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Mangal V, Lal MK, Tiwari RK, Altaf MA, Sood S, Gahlaut V, Bhatt A, Thakur AK, Kumar R, Bhardwaj V, Kumar V, Singh B, Singh R, Kumar D. A comprehensive and conceptual overview of omics-based approaches for enhancing the resilience of vegetable crops against abiotic stresses. PLANTA 2023; 257:80. [PMID: 36913037 DOI: 10.1007/s00425-023-04111-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/27/2022] [Accepted: 02/28/2023] [Indexed: 06/18/2023]
Abstract
Abiotic stresses adversely affect the productivity and production of vegetable crops. The increasing number of crop genomes that have been sequenced or re-sequenced provides a set of computationally anticipated abiotic stress-related responsive genes on which further research may be focused. Knowledge of omics approaches and other advanced molecular tools have all been employed to understand the complex biology of these abiotic stresses. A vegetable can be defined as any component of a plant that is eaten for food. These plant parts may be celery stems, spinach leaves, radish roots, potato tubers, garlic bulbs, immature cauliflower flowers, cucumber fruits, and pea seeds. Abiotic stresses, such as deficient or excessive water, high temperature, cold, salinity, oxidative, heavy metals, and osmotic stress, are responsible for the adverse activity in plants and, ultimately major concern for decreasing yield in many vegetable crops. At the morphological level, altered leaf, shoot and root growth, altered life cycle duration and fewer or smaller organs can be observed. Likewise different physiological and biochemical/molecular processes are also affected in response to these abiotic stresses. In order to adapt and survive in a variety of stressful situations, plants have evolved physiological, biochemical, and molecular response mechanisms. A comprehensive understanding of the vegetable's response to different abiotic stresses and the identification of tolerant genotypes are essential to strengthening each vegetable's breeding program. The advances in genomics and next-generation sequencing have enabled the sequencing of many plant genomes over the last twenty years. A combination of modern genomics (MAS, GWAS, genomic selection, transgenic breeding, and gene editing), transcriptomics, and proteomics along with next-generation sequencing provides an array of new powerful approaches to the study of vegetable crops. This review examines the overall impact of major abiotic stresses on vegetables, adaptive mechanisms and functional genomic, transcriptomic, and proteomic processes used by researchers to minimize these challenges. The current status of genomics technologies for developing adaptable vegetable cultivars that will perform better in future climates is also examined.
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Affiliation(s)
- Vikas Mangal
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India.
| | - Milan Kumar Lal
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India.
| | - Rahul Kumar Tiwari
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India.
| | | | - Salej Sood
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Vijay Gahlaut
- CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
- Department of Biotechnology and University Center for Research and Development, Chandigarh University, Mohali, Punjab, India
| | | | - Ajay Kumar Thakur
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Ravinder Kumar
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Vinay Bhardwaj
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Vinod Kumar
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Brajesh Singh
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Rajender Singh
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Devendra Kumar
- ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
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Wellpott K, Jozefowicz AM, Meise P, Schum A, Seddig S, Mock HP, Winkelmann T, Bündig C. Combined nitrogen and drought stress leads to overlapping and unique proteomic responses in potato. PLANTA 2023; 257:58. [PMID: 36795167 PMCID: PMC9935667 DOI: 10.1007/s00425-023-04085-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/19/2022] [Accepted: 01/31/2023] [Indexed: 06/18/2023]
Abstract
Nitrogen deficient and drought-tolerant or sensitive potatoes differ in proteomic responses under combined (NWD) and individual stresses. The sensitive genotype 'Kiebitz' exhibits a higher abundance of proteases under NWD. Abiotic stresses such as N deficiency and drought affect the yield of Solanum tuberosum L. tremendously. Therefore, it is of importance to improve potato genotypes in terms of stress tolerance. In this study, we identified differentially abundant proteins (DAPs) in four starch potato genotypes under N deficiency (ND), drought stress (WD), or combined stress (NWD) in two rain-out shelter experiments. The gel-free LC-MS analysis generated a set of 1177 identified and quantified proteins. The incidence of common DAPs in tolerant and sensitive genotypes under NWD indicates general responses to this stress combination. Most of these proteins were part of the amino acid metabolism (13.9%). Three isoforms of S-adenosyl methionine synthase (SAMS) were found to be lower abundant in all genotypes. As SAMS were found upon application of single stresses as well, these proteins appear to be part of the general stress response in potato. Interestingly, the sensitive genotype 'Kiebitz' showed a higher abundance of three proteases (subtilase, carboxypeptidase, subtilase family protein) and a lower abundance of a protease inhibitor (stigma expressed protein) under NWD stress compared to control plants. The comparably tolerant genotype 'Tomba', however, displayed lower abundances of proteases. This indicates a better coping strategy for the tolerant genotype and a quicker reaction to WD when previously stressed with ND.
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Affiliation(s)
- Katharina Wellpott
- Department of Woody Plant and Propagation Physiology, Institute of Horticultural Production Systems, Leibniz University Hannover, Herrenhäuser Straße 2, 30419, Hannover, Germany
| | - Anna M Jozefowicz
- Applied Biochemistry, Department of Physiology and Cell Biology, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), OT Gatersleben, Corrensstr. 3, 06466, Seeland, Germany
| | - Philipp Meise
- Institute for Resistance Research and Stress Tolerance, Julius-Kühn-Institute (JKI), Bundesforschungsinstitut Für Kulturpflanzen, Rudolf-Schick-Platz 3a, 18190, Sanitz, Germany
| | - Annegret Schum
- Institute for Resistance Research and Stress Tolerance, Julius-Kühn-Institute (JKI), Bundesforschungsinstitut Für Kulturpflanzen, Rudolf-Schick-Platz 3a, 18190, Sanitz, Germany
| | - Sylvia Seddig
- Institute for Resistance Research and Stress Tolerance, Julius-Kühn-Institute (JKI), Bundesforschungsinstitut Für Kulturpflanzen, Rudolf-Schick-Platz 3a, 18190, Sanitz, Germany
| | - Hans-Peter Mock
- Applied Biochemistry, Department of Physiology and Cell Biology, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), OT Gatersleben, Corrensstr. 3, 06466, Seeland, Germany
- Universidad de Costa Rica, CIGRAS, 11501-2060, San Pedro, Costa Rica
| | - Traud Winkelmann
- Department of Woody Plant and Propagation Physiology, Institute of Horticultural Production Systems, Leibniz University Hannover, Herrenhäuser Straße 2, 30419, Hannover, Germany
| | - Christin Bündig
- Department of Woody Plant and Propagation Physiology, Institute of Horticultural Production Systems, Leibniz University Hannover, Herrenhäuser Straße 2, 30419, Hannover, Germany.
