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Haber Z, Sharma D, Selvaraj KSV, Sade N. Is CRISPR/Cas9-based multi-trait enhancement of wheat forthcoming? PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2024; 341:112021. [PMID: 38311249 DOI: 10.1016/j.plantsci.2024.112021] [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: 11/14/2023] [Revised: 01/25/2024] [Accepted: 01/31/2024] [Indexed: 02/09/2024]
Abstract
Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) technologies have been implemented in recent years in the genome editing of eukaryotes, including plants. The original system of knocking out a single gene by causing a double-strand break (DSB), followed by non-homologous end joining (NHEJ) or Homology-directed repair (HDR) has undergone many adaptations. These adaptations include employing CRISPR/Cas9 to upregulate gene expression or to cause specific small changes to the DNA sequence of the gene-of-interest. In plants, multiplexing, i.e., inducing multiple changes by CRISPR/Cas9, is extremely relevant due to the redundancy of many plant genes, and the time- and labor-consuming generation of stable transgenic plant lines via crossing. Here we discuss relevant examples of various traits, such as yield, biofortification, gluten content, abiotic stress tolerance, and biotic stress resistance, which have been successfully manipulated using CRISPR/Cas9 in plants. While existing studies have primarily focused on proving the impact of CRISPR/Cas9 on a single trait, there is a growing interest among researchers in creating a multi-stress tolerant wheat cultivar 'super wheat', to commercially and sustainably enhance wheat yields under climate change. Due to the complexity of the technical difficulties in generating multi-target CRISPR/Cas9 lines and of the interactions between stress responses, we propose enhancing already commercial local landraces with higher yield traits along with stress tolerances specific to the respective localities, instead of generating a general 'super wheat'. We hope this will serve as the sustainable solution to commercially enhancing crop yields under both stable and challenging environmental conditions.
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Affiliation(s)
- Zechariah Haber
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 69978, Israel
| | - Davinder Sharma
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 69978, Israel
| | - K S Vijai Selvaraj
- Vegetable Research Station, Tamil Nadu Agricultural University, Palur 607102, Tamil Nadu, India
| | - Nir Sade
- School of Plant Sciences and Food Security, Tel Aviv University, Tel Aviv 69978, Israel.
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2
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Da Ros L, Bollina V, Soolanayakanahally R, Pahari S, Elferjani R, Kulkarni M, Vaid N, Risseuw E, Cram D, Pasha A, Esteban E, Konkin D, Provart N, Nambara E, Kagale S. Multi-omics atlas of combinatorial abiotic stress responses in wheat. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:1118-1135. [PMID: 37248640 DOI: 10.1111/tpj.16332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2022] [Revised: 05/10/2023] [Accepted: 05/26/2023] [Indexed: 05/31/2023]
Abstract
Field-grown crops rarely experience growth conditions in which yield can be maximized. Environmental stresses occur in combination, with advancements in crop tolerance further complicated by its polygenic nature. Strategic targeting of causal genes is required to meet future crop production needs. Here, we employed a systems biology approach in wheat (Triticum aestivum L.) to investigate physio-metabolic adjustments and transcriptome reprogramming involved in acclimations to heat, drought, salinity and all combinations therein. A significant shift in magnitude and complexity of plant response was evident across stress scenarios based on the agronomic losses, increased proline concentrations and 8.7-fold increase in unique differentially expressed transcripts (DETs) observed under the triple stress condition. Transcriptome data from all stress treatments were assembled into an online, open access eFP browser for visualizing gene expression during abiotic stress. Weighted gene co-expression network analysis revealed 152 hub genes of which 32% contained the ethylene-responsive element binding factor-associated amphiphilic repression (EAR) transcriptional repression motif. Cross-referencing against the 31 DETs common to all stress treatments isolated TaWRKY33 as a leading candidate for greater plant tolerance to combinatorial stresses. Integration of our findings with available literature on gene functional characterization allowed us to further suggest flexible gene combinations for future adaptive gene stacking in wheat. Our approach demonstrates the strength of robust multi-omics-based data resources for gene discovery in complex environmental conditions. Accessibility of such datasets will promote cross-validation of candidate genes across studies and aid in accelerating causal gene validation for crop resiliency.
