yeast two-hybrid library derived from a C. annuum ‘Bukang’ cDNA library was screened, producing a total of 76 potential clones interacting with the P1 helicase. Beta-galactosidase filter lift assay, PCR screening, and sequencing analysis narrowed the candidates to 10 genes putatively involved in virus infection. The candidate host genes were silenced in Nicotiana benthamiana plants that were then inoculated with CMV-P1 tagged with the green fluorescent protein (GFP). Plants silenced for seven of the genes showed development comparable to N. benthamiana wild type, whereas plants silenced for the other three genes showed developmental defects including stunting and severe distortion. Silencing formate dehydrogenase and calreticulin-3 precursor led to reduced virus accumulation. Formate dehydrogenase-silenced plants showed local infection in inoculated leaves, but not in upper (systemic) leaves. In the calreticulin-3 precursor-silenced plants, infection was not observed in either the inoculated or the upper leaves. Our results demonstrate that formate dehydrogenase and calreticulin-3 precursor are required for CMV-P1 infection.
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Wang ZA, Li Q, Ge XY, Yang CL, Luo XL, Zhang AH, Xiao JL, Tian YC, Xia GX, Chen XY, Li FG, Wu JH. The mitochondrial malate dehydrogenase 1 gene GhmMDH1 is involved in plant and root growth under phosphorus deficiency conditions in cotton. Sci Rep 2015; 5:10343. [PMID: 26179843 PMCID: PMC4503954 DOI: 10.1038/srep10343] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2014] [Accepted: 04/10/2015] [Indexed: 12/18/2022] Open
Abstract
Cotton, an important commercial crop, is cultivated for its natural fibers, and requires an adequate supply of soil nutrients, including phosphorus, for its growth. Soil phosporus exists primarily in insoluble forms. We isolated a mitochondrial malate dehydrogenase (MDH) gene, designated as GhmMDH1, from Gossypium hirsutum L. to assess its effect in enhancing P availability and absorption. An enzyme kinetic assay showed that the recombinant GhmMDH1 possesses the capacity to catalyze the interconversion of oxaloacetate and malate. The malate contents in the roots, leaves and root exudates was significantly higher in GhmMDH1-overexpressing plants and lower in knockdown plants compared with the wild-type control. Knockdown of GhmMDH1 gene resulted in increased respiration rate and reduced biomass whilst overexpression of GhmMDH1 gave rise to decreased respiration rate and higher biomass in the transgenic plants. When cultured in medium containing only insoluble phosphorus, Al-phosphorus, Fe-phosphorus, or Ca-phosphorus, GhmMDH1-overexpressing plants produced significantly longer roots and had a higher biomass and P content than WT plants, however, knockdown plants showed the opposite results for these traits. Collectively, our results show that GhmMDH1 is involved in plant and root growth under phosphorus deficiency conditions in cotton, owing to its functions in leaf respiration and P acquisition.
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Affiliation(s)
- Zhi-An Wang
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
- Institute of Cotton Research, Shanxi Agricultural Academy of Science, Yuncheng, 044000, China
| | - Qing Li
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xiao-Yang Ge
- The State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, 455000, China
| | - Chun-Lin Yang
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xiao-Li Luo
- Institute of Cotton Research, Shanxi Agricultural Academy of Science, Yuncheng, 044000, China
| | - An-Hong Zhang
- Institute of Cotton Research, Shanxi Agricultural Academy of Science, Yuncheng, 044000, China
| | - Juan-Li Xiao
- Institute of Cotton Research, Shanxi Agricultural Academy of Science, Yuncheng, 044000, China
| | - Ying-Chuan Tian
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Gui-Xian Xia
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xiao-Ying Chen
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Fu-Guang Li
- The State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, 455000, China
| | - Jia-He Wu
- The State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
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Di R, Tumer NE. Pokeweed antiviral protein: its cytotoxicity mechanism and applications in plant disease resistance. Toxins (Basel) 2015; 7:755-72. [PMID: 25756953 PMCID: PMC4379523 DOI: 10.3390/toxins7030755] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2014] [Revised: 02/11/2015] [Accepted: 03/02/2015] [Indexed: 11/16/2022] Open
Abstract
Pokeweed antiviral protein (PAP) is a 29 kDa type I ribosome inactivating protein (RIP) found in pokeweed plants. Pokeweed produces different forms of PAP. This review focuses on the spring form of PAP isolated from Phytolacca americana leaves. PAP exerts its cytotoxicity by removing a specific adenine from the α-sarcin/ricin loop of the large ribosomal RNA. Besides depurination of the rRNA, PAP has additional activities that contribute to its cytotoxicity. The mechanism of PAP cytotoxicity is summarized based on evidence from the analysis of transgenic plants and the yeast model system. PAP was initially found to be anti-viral when it was co-inoculated with plant viruses onto plants. Transgenic plants expressing PAP and non-toxic PAP mutants have displayed broad-spectrum resistance to both viral and fungal infection. The mechanism of PAP-induced disease resistance in transgenic plants is summarized.
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Affiliation(s)
- Rong Di
- Department of Plant Biology and Pathology, Rutgers, the State University of New Jersey, 59 Dudley Road, New Brunswick, NJ 08901, USA.
| | - Nilgun E Tumer
- Department of Plant Biology and Pathology, Rutgers, the State University of New Jersey, 59 Dudley Road, New Brunswick, NJ 08901, USA.
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25
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Choi HW, Hwang BK. Molecular and cellular control of cell death and defense signaling in pepper. PLANTA 2015; 241:1-27. [PMID: 25252816 DOI: 10.1007/s00425-014-2171-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2014] [Accepted: 09/11/2014] [Indexed: 06/03/2023]
Abstract
Pepper (Capsicum annuum L.) provides a good experimental system for studying the molecular and functional genomics underlying the ability of plants to defend themselves against microbial pathogens. Cell death is a genetically programmed response that requires specific host cellular factors. Hypersensitive response (HR) is defined as rapid cell death in response to a pathogen attack. Pepper plants respond to pathogen attacks by activating genetically controlled HR- or disease-associated cell death. HR cell death, specifically in incompatible interactions between pepper and Xanthomonas campestris pv. vesicatoria, is mediated by the molecular genetics and biochemical machinery that underlie pathogen-induced cell death in plants. Gene expression profiles during the HR-like cell death response, virus-induced gene silencing and transient and transgenic overexpression approaches are used to isolate and identify HR- or disease-associated cell death genes in pepper plants. Reactive oxygen species, nitric oxide, cytosolic calcium ion and defense-related hormones such as salicylic acid, jasmonic acid, ethylene and abscisic acid are involved in the execution of pathogen-induced cell death in plants. In this review, we summarize recent molecular and cellular studies of the pepper cell death-mediated defense response, highlighting the signaling events of cell death in disease-resistant pepper plants. Comprehensive knowledge and understanding of the cellular functions of pepper cell death response genes will aid the development of novel practical approaches to enhance disease resistance in pepper, thereby helping to secure the future supply of safe and nutritious pepper plants worldwide.
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Affiliation(s)
- Hyong Woo Choi
- Laboratory of Molecular Plant Pathology, College of Life Sciences and Biotechnology, Korea University, Anam-dong, Sungbuk-ku, Seoul, 136-713, Republic of Korea
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