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Multiple Abiotic Stresses Applied Simultaneously Elicit Distinct Responses in Two Contrasting Rice Cultivars. Int J Mol Sci 2022; 23:ijms23031739. [PMID: 35163659 PMCID: PMC8836074 DOI: 10.3390/ijms23031739] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Revised: 02/01/2022] [Accepted: 02/01/2022] [Indexed: 02/01/2023] Open
Abstract
Rice crops are often subject to multiple abiotic stresses simultaneously in both natural and cultivated environments, resulting in yield reductions beyond those expected from single stress. We report physiological changes after a 4 day exposure to combined drought, salt and extreme temperature treatments, following a 2 day salinity pre-treatment in two rice genotypes—Nipponbare (a paddy rice) and IAC1131 (an upland landrace). Stomata closed after two days of combined stresses, causing intercellular CO2 concentrations and assimilation rates to diminish rapidly. Abscisic acid (ABA) levels increased at least five-fold but did not differ significantly between the genotypes. Tandem Mass Tag isotopic labelling quantitative proteomics revealed 6215 reproducibly identified proteins in mature leaves across the two genotypes and three time points (0, 2 and 4 days of stress). Of these, 987 were differentially expressed due to stress (cf. control plants), including 41 proteins that changed significantly in abundance in all stressed plants. Heat shock proteins, late embryogenesis abundant proteins and photosynthesis-related proteins were consistently responsive to stress in both Nipponbare and IAC1131. Remarkably, even after 2 days of stress there were almost six times fewer proteins differentially expressed in IAC1131 than Nipponbare. This contrast in the translational response to multiple stresses is consistent with the known tolerance of IAC1131 to dryland conditions.
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Yue J, Wang Y, Jiao J, Wang H. Comparative transcriptomic and metabolic profiling provides insight into the mechanism by which the autophagy inhibitor 3-MA enhances salt stress sensitivity in wheat seedlings. BMC PLANT BIOLOGY 2021; 21:577. [PMID: 34872497 PMCID: PMC8647401 DOI: 10.1186/s12870-021-03351-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/23/2021] [Accepted: 11/17/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Salt stress hinders plant growth and production around the world. Autophagy induced by salt stress helps plants improve their adaptability to salt stress. However, the underlying mechanism behind this adaptability remains unclear. To obtain deeper insight into this phenomenon, combined metabolomics and transcriptomics analyses were used to explore the coexpression of differentially expressed-metabolite (DEM) and gene (DEG) between control and salt-stressed wheat roots and leaves in the presence or absence of the added autophagy inhibitor 3-methyladenine (3-MA). RESULTS The results indicated that 3-MA addition inhibited autophagy, increased ROS accumulation, damaged photosynthesis apparatus and impaired the tolerance of wheat seedlings to NaCl stress. A total of 14,759 DEGs and 554 DEMs in roots and leaves of wheat seedlings were induced by salt stress. DEGs were predominantly enriched in cellular amino acid catabolic process, response to external biotic stimulus, regulation of the response to salt stress, reactive oxygen species (ROS) biosynthetic process, regulation of response to osmotic stress, ect. The DEMs were mostly associated with amino acid metabolism, carbohydrate metabolism, phenylalanine metabolism, carbapenem biosynthesis, and pantothenate and CoA biosynthesis. Further analysis identified some critical genes (gene involved in the oxidative stress response, gene encoding transcription factor (TF) and gene involved in the synthesis of metabolite such as alanine, asparagine, aspartate, glutamate, glutamine, 4-aminobutyric acid, abscisic acid, jasmonic acid, ect.) that potentially participated in a complex regulatory network in the wheat response to NaCl stress. The expression of the upregulated DEGs and DEMs were higher, and the expression of the down-regulated DEGs and DEMs was lower in 3-MA-treated plants under NaCl treatment. CONCLUSION 3-MA enhanced the salt stress sensitivity of wheat seedlings by inhibiting the activity of the roots and leaves, inhibiting autophagy in the roots and leaves, increasing the content of both H2O2 and O2•-, damaged photosynthesis apparatus and changing the transcriptome and metabolome of salt-stressed wheat seedlings.
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Affiliation(s)
- Jieyu Yue
- Tianjin Key Laboratory of Animal and Plant Resistance, Tianjin Normal University, Tianjin, 300387, China.
| | - Yingjie Wang
- Tianjin Key Laboratory of Animal and Plant Resistance, Tianjin Normal University, Tianjin, 300387, China
| | - Jinlan Jiao
- Tianjin Key Laboratory of Animal and Plant Resistance, Tianjin Normal University, Tianjin, 300387, China
| | - Huazhong Wang
- Tianjin Key Laboratory of Animal and Plant Resistance, Tianjin Normal University, Tianjin, 300387, China.
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Amini S, Maali-Amiri R, Kazemi-Shahandashti SS, López-Gómez M, Sadeghzadeh B, Sobhani-Najafabadi A, Kariman K. Effect of cold stress on polyamine metabolism and antioxidant responses in chickpea. JOURNAL OF PLANT PHYSIOLOGY 2021; 258-259:153387. [PMID: 33636556 DOI: 10.1016/j.jplph.2021.153387] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Revised: 01/15/2021] [Accepted: 02/03/2021] [Indexed: 05/04/2023]
Abstract
Metabolic and genomic characteristics of polyamines (PAs) may be associated with the induction of cold tolerance (CT) responses in plants. Characteristics of PAs encoding genes in chickpea (Cicer arietinum L.) and their function under cold stress (CS) are currently unknown. In this study, the potential role of PAs along with the antioxidative defense systems were assessed in two chickpea genotypes (Sel96th11439, cold-tolerant and ILC533, cold-sensitive) under CS conditions. Six days after exposure to CS, the leaf H2O2 content and electrolyte leakage index increased in the sensitive genotype by 47.7 and 59 %, respectively, while these values decreased or remained unchanged, respectively, in the tolerant genotype. In tolerant genotype, the enhanced activity of superoxide dismutase (SOD) (by 50 %) was accompanied by unchanged activities of ascorbate peroxidase (APX), guaiacol peroxidase (GPX) and catalase (CAT) as well as the accumulation of glutathione (GSH) (by 43 %) on the sixth day of CS. Higher levels of putrescine (Put) (322 %), spermidine (Spd) (45 %), spermine (Spm) (69 %) and the highest ratio of Put/(Spd + Spm) were observed in tolerant genotype compared to the sensitive one on the sixth day of CS. Gamma-aminobutyric acid (GABA) accumulation was 74 % higher in tolerant genotype compared to the sensitive one on the sixth day of CS. During CS, the activity of diamine oxidase (DAO) and polyamine oxidase (PAO) increased in tolerant (by 3.02- and 2.46-fold) and sensitive (by 2.51- and 2.8-fold) genotypes, respectively, in comparison with the respective non-stressed plants (normal conditions). The highest activity of DAO and PAO in the tolerant genotype was accompanied by PAs decomposition and a peak in GABA content on the sixth day of CS. The analysis of chickpea genome revealed the presence of five PAs biosynthetic genes, their chromosomal locations, and cis-regulatory elements. A significant increase in transcript levels of arginine decarboxylase (ADC) (24.26- and 7.96-fold), spermidine synthase 1 (SPDS1) (3.03- and 1.53-fold), SPDS2 (5.5- and 1.62-fold) and spermine synthase (SPMS) (3.92- and 1.65-fold) genes was detected in tolerant and sensitive genotypes, respectively, whereas the expression of ornithine decarboxylase (ODC) genes decreased significantly under CS conditions in both genotypes. Leaf chlorophyll and carotenoid contents exhibited declining trends in the sensitive genotype, while these photosynthetic pigments were stable in the tolerant genotype due to the superior performance of defensive processes under CS conditions. Overall, these results suggested the specific roles of putative PAs genes and PAs metabolism in development of effective CT responses in chickpea.