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Affiliation(s)
- Letitia Da Ros
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
- Summerland Research and Development Centre, Agriculture and Agri-Food Canada, Summerland, British Columbia, Canada
| | - Venkatesh Bollina
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
| | - Raju Soolanayakanahally
- Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan, Canada
| | - Shankar Pahari
- Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan, Canada
| | - Raed Elferjani
- Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan, Canada
| | - Manoj Kulkarni
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
| | - Neha Vaid
- Department of Biological Sciences, University of Calgary, Calgary, Alberta, Canada
| | - Eddy Risseuw
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
| | - Dustin Cram
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
| | - Asher Pasha
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
| | - Eddi Esteban
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
| | - David Konkin
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
| | - Nicholas Provart
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
| | - Eiji Nambara
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
| | - Sateesh Kagale
- Aquatic and Crop Resource Development, National Research Council Canada, Saskatoon, Saskatchewan, Canada
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Kumar RR, Dubey K, Goswami S, Rai GK, Rai PK, Salgotra RK, Bakshi S, Mishra D, Mishra GP, Chinnusamy V. Transcriptional Regulation of Small Heat Shock Protein 17 (sHSP-17) by Triticum aestivum HSFA2h Transcription Factor Confers Tolerance in Arabidopsis under Heat Stress. PLANTS (BASEL, SWITZERLAND) 2023; 12:3598. [PMID: 37896061 PMCID: PMC10609734 DOI: 10.3390/plants12203598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2023] [Revised: 08/29/2023] [Accepted: 08/29/2023] [Indexed: 10/29/2023]
Abstract
Heat shock transcription factors (HSFs) contribute significantly to thermotolerance acclimation. Here, we identified and cloned a putative HSF gene (HSFA2h) of 1218 nucleotide (acc. no. KP257297.1) from wheat cv. HD2985 using a de novo transcriptomic approach and predicted sHSP as its potential target. The expression of HSFA2h and its target gene (HSP17) was observed at the maximum level in leaf tissue under heat stress (HS), as compared to the control. The HSFA2h-pRI101 binary construct was mobilized in Arabidopsis, and further screening of T3 transgenic lines showed improved tolerance at an HS of 38 °C compared with wild type (WT). The expression of HSFA2h was observed to be 2.9- to 3.7-fold higher in different Arabidopsis transgenic lines under HS. HSFA2h and its target gene transcripts (HSP18.2 in the case of Arabidopsis) were observed to be abundant in transgenic Arabidopsis plants under HS. We observed a positive correlation between the expression of HSFA2h and HSP18.2 under HS. Evaluation of transgenic lines using different physio-biochemical traits linked with thermotolerance showed better performance of HS-treated transgenic Arabidopsis plants compared with WT. There is a need to further characterize the gene regulatory network (GRN) of HSFA2h and sHSP in order to modulate the HS tolerance of wheat and other agriculturally important crops.
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Affiliation(s)
- Ranjeet R Kumar
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Kavita Dubey
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Suneha Goswami
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Gyanendra K Rai
- School of Biotechnology, Sher-e-Kashmir University of Agricultural University of Jammu (J&K), Jammu 180009, India
| | - Pradeep K Rai
- School of Biotechnology, Sher-e-Kashmir University of Agricultural University of Jammu (J&K), Jammu 180009, India
| | - Romesh K Salgotra
- School of Biotechnology, Sher-e-Kashmir University of Agricultural University of Jammu (J&K), Jammu 180009, India
| | - Suman Bakshi
- Nuclear Agriculture & Biotechnology Division, Bhabha Atomic Research Center, Trombay, Mumbai 400085, India
| | - Dwijesh Mishra
- Centre for Agricultural Bio-Informatics, Indian Agricultural Statistics Research Institute, New Delhi 110012, India
| | - Gyan P Mishra
- Division of Seed Technology, Indian Agricultural Research Institute, New Delhi 110012, India
| | - Viswanathan Chinnusamy
- Division of Plant Physiology, Indian Agricultural Research Institute, New Delhi 110012, India
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4
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Shamshad A, Rashid M, Zaman QU. In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.). BMC PLANT BIOLOGY 2023; 23:395. [PMID: 37592226 PMCID: PMC10433574 DOI: 10.1186/s12870-023-04399-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Accepted: 08/03/2023] [Indexed: 08/19/2023]
Abstract
BACKGROUND One of the most important cash crops worldwide is rice (Oryza sativa L.). Under varying climatic conditions, however, its yield is negatively affected. In order to create rice varieties that are resilient to abiotic stress, it is essential to explore the factors that control rice growth, development, and are source of resistance. HSFs (heat shock transcription factors) control a variety of plant biological processes and responses to environmental stress. The in-silico analysis offers a platform for thorough genome-wide identification of OsHSF genes in the rice genome. RESULTS In this study, 25 randomly dispersed HSF genes with significant DNA binding domains (DBD) were found in the rice genome. According to a gene structural analysis, all members of the OsHSF family share Gly-66, Phe-67, Lys-69, Trp-75, Glu-76, Phe-77, Ala-78, Phe-82, Ile-93, and Arg-96. Rice HSF family genes are widely distributed in the vegetative organs, first in the roots and then in the leaf and stem; in contrast, in reproductive tissues, the embryo and lemma exhibit the highest levels of gene expression. According to chromosomal localization, tandem duplication and repetition may have aided in the development of novel genes in the rice genome. OsHSFs have a significant role in the regulation of gene expression, regulation in primary metabolism and tolerance to environmental stress, according to gene networking analyses. CONCLUSION Six genes viz; Os01g39020, Os01g53220, Os03g25080, Os01g54550, Os02g13800 and Os10g28340 were annotated as promising genes. This study provides novel insights for functional studies on the OsHSFs in rice breeding programs. With the ultimate goal of enhancing crops, the data collected in this survey will be valuable for performing genomic research to pinpoint the specific function of the HSF gene during stress responses.
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Affiliation(s)
- Areeqa Shamshad
- Nuclear Institute for Agriculture and Biology College, Pakistan Institute of Engineering and Applied Sciences (NIAB-C, PIEAS), Faisalabad, Pakistan
| | - Muhammad Rashid
- Nuclear Institute for Agriculture and Biology College, Pakistan Institute of Engineering and Applied Sciences (NIAB-C, PIEAS), Faisalabad, Pakistan
| | - Qamar Uz Zaman
- Department of Environmental Sciences, The University of Lahore, Lahore, 54590, Pakistan.
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5
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Barratt LJ, He Z, Fellgett A, Wang L, Mason SM, Bancroft I, Harper AL. Co-expression network analysis of diverse wheat landraces reveals markers of early thermotolerance and a candidate master regulator of thermotolerance genes. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 115:614-626. [PMID: 37077043 PMCID: PMC10953029 DOI: 10.1111/tpj.16248] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Accepted: 04/12/2023] [Indexed: 05/03/2023]
Abstract
Triticum aestivum L. (bread wheat) is a crop relied upon by billions of people around the world, as a major source of both income and calories. Rising global temperatures, however, pose a genuine threat to the livelihood of these people, as wheat growth and yields are extremely vulnerable to damage by heat stress. Here we present the YoGI wheat landrace panel, comprising 342 accessions that show remarkable phenotypic and genetic diversity thanks to their adaptation to different climates. We quantified the abundance of 110 790 transcripts from the panel and used these data to conduct weighted co-expression network analysis and to identify hub genes in modules associated with abiotic stress tolerance. We found that the expression of three hub genes, all heat-shock proteins (HSPs), were significantly correlated with early thermotolerance in a validation panel of landraces. These hub genes belong to the same module, with one (TraesCS4D01G207500.1) being a candidate master-regulator potentially controlling the expression of the other two hub genes, as well as a suite of other HSPs and heat-stress transcription factors (HSFs). In this work, therefore, we identify three validated hub genes, the expression of which can serve as markers of thermotolerance during early development, and suggest that TraesCS4D01G207500.1 is a potential master regulator of HSP and HSF expression - presenting the YoGI landrace panel as an invaluable tool for breeders wishing to determine and introduce novel alleles into modern varieties, for the production of climate-resilient crops.