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Affiliation(s)
- Saeed Amini
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran
| | - Reza Maali-Amiri
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran.
| | - Seyyedeh-Sanam Kazemi-Shahandashti
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran
| | - Miguel López-Gómez
- Departamento de Fisiología Vegetal, Facultad de Ciencias, Universidad de Granada, Campus de Fuentenueva s/n, 18071, Granada, Spain
| | - Behzad Sadeghzadeh
- Dryland Agricultural Research Institute, Ministry of Jihad-e-Agriculture Research and Education Organization, Maraghe, Iran
| | - Ahmad Sobhani-Najafabadi
- Agricultural Biotechnology Research Institute of Iran, Isfahan Branch, Agricultural Research, Education and Extension Organization (AREEO), Iran
| | - Khalil Kariman
- School of Agriculture and Environment, The University of Western Australia, Perth, WA, Australia
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Comparative Transcriptome Analysis of Two Cucumber Cultivars with Different Sensitivity to Cucumber Mosaic Virus Infection. Pathogens 2020; 9:pathogens9020145. [PMID: 32098056 PMCID: PMC7168641 DOI: 10.3390/pathogens9020145] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2020] [Revised: 02/17/2020] [Accepted: 02/19/2020] [Indexed: 12/15/2022] Open
Abstract
Cucumber mosaic virus (CMV), with extremely broad host range including both monocots and dicots around the world, belongs to most important viral crop threats. Either natural or genetically constructed sources of resistance are being intensively investigated; for this purpose, exhaustive knowledge of molecular virus-host interaction during compatible and incompatible infection is required. New technologies and computer-based “omics” on various levels contribute markedly to this topic. In this work, two cucumber cultivars with different response to CMV challenge were tested, i.e., sensitive cv. Vanda and resistant cv. Heliana. The transcriptomes were prepared from both cultivars at 18 days after CMV or mock inoculation. Subsequently, four independent comparative analyses of obtained data were performed, viz. mock- and CMV-inoculated samples within each cultivar, samples from mock-inoculated cultivars to each other and samples from virus-inoculated cultivars to each other. A detailed picture of CMV-influenced genes, as well as constitutive differences in cultivar-specific gene expression was obtained. The compatible CMV infection of cv. Vanda caused downregulation of genes involved in photosynthesis, and induction of genes connected with protein production and modification, as well as components of signaling pathways. CMV challenge caused practically no change in the transcription profile of the cv. Heliana. The main differences between constitutive transcription activity of the two cultivars relied in the expression of genes responsible for methylation, phosphorylation, cell wall organization and carbohydrate metabolism (prevailing in cv. Heliana), or chromosome condensation and glucan biosynthesis (prevailing in cv. Vanda). Involvement of several genes in the resistant cucumber phenotype was predicted; this can be after biological confirmation potentially applied in breeding programs for virus-resistant crops.
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Applications and Trends of Machine Learning in Genomics and Phenomics for Next-Generation Breeding. PLANTS 2019; 9:plants9010034. [PMID: 31881663 PMCID: PMC7020215 DOI: 10.3390/plants9010034] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/05/2019] [Revised: 12/17/2019] [Accepted: 12/23/2019] [Indexed: 12/27/2022]
Abstract
Crops are the major source of food supply and raw materials for the processing industry. A balance between crop production and food consumption is continually threatened by plant diseases and adverse environmental conditions. This leads to serious losses every year and results in food shortages, particularly in developing countries. Presently, cutting-edge technologies for genome sequencing and phenotyping of crops combined with progress in computational sciences are leading a revolution in plant breeding, boosting the identification of the genetic basis of traits at a precision never reached before. In this frame, machine learning (ML) plays a pivotal role in data-mining and analysis, providing relevant information for decision-making towards achieving breeding targets. To this end, we summarize the recent progress in next-generation sequencing and the role of phenotyping technologies in genomics-assisted breeding toward the exploitation of the natural variation and the identification of target genes. We also explore the application of ML in managing big data and predictive models, reporting a case study using microRNAs (miRNAs) to identify genes related to stress conditions.
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Kou S, Chen L, Tu W, Scossa F, Wang Y, Liu J, Fernie AR, Song B, Xie C. The arginine decarboxylase gene ADC1, associated to the putrescine pathway, plays an important role in potato cold-acclimated freezing tolerance as revealed by transcriptome and metabolome analyses. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2018; 96:1283-1298. [PMID: 30307077 DOI: 10.1111/tpj.14126] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2018] [Revised: 09/29/2018] [Accepted: 10/04/2018] [Indexed: 05/25/2023]
Abstract
Low temperature severely influences potato production as the cultivated potato (Solanum tuberosum) is frost sensitive, however the mechanism underlying the freezing tolerance of the potato is largely unknown. In the present research, we studied the transcriptome and metabolome of the freezing-tolerant wild species Solanum acaule (Aca) and freezing-sensitive cultivated S. tuberosum (Tub) to identify the main pathways and important factors related to freezing tolerance. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway annotation indicated that polyamine and amino acid metabolic pathways were specifically upregulated in Aca under cold treatment. The transcriptome changes detected in Aca were accompanied by the specific accumulation of putrescine, saccharides, amino acids and other metabolites. The combination of transcriptome and metabolome analyses revealed that putrescine exhibited an accumulative pattern in accordance with the expression of the arginine decarboxylase gene ADC1. The primary role of putrescine was further confirmed by analyzing all three polyamines (putrescine, spermidine, and spermine) and the genes encoding the corresponding enzymes in two sets of potato genotypes with distinct freezing tolerance, implying that only putrescine and ADC1 were uniquely enhanced by cold in the freezing-tolerant genotypes. The function of putrescine was further analyzed by its exogenous application and the overexpression of SaADC1 in S. tuberosum cv. E3, indicating its important role(s) in cold-acclimated freezing tolerance, which was accompanied with the activation of C-repeat binding factor genes (CBFs). The present research has identified that the ADC1-associated putrescine pathway plays an important role in cold-acclimated freezing tolerance of potato, probably by enhancing the expression of CBF genes.