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Affiliation(s)
- Liam J. Barratt
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
| | - Zhesi He
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
| | - Alison Fellgett
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
| | - Lihong Wang
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
| | - Simon McQueen Mason
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
| | - Ian Bancroft
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
| | - Andrea L. Harper
- Department of Biology, Centre for Novel Agricultural Products (CNAP)University of YorkWentworth WayYO10 5DDUK
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6
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Xie H, Zhang P, Jiang C, Wang Q, Guo Y, Zhang X, Huang T, Liu J, Li L, Li H, Wang H, Qin P. Combined transcriptomic and metabolomic analyses of high temperature stress response of quinoa seedlings. BMC PLANT BIOLOGY 2023; 23:292. [PMID: 37264351 DOI: 10.1186/s12870-023-04310-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Accepted: 05/23/2023] [Indexed: 06/03/2023]
Abstract
BACKGROUND Quinoa (Chenopodium quinoa Willd.) originates in high altitude areas, such as the Andes, and has some inherent characteristics of cold, drought, and salinity tolerance, but is sensitive to high temperature. RESULTS To gain insight into the response mechanism of quinoa to high temperature stress, we conducted an extensive targeted metabolomic study of two cultivars, Dianli-3101 and Dianli-3051, along with a combined transcriptome analysis. A total of 794 metabolites and 54,200 genes were detected, in which the genes related to photosynthesis were found down-regulated at high temperatures, and two metabolites, lipids and flavonoids, showed the largest changes in differential accumulation. Further analysis of the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and transcription factors revealed that quinoa inhibits photosynthesis at high temperatures, and the possible strategies being used for high temperature stress management are regulation of heat stress transcription factors (HSFs) to obtain heat tolerance, and regulation of purine metabolism to enhance stress signals for rapid response to high temperature stress. The tolerant genotype could have an enhanced response through lower purine levels. The induction of the stress response could be mediated by HSF transcription factors. The results of this study may provide theoretical references for understanding the response mechanism of quinoa to high temperature stress, and for screening potential high temperature tolerant target genes and high temperature tolerant strains. CONCLUSIONS These findings reveal the regulation of the transcription factor family HSF and the purinergic pathway in response to high temperature stress to improve quinoa varieties with high temperature tolerance.
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Affiliation(s)
- Heng Xie
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Ping Zhang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Chunhe Jiang
- Academic Affairs Office, Yunnan Agricultural University, Kunming, 650201, China
| | - Qianchao Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Yirui Guo
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Xuesong Zhang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Tingzhi Huang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Junna Liu
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Li Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Hanxue Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Hongxin Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Peng Qin
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, 650201, China.
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7
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Wang L, Liu Y, Chai G, Zhang D, Fang Y, Deng K, Aslam M, Niu X, Zhang W, Qin Y, Wang X. Identification of passion fruit HSF gene family and the functional analysis of PeHSF-C1a in response to heat and osmotic stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 200:107800. [PMID: 37253279 DOI: 10.1016/j.plaphy.2023.107800] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Revised: 05/22/2023] [Accepted: 05/25/2023] [Indexed: 06/01/2023]
Abstract
Heat stress transcription factors (HSFs) are the major regulators of plant response to environmental stress, especially heat and drought stress. To gain a deeper understanding of the mechanisms underlying HSFs in the abiotic stress response of passion fruit, we conducted an in silico analysis of the HSF gene family. Through bioinformatics and phylogenetic analyses, we identified 18 PeHSF members and classified them into A, B, and C groups. Collinearity analysis results revealed that the expansion of the PeHSF gene family was due to the presence of segmental duplication. Furthermore, gene structure and protein domain analysis illustrated that PeHSFs in the same subgroup are relatively conserved. Conserved motif and function domain analysis suggested that PeHSF proteins possess typical conserved functional domains of the HSF family. A protein interaction network and 3D structure prediction were used to study the potential regulatory relationship of PeHSFs. Additionally, the subcellular localization results of PeHSF-A6a, PeHSF-B4b, and PeHSF-C1a were consistent with the predictions. RNA-seq and RT-qPCR analysis revealed the expression patterns of PeHSFs in different tissues of passion fruit floral organs. Promoter analysis and the expression patterns of the PeHSFs under different treatments demonstrated their involvement in various abiotic stress processes. Notably, overexpression of PeHSF-C1a consistently enhanced tolerance to drought and heat stress in Arabidopsis. Overall, our findings provide a scientific basis for further functional studies of PeHSFs that could contribute to improvement of passion fruit breeding.