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Affiliation(s)
- Shuang Kou
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan, 430070, China
| | - Lin Chen
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- College of Horticulture, South China Agricultural University, Guangzhou, 510642, China
| | - Wei Tu
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan, 430070, China
| | - Federico Scossa
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
- Council for Agricultural Research and Economics, Research Center, CREA-OFA, Via di Fioranello 52, 00134, Rome, Italy
| | - Yamei Wang
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan, 430070, China
| | - Jun Liu
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Alisdair R Fernie
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Botao Song
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- Key Laboratory of Horticultural Plant Biology (HZAU), Ministry of Education, Huazhong Agricultural University, Wuhan, 430070, China
| | - Conghua Xie
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
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Naraikina NV, Astakhova NV, Deryabin AN, Sinkevich MS, Trunova TI. Adaptive Alterations in the Ultrastructure of Chloroplasts and the Contents of Pigments and Sugars under Low Temperature Hardening of Potato Plants: Role of Δ12 Acyl-Lipid Desaturase. BIOL BULL+ 2018. [DOI: 10.1134/s1062359018060092] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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D'Amelia V, Aversano R, Ruggiero A, Batelli G, Appelhagen I, Dinacci C, Hill L, Martin C, Carputo D. Subfunctionalization of duplicate MYB genes in Solanum commersonii generated the cold-induced ScAN2 and the anthocyanin regulator ScAN1. PLANT, CELL & ENVIRONMENT 2018; 41:1038-1051. [PMID: 28386931 DOI: 10.1111/pce.12966] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2016] [Revised: 03/26/2017] [Accepted: 03/27/2017] [Indexed: 06/07/2023]
Abstract
Wild potato species are useful sources of allelic diversity and loci lacking in the cultivated potato. In these species, the presence of anthocyanins in leaves has been associated with a greater tolerance to cold stress. However, the molecular mechanisms that allow potatoes to withstand cold exposure remain unclear. Here, we show that the expression of AN2, a MYB transcription factor, is induced by low temperatures in wild, cold-tolerant Solanum commersonii, and not in susceptible Solanum tuberosum varieties. We found that AN2 is a paralog of the potato anthocyanin regulator AN1, showing similar interaction ability with basic helix-loop-helix (bHLH) co-partners. Their sequence diversity resulted in a different capacity to promote accumulation of phenolics when tested in tobacco. Indeed, functional studies demonstrated that AN2 is less able to induce anthocyanins than AN1, but nevertheless it has a strong ability to induce accumulation of hydroxycinnamic acid derivatives. We propose that the duplication of R2R3 MYB genes resulted in subsequent subfunctionalization, where AN1 specialized in anthocyanin production and AN2 conserved the ability to respond to cold stress, inducing mainly the synthesis of hydroxycinnamic acid derivatives. These results contribute to understanding the evolutionary significance of gene duplication on phenolic compound regulation.
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Affiliation(s)
- Vincenzo D'Amelia
- Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy
| | - Riccardo Aversano
- Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy
| | - Alessandra Ruggiero
- National Research Council of Italy, Institute of Biosciences and Bioresources, Research Division Portici (CNR-IBBR), Portici, 80055, Italy
| | - Giorgia Batelli
- National Research Council of Italy, Institute of Biosciences and Bioresources, Research Division Portici (CNR-IBBR), Portici, 80055, Italy
| | - Ingo Appelhagen
- John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Claudio Dinacci
- Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy
| | - Lionel Hill
- John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Cathie Martin
- John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Domenico Carputo
- Department of Agricultural Sciences, University of Naples Federico II, Portici, 80055, Italy
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Ghatak A, Chaturvedi P, Paul P, Agrawal GK, Rakwal R, Kim ST, Weckwerth W, Gupta R. Proteomics survey of Solanaceae family: Current status and challenges ahead. J Proteomics 2017; 169:41-57. [PMID: 28528990 DOI: 10.1016/j.jprot.2017.05.016] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Revised: 03/19/2017] [Accepted: 05/16/2017] [Indexed: 10/25/2022]
Abstract
Solanaceae is one of the major economically important families of higher plants and has played a central role in human nutrition since the dawn of human civilization. Therefore, researchers have always been interested in understanding the complex behavior of Solanaceae members to identify key transcripts, proteins or metabolites, which are potentially associated with major traits. Proteomics studies have contributed significantly to understanding the physiology of Solanaceae members. A compilation of all the published reports showed that both gel-based (75%) and gel-free (25%) proteomic technologies have been utilized to establish the proteomes of different tissues, organs, and organelles under normal and adverse environmental conditions. Among the Solanaceae members, most of the research has been focused on tomato (42%) followed by potato (28%) and tobacco (20%), owing to their economic importance. This review comprehensively covers the progress made so far in the field of Solanaceae proteomics including novel methods developed to isolate the proteins from different tissues. Moreover, key proteins presented in this review can serve as a resource to select potential targets for crop improvement. We envisage that information presented in this review would enable us to design the stress tolerant plants with enhanced yields.
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Affiliation(s)
- Arindam Ghatak
- Department of Ecogenomics and Systems Biology, Faculty of Sciences, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Palak Chaturvedi
- Department of Ecogenomics and Systems Biology, Faculty of Sciences, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Puneet Paul
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, 68583-0915, USA
| | - Ganesh Kumar Agrawal
- Research Laboratory for Biotechnology and Biochemistry (RLABB), GPO Box 13265, Kathmandu, Nepal; GRADE Academy Private Limited, Adarsh Nagar-13, Birgunj, Nepal
| | - Randeep Rakwal
- Research Laboratory for Biotechnology and Biochemistry (RLABB), GPO Box 13265, Kathmandu, Nepal; GRADE Academy Private Limited, Adarsh Nagar-13, Birgunj, Nepal; Faculty of Health and Sport Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan; Global Research Center for Innovative Life Science, Peptide Drug Innovation, School of Pharmacy and Pharmaceutical Sciences, Hoshi University, 4-41 Ebara 2-chome, Shinagawa, Tokyo 142-8501, Japan
| | - Sun Tae Kim
- Department of Plant Bioscience, Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-707, Republic of Korea
| | - Wolfram Weckwerth
- Department of Ecogenomics and Systems Biology, Faculty of Sciences, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria; Vienna Metabolomics Center (VIME), University of Vienna, Althanstrasse 14, 1090 Vienna, Austria
| | - Ravi Gupta
- Department of Plant Bioscience, Life and Industry Convergence Research Institute, Pusan National University, Miryang 627-707, Republic of Korea.