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Affiliation(s)
- Lulu Wang
- Horticulture Research Institute, Guangxi Academy of Agricultural Sciences, Nanning Investigation Station of South Subtropical Fruit Trees, Ministry of Agriculture, Nanning, 530007, China; State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Lab of Sugarcane Biology, College of Agriculture, Guangxi University, Nanning, Guangxi, 530004, China
| | - Yanhui Liu
- College of Life Sciences, Longyan University, Longyan, 364000, China
| | - Gaifeng Chai
- College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Dan Zhang
- College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Yunying Fang
- College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Kao Deng
- College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Mohammad Aslam
- College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Xiaoping Niu
- College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Wenbin Zhang
- Fine Variety Breeding Farm in Xinluo District, Longyan, 364000, China
| | - Yuan Qin
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Lab of Sugarcane Biology, College of Agriculture, Guangxi University, Nanning, Guangxi, 530004, China; College of Agriculture, College of Life Sciences, Pingtan Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China.
| | - Xiaomei Wang
- Horticulture Research Institute, Guangxi Academy of Agricultural Sciences, Nanning Investigation Station of South Subtropical Fruit Trees, Ministry of Agriculture, Nanning, 530007, China.
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8
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Marques I, Rodrigues AP, Gouveia D, Lidon FC, Martins S, Semedo MC, Gaillard JC, Pais IP, Semedo JN, Scotti-Campos P, Reboredo FH, Partelli FL, DaMatta FM, Armengaud J, Ribeiro-Barros AI, Ramalho JC. High-resolution shotgun proteomics reveals that increased air [CO 2] amplifies the acclimation response of coffea species to drought regarding antioxidative, energy, sugar, and lipid dynamics. JOURNAL OF PLANT PHYSIOLOGY 2022; 276:153788. [PMID: 35944291 DOI: 10.1016/j.jplph.2022.153788] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 07/25/2022] [Accepted: 07/26/2022] [Indexed: 06/15/2023]
Abstract
As drought threatens crop productivity it is crucial to characterize the defense mechanisms against water deficit and unveil their interaction with the expected rise in the air [CO2]. For that, plants of Coffea canephora cv. Conilon Clone 153 (CL153) and C. arabica cv. Icatu grown under 380 (aCO2) or 700 μL L-1 (eCO2) were exposed to moderate (MWD) and severe (SWD) water deficits. Responses were characterized through the activity and/or abundance of a selected set of proteins associated with antioxidative (e.g., Violaxanthin de-epoxidase, Superoxide dismutase, Ascorbate peroxidases, Monodehydroascorbate reductase), energy/sugar (e.g., Ferredoxin-NADP reductase, NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, sucrose synthase, mannose-6-phosphate isomerase, Enolase), and lipid (Lineolate 13S-lipoxygenase) processes, as well as with other antioxidative (ascorbate) and protective (HSP70) molecules. MWD caused small changes in both genotypes regardless of [CO2] level while under the single imposition to SWD, only Icatu showed a global reinforcement of most studied proteins supporting its tolerance to drought. eCO2 alone did not promote remarkable changes but strengthened a robust multi-response under SWD, even supporting the reversion of impacts already observed by CL153 at aCO2. In the context of climate changes where water constraints and [CO2] levels are expected to increase, these results highlight why eCO2 might have an important role in improving drought tolerance in Coffea species.
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Affiliation(s)
- Isabel Marques
- PlantStress & Biodiversity Lab., Centro de Estudos Florestais (CEF), Dept. Recursos Naturais, Ambiente e Território (DRAT), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Av. da República, 2784-505 Oeiras, and Tapada da Ajuda, 1349-017, Lisboa, Portugal.
| | - Ana P Rodrigues
- PlantStress & Biodiversity Lab., Centro de Estudos Florestais (CEF), Dept. Recursos Naturais, Ambiente e Território (DRAT), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Av. da República, 2784-505 Oeiras, and Tapada da Ajuda, 1349-017, Lisboa, Portugal.
| | - Duarte Gouveia
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, F-F-30200, Bagnols-sur-Cèze, France.
| | - Fernando C Lidon
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal.
| | - Sónia Martins
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal; Departamento de Engenharia Química, Instituto Superior de Engenharia de Lisboa, Instituto Politécnico de Lisboa, R. Conselheiro Emídio Navarro 1, 1959-007, Lisboa, Portugal.
| | - Magda C Semedo
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal; Departamento de Engenharia Química, Instituto Superior de Engenharia de Lisboa, Instituto Politécnico de Lisboa, R. Conselheiro Emídio Navarro 1, 1959-007, Lisboa, Portugal.