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Iquebal MA, Soren KR, Gangwar P, Shanmugavadivel PS, Aravind K, Singla D, Jaiswal S, Jasrotia RS, Chaturvedi SK, Singh NP, Varshney RK, Rai A, Kumar D. Discovery of Putative Herbicide Resistance Genes and Its Regulatory Network in Chickpea Using Transcriptome Sequencing. FRONTIERS IN PLANT SCIENCE 2017; 8:958. [PMID: 28638398 PMCID: PMC5461349 DOI: 10.3389/fpls.2017.00958] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/23/2016] [Accepted: 05/22/2017] [Indexed: 05/06/2023]
Abstract
Background: Chickpea (Cicer arietinum L.) contributes 75% of total pulse production. Being cheaper than animal protein, makes it important in dietary requirement of developing countries. Weed not only competes with chickpea resulting into drastic yield reduction but also creates problem of harboring fungi, bacterial diseases and insect pests. Chemical approach having new herbicide discovery has constraint of limited lead molecule options, statutory regulations and environmental clearance. Through genetic approach, transgenic herbicide tolerant crop has given successful result but led to serious concern over ecological safety thus non-transgenic approach like marker assisted selection is desirable. Since large variability in tolerance limit of herbicide already exists in chickpea varieties, thus the genes offering herbicide tolerance can be introgressed in variety improvement programme. Transcriptome studies can discover such associated key genes with herbicide tolerance in chickpea. Results: This is first transcriptomic studies of chickpea or even any legume crop using two herbicide susceptible and tolerant genotypes exposed to imidazoline (Imazethapyr). Approximately 90 million paired-end reads generated from four samples were processed and assembled into 30,803 contigs using reference based assembly. We report 6,310 differentially expressed genes (DEGs), of which 3,037 were regulated by 980 miRNAs, 1,528 transcription factors associated with 897 DEGs, 47 Hub proteins, 3,540 putative Simple Sequence Repeat-Functional Domain Marker (SSR-FDM), 13,778 genic Single Nucleotide Polymorphism (SNP) putative markers and 1,174 Indels. Randomly selected 20 DEGs were validated using qPCR. Pathway analysis suggested that xenobiotic degradation related gene, glutathione S-transferase (GST) were only up-regulated in presence of herbicide. Down-regulation of DNA replication genes and up-regulation of abscisic acid pathway genes were observed. Study further reveals the role of cytochrome P450, xyloglucan endotransglucosylase/hydrolase, glutamate dehydrogenase, methyl crotonoyl carboxylase and of thaumatin-like genes in herbicide resistance. Conclusion: Reported DEGs can be used as genomic resource for future discovery of candidate genes associated with herbicide tolerance. Reported markers can be used for future association studies in order to develop marker assisted selection (MAS) for refinement. In endeavor of chickpea variety development programme, these findings can be of immense use in improving productivity of chickpea germplasm.
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Affiliation(s)
- Mir A. Iquebal
- Centre for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute (ICAR)New Delhi, India
| | - Khela R. Soren
- Division of Plant Biotechnology, Indian Institute of Pulses Research (ICAR)Kanpur, India
| | - Priyanka Gangwar
- Division of Plant Biotechnology, Indian Institute of Pulses Research (ICAR)Kanpur, India
| | - P. S. Shanmugavadivel
- Division of Plant Biotechnology, Indian Institute of Pulses Research (ICAR)Kanpur, India
| | - K. Aravind
- Division of Plant Biotechnology, Indian Institute of Pulses Research (ICAR)Kanpur, India
| | - Deepak Singla
- Centre for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute (ICAR)New Delhi, India
| | - Sarika Jaiswal
- Centre for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute (ICAR)New Delhi, India
| | - Rahul S. Jasrotia
- Centre for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute (ICAR)New Delhi, India
| | - Sushil K. Chaturvedi
- Division of Plant Biotechnology, Indian Institute of Pulses Research (ICAR)Kanpur, India
| | - Narendra P. Singh
- Division of Plant Biotechnology, Indian Institute of Pulses Research (ICAR)Kanpur, India
| | - Rajeev K. Varshney
- Genetic Gains, International Crops Research Institute for the Semi-Arid TropicsPatancheru, India
| | - Anil Rai
- Centre for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute (ICAR)New Delhi, India
| | - Dinesh Kumar
- Centre for Agricultural Bioinformatics, Indian Agricultural Statistics Research Institute (ICAR)New Delhi, India
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13
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John R, Anjum NA, Sopory SK, Akram NA, Ashraf M. Some key physiological and molecular processes of cold acclimation. BIOLOGIA PLANTARUM 2016; 60:603-618. [PMID: 0 DOI: 10.1007/s10535-016-0648-9] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
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14
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Karam MA, Abd-Elgawad ME, Ali RM. Differential gene expression of salt-stressed Peganum harmala L. J Genet Eng Biotechnol 2016; 14:319-326. [PMID: 30647630 PMCID: PMC6299858 DOI: 10.1016/j.jgeb.2016.10.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2016] [Revised: 09/26/2016] [Accepted: 10/17/2016] [Indexed: 11/26/2022]
Abstract
The response of Peganum harmala L. seedlings subjected to salinity was investigated through the observation of germination at the 4th, 6th and 8th days under normal and two salinity levels (150 and 200 mM NaCl). Genetic response of P. harmala was examined by quantitative estimation and electrophoretic separation of catalase and salt-soluble proteins. The gene expression of catalase and osmotin were investigated using RT-PCR. Final percentage of germination at the eighth day of germination was reduced from 85% in the control to 70 and 30% under the concentration of 150 and 200 mM. The catalase activity and protein content increased as the salinity increased compared to control seedlings. The electrophoretic separation of catalase and salt-soluble proteins exhibited stress-related isozymes and protein bands. RT-PCR of cat1, cat2-3 and cat3 and osmotin genes exhibited up-regulation and down-regulation of genes subsequent to salinity. The reduced germination percentage of salt stressed seedlings was attributed to oxidative damage and osmotic imbalance. The increased catalase activity and protein content were concluded as protective response of P. harmala seedlings to salinity induced oxidative stress and osmoregulation. The additional isozyme bands in the salt-stressed seedlings indicated modulation of CAT gene expression in response to elevated H2O2 subsequent to salinity. The stress specific gene expression was interpreted as molecular mechanism by which plants can tolerate salinity stress. The up-regulation of cat2-3 gene in relation to stress suggests it crucial role in salinity tolerance in P. harmala and further studies are needed for its sequence identification.