| | - Jean-Charles Gaillard
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, F-F-30200, Bagnols-sur-Cèze, France.
| | - Isabel P Pais
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal; Unid. Investigação em Biotecnologia e Recursos Genéticos, Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Quinta do Marquês, Av. República, 2784-505, Oeiras, Portugal.
| | - José N Semedo
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal; Unid. Investigação em Biotecnologia e Recursos Genéticos, Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Quinta do Marquês, Av. República, 2784-505, Oeiras, Portugal.
| | - Paula Scotti-Campos
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal; Unid. Investigação em Biotecnologia e Recursos Genéticos, Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Quinta do Marquês, Av. República, 2784-505, Oeiras, Portugal.
| | - Fernando H Reboredo
- Unidade de Geobiociências, Geoengenharias e Geotecnologias (GeoBioTec), Faculdade de Ciências e Tecnologia (FCT), Universidade NOVA de Lisboa (UNL), Monte de Caparica, 2829-516, Caparica, Portugal.
| | - Fábio L Partelli
- Centro Univ. Norte do Espírito Santo (CEUNES), Dept. Ciências Agrárias e Biológicas (DCAB), Univ. Federal Espírito Santo (UFES), Rod. BR 101 Norte, Km. 60, Bairro Litorâneo, CEP: 29932-540, São Mateus, ES, Brazil.
| | - Fábio M DaMatta
- Dept. Biologia Vegetal, Univ. Federal Viçosa (UFV), 36570-000, Viçosa, MG, Brazil.
| | - Jean Armengaud
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, F-F-30200, Bagnols-sur-Cèze, France.
| | - Ana I Ribeiro-Barros
- PlantStress & Biodiversity Lab., Centro de Estudos Florestais (CEF), Dept. Recursos Naturais, Ambiente e Território (DRAT), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Av. da República, 2784-505 Oeiras, and Tapada da Ajuda, 1349-017, Lisboa, Portugal; Departamento de Engenharia Química, Instituto Superior de Engenharia de Lisboa, Instituto Politécnico de Lisboa, R. Conselheiro Emídio Navarro 1, 1959-007, Lisboa, Portugal.
| | - José C Ramalho
- PlantStress & Biodiversity Lab., Centro de Estudos Florestais (CEF), Dept. Recursos Naturais, Ambiente e Território (DRAT), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Quinta do Marquês, Av. da República, 2784-505 Oeiras, and Tapada da Ajuda, 1349-017, Lisboa, Portugal; Departamento de Engenharia Química, Instituto Superior de Engenharia de Lisboa, Instituto Politécnico de Lisboa, R. Conselheiro Emídio Navarro 1, 1959-007, Lisboa, Portugal.
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Meng X, Zhao B, Li M, Liu R, Ren Q, Li G, Guo X. Characteristics and Regulating Roles of Wheat TaHsfA2-13 in Abiotic Stresses. FRONTIERS IN PLANT SCIENCE 2022; 13:922561. [PMID: 35832224 PMCID: PMC9271894 DOI: 10.3389/fpls.2022.922561] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Accepted: 06/10/2022] [Indexed: 06/15/2023]
Abstract
Heat shock transcription factor (Hsf) exists widely in eukaryotes and responds to various abiotic stresses by regulating the expression of downstream transcription factors, functional enzymes, and molecular chaperones. In this study, TaHsfA2-13, a heat shock transcription factor belonging to A2 subclass, was cloned from wheat (Triticum aestivum) and its function was analyzed. TaHsfA2-13 encodes a protein containing 368 amino acids and has the basic characteristics of Hsfs. Multiple sequence alignment analysis showed that TaHsfA2-13 protein had the highest similarity with TdHsfA2c-like protein from Triticum dicoccoides, which reached 100%. The analysis of tissue expression characteristics revealed that TaHsfA2-13 was highly expressed in root, shoot, and leaf during the seedling stage of wheat. The expression of TaHsfA2-13 could be upregulated by heat stress, low temperature, H2O2, mannitol, salinity and multiple phytohormones. The TaHsfA2-13 protein was located in the nucleus under the normal growth conditions and showed a transcriptional activation activity in yeast. Further studies found that overexpression of TaHsfA2-13 in Arabidopsis thaliana Col-0 or athsfa2 mutant results in improved tolerance to heat stress, H2O2, SA and mannitol by regulating the expression of multiple heat shock protein (Hsp) genes. In summary, our study identified TaHsfA2-13 from wheat, revealed its regulatory function in varieties of abiotic stresses, and will provide a new target gene to improve stress tolerance for wheat breeding.
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Affiliation(s)
- Xiangzhao Meng
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
| | - Baihui Zhao
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
- College of Life Sciences, Hebei Normal University, Shijiazhuang, China
| | - Mingyue Li
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
- College of Life Sciences, Hebei Normal University, Shijiazhuang, China
| | - Ran Liu
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
- College of Life Sciences, Hebei Normal University, Shijiazhuang, China
| | - Qianqian Ren
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
- College of Landscape and Ecological Engineering, Hebei University of Engineering, Handan, China
| | - Guoliang Li
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
| | - Xiulin Guo
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, China
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Paul S, Duhan JS, Jaiswal S, Angadi UB, Sharma R, Raghav N, Gupta OP, Sheoran S, Sharma P, Singh R, Rai A, Singh GP, Kumar D, Iquebal MA, Tiwari R. RNA-Seq Analysis of Developing Grains of Wheat to Intrigue Into the Complex Molecular Mechanism of the Heat Stress Response. FRONTIERS IN PLANT SCIENCE 2022; 13:904392. [PMID: 35720556 PMCID: PMC9201344 DOI: 10.3389/fpls.2022.904392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Accepted: 05/13/2022] [Indexed: 06/15/2023]
Abstract
Heat stress is one of the significant constraints affecting wheat production worldwide. To ensure food security for ever-increasing world population, improving wheat for heat stress tolerance is needed in the presently drifting climatic conditions. At the molecular level, heat stress tolerance in wheat is governed by a complex interplay of various heat stress-associated genes. We used a comparative transcriptome sequencing approach to study the effect of heat stress (5°C above ambient threshold temperature of 20°C) during grain filling stages in wheat genotype K7903 (Halna). At 7 DPA (days post-anthesis), heat stress treatment was given at four stages: 0, 24, 48, and 120 h. In total, 115,656 wheat genes were identified, including 309 differentially expressed genes (DEGs) involved in many critical processes, such as signal transduction, starch synthetic pathway, antioxidant pathway, and heat stress-responsive conserved and uncharacterized putative genes that play an essential role in maintaining the grain filling rate at the high temperature. A total of 98,412 Simple Sequences Repeats (SSR) were identified from de novo transcriptome assembly of wheat and validated. The miRNA target prediction from differential expressed genes was performed by psRNATarget server against 119 mature miRNA. Further, 107,107 variants including 80,936 Single nucleotide polymorphism (SNPs) and 26,171 insertion/deletion (Indels) were also identified in de novo transcriptome assembly of wheat and wheat genome Ensembl version 31. The present study enriches our understanding of known heat response mechanisms during the grain filling stage supported by discovery of novel transcripts, microsatellite markers, putative miRNA targets, and genetic variant. This enhances gene functions and regulators, paving the way for improved heat tolerance in wheat varieties, making them more suitable for production in the current climate change scenario.