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Affiliation(s)
- Mohamed A. Karam
- Botany Department, Faculty of Science, Fayoum University, 63514 Fayoum, Egypt
| | - Magda E. Abd-Elgawad
- Biology Department, Faculty of Science, Princess Nourah bint Abdulrahman University, Riyadh, Saudi Arabia
| | - Refaat M. Ali
- Botany Department, Faculty of Science, Fayoum University, 63514 Fayoum, Egypt
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15
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de Mello CS, Van Dijk JP, Voorhuijzen M, Kok EJ, Arisi ACM. Tuber proteome comparison of five potato varieties by principal component analysis. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2016; 96:3928-3936. [PMID: 26799786 DOI: 10.1002/jsfa.7635] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2015] [Revised: 01/08/2016] [Accepted: 01/11/2016] [Indexed: 06/05/2023]
Abstract
BACKGROUND Data analysis of omics data should be performed by multivariate analysis such as principal component analysis (PCA). The way data are clustered in PCA is of major importance to develop some classification systems based on multivariate analysis, such as soft independent modeling of class analogy (SIMCA). In a previous study a one-class classifier based on SIMCA was built using microarray data from a set of potatoes. The PCA grouped the transcriptomic data according to varieties. The present work aimed to use PCA to verify the clustering of the proteomic profiles for the same potato varieties. RESULTS Proteomic profiles of five potato varieties (Biogold, Fontane, Innovator, Lady Rosetta and Maris Piper) were evaluated by two-dimensional gel electrophoresis (2-DE) performed on two immobilized pH gradient (IPG) strip lengths, 13 and 24 cm, both under pH range 4-7. For each strip length, two gels were prepared from each variety; in total there were ten gels per analysis. For 13 cm strips, 199-320 spots were detected per gel, and for 24 cm strips, 365-684 spots. CONCLUSION All four PCAs performed with these datasets presented clear grouping of samples according to the varieties. The data presented here showed that PCA was applicable for proteomic analysis of potato and was able to separate the samples by varieties. © 2016 Society of Chemical Industry.
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Affiliation(s)
- Carla Souza de Mello
- Food Science and Technology Department, Federal University of Santa Catarina, Rod. Admar Gonzaga 1346, 88034-001, Florianópolis, SC, Brazil
| | - Jeroen P Van Dijk
- RIKILT, Wageningen University and Research Centre, PO Box 230, NL-6700, AE, Wageningen, The Netherlands
| | - Marleen Voorhuijzen
- RIKILT, Wageningen University and Research Centre, PO Box 230, NL-6700, AE, Wageningen, The Netherlands
| | - Esther J Kok
- RIKILT, Wageningen University and Research Centre, PO Box 230, NL-6700, AE, Wageningen, The Netherlands
| | - Ana Carolina Maisonnave Arisi
- Food Science and Technology Department, Federal University of Santa Catarina, Rod. Admar Gonzaga 1346, 88034-001, Florianópolis, SC, Brazil
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16
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Deryabin AN, Burakhanova EA, Trunova TI. Apoplastic sugars and cell-wall invertase are involved in formation of the tolerance of cold-resistant potato plants to hypothermia. DOKL BIOCHEM BIOPHYS 2016; 465:366-9. [PMID: 26728726 DOI: 10.1134/s160767291506006x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2015] [Indexed: 11/23/2022]
Abstract
We studied the involvement of apoplastic sugars (glucose, fructose, and sucrose) and the cell-wall invertase (CWI) in the formation of the tolerance of cold-resistant potato plants (Solanum tuberosum L., cv Désirée) to hypothermia. The activity of CW1 and the content in the cell and the apoplast substrate (sucrose) and the reaction products of this enzyme (glucose and fructose) have a significant influence on the formation of the tolerance of cold-resistant potato plants to hypothermia.
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Affiliation(s)
- A N Deryabin
- Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, ul. Botanicheskaya 35, Moscow, 127276, Russia.
| | - E A Burakhanova
- Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, ul. Botanicheskaya 35, Moscow, 127276, Russia
| | - T I Trunova
- Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, ul. Botanicheskaya 35, Moscow, 127276, Russia
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17
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An F, Li G, Li QX, Li K, Carvalho LJCB, Ou W, Chen S. The Comparatively Proteomic Analysis in Response to Cold Stress in Cassava Plantlets. PLANT MOLECULAR BIOLOGY REPORTER 2016; 34:1095-1110. [PMID: 27881899 PMCID: PMC5099363 DOI: 10.1007/s11105-016-0987-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Cassava (Manihot esculenta Crantz) is a tropical root crop and sensitive to low temperature. However, it is poorly to know how cassava can modify its metabolism and growth to adapt to cold stress. An investigation aimed at a better understanding of cold-tolerant mechanism of cassava plantlets was carried out with the approaches of physiology and proteomics in the present study. The principal component analysis of seven physiological characteristics showed that electrolyte leakage (EL), chlorophyll content, and malondialdehyde (MDA) may be the most important physiological indexes for determining cold-resistant abilities of cassava. The genome-wide proteomic analysis showed that 20 differential proteins had the same patterns in the apical expanded leaves of cassava SC8 and Col1046. They were mainly related to photosynthesis, carbon metabolism and energy metabolism, defense, protein synthesis, amino acid metabolism, signal transduction, structure, detoxifying and antioxidant, chaperones, and DNA-binding proteins, in which 40 % were related with photosynthesis. The remarkable variation in photosynthetic activity and expression level of peroxiredoxin is closely linked with expression levels of proteomic profiles. Moreover, analysis of differentially expressed proteins under cold stress is an important step toward further elucidation of mechanisms of cold stress resistance.
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Affiliation(s)
- Feifei An
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | - Genghu Li
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | - Qing X. Li
- Department of Molecular Biosciences and Bioengineering, University of Hawaii at Manoa, Manoa, HI USA
| | - Kaimian Li
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | | | - Wenjun Ou
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
| | - Songbi Chen
- Tropical Crops Genetic Resources Institute, Chinese Academy of Tropical Agricultural Sciences/Key Laboratory of Ministry of Agriculture for Germplasm Resources Conservation and Utilization of Cassava, Danzhou, 571737 China
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18
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Folgado R, Panis B, Sergeant K, Renaut J, Swennen R, Hausman JF. Unravelling the effect of sucrose and cold pretreatment on cryopreservation of potato through sugar analysis and proteomics. Cryobiology 2015; 71:432-41. [PMID: 26408853 DOI: 10.1016/j.cryobiol.2015.09.006] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2015] [Revised: 09/03/2015] [Accepted: 09/06/2015] [Indexed: 10/23/2022]
Abstract
Apical shoot tips were dissected from donor plants (cultured in several conditions) and cryopreserved using the droplet-vitrification technique. The effect of two preculture treatments (sucrose pretreatment medium or cold-culturing during two weeks) on donor plants of four potato species (Solanum commersonii, S. juzepcukii, S. ajanhuiri, and Solanum tuberosum) was studied. Post-cryopreservation meristem growth and plant recovery were influenced by the treatments, but the effect on the regeneration was strongly genotype-dependent. The highest post-rewarming plant recovery percentage was obtained using meristems dissected from donor plants of S. commersonii cultured on sucrose pretreatment medium or cold-cultured. Both preculture conditions also enhanced plant recovery in S. juzepcukii compared to control cultures. Cold preculture, however, proved to be undesirable for S. tuberosum whereas sucrose pretreatment had a positive impact on the plant regeneration of this species. The determination of changes in the concentration of soluble sugars revealed sugar accumulation, especially of sucrose and the raffinose family of oligosaccharides (RFOs), which can be linked to tolerance towards the cryopreservation. Additionally, a study of the proteome of the donor plantlets after the pretreatments by 2D-fluorescence difference gel electrophoresis (DIGE) was carried out to identify differentially abundant proteins. Carbon metabolism-related proteins, together with stress-response and oxidative-homeostasis related proteins were the main class of proteins that changed in abundance after the pretreatments. Our results suggest that oxidative homeostasis-related proteins and sugars may be associated with the improved tolerance to cryopreservation and the ability to cold acclimate by S. commersonii in contrast to the other genotypes. The increased accumulation of sucrose and RFOs play a fundamental role in the response to stress in potato and may help to acquire tolerance to cryopreservation.
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Affiliation(s)
- Raquel Folgado
- Environment Research and Innovation Department (ERIN), Luxembourg Institute of Science and Technology, 5, Avenue des Hauts-Fourneaux, L-4362 Esch/Alzette, GD, Luxembourg; Laboratory of Tropical Crop Improvement, Division of Crop Biotechnics, KU Leuven, Willem de Croylaan 42 bus 2455, B - 3001 Leuven, Belgium; The Huntington Library, Art Collections and Botanical Gardens, 1151 Oxford Road, San Marino, CA 91108, USA.
| | - Bart Panis
- Bioversity International, Willem de Croylaan 42 bus 2455, B - 3001, Leuven, Belgium
| | - Kjell Sergeant
- Environment Research and Innovation Department (ERIN), Luxembourg Institute of Science and Technology, 5, Avenue des Hauts-Fourneaux, L-4362 Esch/Alzette, GD, Luxembourg
| | - Jenny Renaut
- Environment Research and Innovation Department (ERIN), Luxembourg Institute of Science and Technology, 5, Avenue des Hauts-Fourneaux, L-4362 Esch/Alzette, GD, Luxembourg
| | - Rony Swennen
- Laboratory of Tropical Crop Improvement, Division of Crop Biotechnics, KU Leuven, Willem de Croylaan 42 bus 2455, B - 3001 Leuven, Belgium; Bioversity International, Willem de Croylaan 42 bus 2455, B - 3001, Leuven, Belgium; International Institute of Tropical Agriculture, POB 10, Duluti, Arusha, Tanzania
| | - Jean-Francois Hausman
- Environment Research and Innovation Department (ERIN), Luxembourg Institute of Science and Technology, 5, Avenue des Hauts-Fourneaux, L-4362 Esch/Alzette, GD, Luxembourg
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19
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Szalonek M, Sierpien B, Rymaszewski W, Gieczewska K, Garstka M, Lichocka M, Sass L, Paul K, Vass I, Vankova R, Dobrev P, Szczesny P, Marczewski W, Krusiewicz D, Strzelczyk-Zyta D, Hennig J, Konopka-Postupolska D. Potato Annexin STANN1 Promotes Drought Tolerance and Mitigates Light Stress in Transgenic Solanum tuberosum L. Plants. PLoS One 2015; 10:e0132683. [PMID: 26172952 PMCID: PMC4501783 DOI: 10.1371/journal.pone.0132683] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2014] [Accepted: 06/18/2015] [Indexed: 11/18/2022] Open
Abstract
Annexins are a family of calcium- and membrane-binding proteins that are important for plant tolerance to adverse environmental conditions. Annexins function to counteract oxidative stress, maintain cell redox homeostasis, and enhance drought tolerance. In the present study, an endogenous annexin, STANN1, was overexpressed to determine whether crop yields could be improved in potato (Solanum tuberosum L.) during drought. Nine potential potato annexins were identified and their expression characterized in response to drought treatment. STANN1 mRNA was constitutively expressed at a high level and drought treatment strongly increased transcription levels. Therefore, STANN1 was selected for overexpression analysis. Under drought conditions, transgenic potato plants ectopically expressing STANN1 were more tolerant to water deficit in the root zone, preserved more water in green tissues, maintained chloroplast functions, and had higher accumulation of chlorophyll b and xanthophylls (especially zeaxanthin) than wild type (WT). Drought-induced reductions in the maximum efficiency and the electron transport rate of photosystem II (PSII), as well as the quantum yield of photosynthesis, were less pronounced in transgenic plants overexpressing STANN1 than in the WT. This conferred more efficient non-photochemical energy dissipation in the outer antennae of PSII and probably more efficient protection of reaction centers against photooxidative damage in transgenic plants under drought conditions. Consequently, these plants were able to maintain effective photosynthesis during drought, which resulted in greater productivity than WT plants despite water scarcity. Although the mechanisms underlying this stress protection are not yet clear, annexin-mediated photoprotection is probably linked to protection against light-induced oxidative stress.
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Affiliation(s)
- Michal Szalonek
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
| | - Barbara Sierpien
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
| | - Wojciech Rymaszewski
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
| | | | - Maciej Garstka
- Department of Metabolic Regulation, University of Warsaw, Warsaw, Poland
| | - Malgorzata Lichocka
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
| | - Laszlo Sass
- Laboratory of Molecular Stress and Photobiology, Biological Research Centre of the Hungarian Academy of Sciences, Szeged, Hungary
| | - Kenny Paul
- Laboratory of Molecular Stress and Photobiology, Biological Research Centre of the Hungarian Academy of Sciences, Szeged, Hungary
| | - Imre Vass
- Laboratory of Molecular Stress and Photobiology, Biological Research Centre of the Hungarian Academy of Sciences, Szeged, Hungary
| | - Radomira Vankova
- Laboratory of Hormonal Regulations in Plants, Institute of Experimental Botany AS CR, Praha, Czech Republic
| | - Peter Dobrev
- Laboratory of Hormonal Regulations in Plants, Institute of Experimental Botany AS CR, Praha, Czech Republic
| | - Pawel Szczesny
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
| | - Waldemar Marczewski
- Department of Potato Genetics and Parental Lines, Plant Breeding and Acclimatization Institute—National Research Institute, Mlochow, Poland
| | - Dominika Krusiewicz
- Department of Potato Genetics and Parental Lines, Plant Breeding and Acclimatization Institute—National Research Institute, Mlochow, Poland
| | - Danuta Strzelczyk-Zyta
- Department of Potato Genetics and Parental Lines, Plant Breeding and Acclimatization Institute—National Research Institute, Mlochow, Poland
| | - Jacek Hennig
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
| | - Dorota Konopka-Postupolska
- Plant Pathogenesis Lab, Institute of Biochemistry and Biophysics Polish Academy of Science, Warsaw, Poland
- * E-mail:
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20
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Kazemi-Shahandashti SS, Maali-Amiri R, Zeinali H, Khazaei M, Talei A, Ramezanpour SS. Effect of short-term cold stress on oxidative damage and transcript accumulation of defense-related genes in chickpea seedlings. JOURNAL OF PLANT PHYSIOLOGY 2014; 171:1106-1116. [PMID: 24972025 DOI: 10.1016/j.jplph.2014.03.020] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2013] [Revised: 03/20/2014] [Accepted: 03/23/2014] [Indexed: 05/28/2023]
Abstract
Cold stress affects many plant physiological and biochemical components and induces cascades of alterations in metabolic pathways, amongst them the membrane fatty acid compositions, the activity of antioxidative enzymes and the regulation of gene expression. The present work aimed to characterize the changes of some of these factors in both cold acclimated (CA) and non-acclimated (NA) plants of chickpea (Cicer arietinum L.) to identify the role of the acclimation process in adjusting plant responses to severe cold stress. The results showed an increase in the unsaturated fatty acids (UFAs) ratio compared to saturated fatty acids, which was more obvious in CA plants. Defense enzymes had an important role in CA plants to create greater cold tolerance compared to NA ones in the cases of superoxide dismutase (SOD), catalase (CAT), guaiacol peroxidase (GPX) and lipoxygenase (LOX) activities. During cold stress, a high transcription level of CaCAT and CaSOD genes was detected in CA plants, but a low transcription of CaLOX gene was observed in CA plants compared to NA plants, which might have prevented the decline of UFAs (confirmed by double bond index (DBI) data). Moreover, the transcription level of the Carubisco gene, as an energy producing agent, was higher in CA plants than in NA plants and the transcription of the Catubulin gene, as a crucial substance of cell cytoskeleton, showed a decreasing trend in both CA and NA plants, but this decline was greater in NA plants. These responses showed the possible targets of cold stress as chloroplast and signal transduction to balance stress programs. The above results indicate the crucial role of FA compositions in creating cold tolerance in susceptible chickpea plants with possible responsive components and the possible interactions in protein and transcript levels even in facing extreme cold stress.
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Affiliation(s)
- Seyyedeh-Sanam Kazemi-Shahandashti
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran
| | - Reza Maali-Amiri
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran.
| | - Hassan Zeinali
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran
| | - Mona Khazaei
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran
| | - Alireza Talei
- Department of Agronomy and Plant Breeding, University College of Agriculture and Natural Resources, University of Tehran, 31587-77871, Karaj, Iran
| | - Seyyedeh-Sanaz Ramezanpour
- Department of Plant Breeding and Biotechnology, Gorgan University of Agricultural Sciences and Natural Resources, Gorgan, Iran
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21
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Folgado R, Sergeant K, Renaut J, Swennen R, Hausman JF, Panis B. Changes in sugar content and proteome of potato in response to cold and dehydration stress and their implications for cryopreservation. J Proteomics 2013; 98:99-111. [PMID: 24333155 DOI: 10.1016/j.jprot.2013.11.027] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2013] [Revised: 11/15/2013] [Accepted: 11/29/2013] [Indexed: 11/29/2022]
Abstract
UNLABELLED The key to successful cryopreservation lies in the induction of tolerance towards dehydration/desiccation and freezing. The accumulation of osmo-active compounds, which can be induced by drought and cold stress, is therefore important. In the present study, three-week old shoots from in vitro plantlets of the cultivated potato Solanum tuberosum and its frost-resistant relative Solanum commersonii were submitted to osmotic stress (by using sucrose) and chilling (6°C). After 14days of exposure, shoot tips were sampled in order to gain an insight into changes of the proteome and soluble sugars. Also, the effect of these treatments on growth performance behaviour and on the success of cryopreservation was evaluated. Identified proteins that changed in abundance due to stress were associated with stress response. Additionally, carbohydrate analyses in both species, after exposure to chilling, also indicated species-related differences; this observation could point towards a better-adapted physiological state of the donor plants of S. commersonii prior to the cryoprocedure and therefore a better recovery of the meristems. BIOLOGICAL SIGNIFICANCE To our knowledge, this is the first study in which cryopreservation experiments are combined with the observation of the responses to abiotic stress exposure involving the potato species S. commersonii and S. tuberosum. These two species are known to have a different cold-acclimation behaviour, which seems to be closely related to their tolerance towards cryopreservation. Furthermore, common and differential responses to abiotic stresses were observed in the two species indicating that some pathways could be crucial not only in the plant's response to stress but also in tolerance towards cryopreservation.
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Affiliation(s)
- Raquel Folgado
- Environment and Agro-biotechnologies department (EVA), Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, L-4422 Belvaux, Luxembourg; Laboratory of Tropical Crop Improvement, Division of Crop Biotechnics, KU Leuven, Willem de Croylaan 42 bus 2455, B-3001 Leuven, Belgium
| | - Kjell Sergeant
- Environment and Agro-biotechnologies department (EVA), Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, L-4422 Belvaux, Luxembourg
| | - Jenny Renaut
- Environment and Agro-biotechnologies department (EVA), Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, L-4422 Belvaux, Luxembourg
| | - Rony Swennen
- Laboratory of Tropical Crop Improvement, Division of Crop Biotechnics, KU Leuven, Willem de Croylaan 42 bus 2455, B-3001 Leuven, Belgium; Bioversity International, Willem de Croylaan 42 bus 2455, B-3001 Leuven, Belgium; International Institute of Tropical Agriculture, POB 10, Duluti, Arusha, Tanzania
| | - Jean-Francois Hausman
- Environment and Agro-biotechnologies department (EVA), Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, L-4422 Belvaux, Luxembourg
| | - Bart Panis
- Bioversity International, Willem de Croylaan 42 bus 2455, B-3001 Leuven, Belgium
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Singh R, Jwa NS. Understanding the Responses of Rice to Environmental Stress Using Proteomics. J Proteome Res 2013; 12:4652-69. [DOI: 10.1021/pr400689j] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Raksha Singh
- Department of Molecular Biology,
College of Life Sciences, Sejong University, Gunja-dong, Gwangjin-gu, Seoul 143-747, Republic of Korea
| | - Nam-Soo Jwa
- Department of Molecular Biology,
College of Life Sciences, Sejong University, Gunja-dong, Gwangjin-gu, Seoul 143-747, Republic of Korea
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