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Affiliation(s)
- Surinder Paul
- Department of Biotechnology, Chaudhary Devi Lal University, Sirsa, India
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
- ICAR, National Bureau of Agriculturally Important Microorganisms, Kushmaur, Maunath Bhanjan, India
| | | | - Sarika Jaiswal
- Indian Council of Agricultural Research, Indian Agricultural Statistics Research Institute, New Delhi, India
| | - Ulavappa B. Angadi
- Indian Council of Agricultural Research, Indian Agricultural Statistics Research Institute, New Delhi, India
| | - Ruchika Sharma
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Nishu Raghav
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Om Prakash Gupta
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Sonia Sheoran
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Pradeep Sharma
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Rajender Singh
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Anil Rai
- Indian Council of Agricultural Research, Indian Agricultural Statistics Research Institute, New Delhi, India
| | - Gyanendra Pratap Singh
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
| | - Dinesh Kumar
- Indian Council of Agricultural Research, Indian Agricultural Statistics Research Institute, New Delhi, India
- Department of Biotechnology, Central University of Haryana, Gurgaon, India
| | - Mir Asif Iquebal
- Indian Council of Agricultural Research, Indian Agricultural Statistics Research Institute, New Delhi, India
| | - Ratan Tiwari
- Indian Council of Agricultural Research, Indian Institute of Wheat and Barley Research, Karnal, India
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11
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Bi H, Miao J, He J, Chen Q, Qian J, Li H, Xu Y, Ma D, Zhao Y, Tian X, Liu W. Characterization of the Wheat Heat Shock Factor TaHsfA2e-5D Conferring Heat and Drought Tolerance in Arabidopsis. Int J Mol Sci 2022; 23:ijms23052784. [PMID: 35269925 PMCID: PMC8911409 DOI: 10.3390/ijms23052784] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Revised: 02/27/2022] [Accepted: 03/01/2022] [Indexed: 01/26/2023] Open
Abstract
Environmental stresses, especially heat and drought, severely limit plant growth and negatively affect wheat yield and quality worldwide. Heat shock factors (Hsfs) play a central role in regulating plant responses to various stresses. In this study, the wheat heat shock factor gene TaHsfA2e-5D on chromosome 5D was isolated and functionally characterized, with the goal of investigating its role in responses to heat and drought stresses. Gene expression profiling showed that TaHsfA2e-5D was expressed constitutively in various wheat tissues, most highly in roots at the reproductive stage. The expression of TaHsfA2e-5D was highly up-regulated in wheat seedlings by heat, cold, drought, high salinity, and multiple phytohormones. The TaHsfA2e-5D protein was localized in the nucleus and showed a transcriptional activation activity. Ectopic expression of the TaHsfA2e-5D in yeast exhibited improved thermotolerance. Overexpression of the TaHsfA2e-5D in Arabidopsis results in enhanced tolerance to heat and drought stresses. Furthermore, RT-qPCR analyses revealed that TaHsfA2e-5D functions through increasing the expression of Hsp genes and other stress-related genes, including APX2 and GolS1. Collectively, these results suggest that TaHsfA2e-5D functions as a positive regulator of plants’ responses to heat and drought stresses, which may be of great significance for understanding and improving environmental stress tolerance in crops.
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Affiliation(s)
- Huihui Bi
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
| | - Jingnan Miao
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
| | - Jinqiu He
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
| | - Qifan Chen
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
| | - Jiajun Qian
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
| | - Huanhuan Li
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
| | - Yan Xu
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.X.); (D.M.)
| | - Dan Ma
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.X.); (D.M.)
| | - Yue Zhao
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
- Correspondence: (Y.Z.); (X.T.)
| | - Xuejun Tian
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.X.); (D.M.)
- Correspondence: (Y.Z.); (X.T.)
| | - Wenxuan Liu
- National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China; (H.B.); (J.M.); (J.H.); (Q.C.); (J.Q.); (H.L.); (W.L.)
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12
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Haider S, Iqbal J, Naseer S, Shaukat M, Abbasi BA, Yaseen T, Zahra SA, Mahmood T. Unfolding molecular switches in plant heat stress resistance: A comprehensive review. PLANT CELL REPORTS 2022; 41:775-798. [PMID: 34401950 DOI: 10.1007/s00299-021-02754-w] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2021] [Accepted: 07/07/2021] [Indexed: 06/13/2023]
Abstract
Plant heat stress response is a multi-factorial trait that is precisely regulated by the complex web of transcription factors from various families that modulate heat stress responsive gene expression. Global warming due to climate change affects plant growth and development throughout its life cycle. Adds to this, the frequent occurrence of heat waves is drastically reducing the global crop yield. Molecular plant scientists can help crop breeders by providing genetic markers associated with stress resistance. Plant heat stress response (HSR), however, is a multi-factorial trait and using a single stress resistance trait might not be ideal to develop thermotolerant crops. Transcription factors participate in regulation of plant biological processes and environmental stress responses. Recent studies have revealed that plant HSR is precisely regulated by the complex web of transcription factors from various families. These transcription factors enhance plant heat stress tolerance by regulating the expression level of several stress-responsive genes independently or in cross talk with different other transcription factors. This review explores how signaling pathways triggered by heat stress are regulated by multiple transcription factor families. To our knowledge, we for the first time analyze the role of major transcription factor families in plant HSR along with their regulatory mechanisms. In the end, we will also discuss the potential of emerging technologies to improve thermotolerance in plants.
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Affiliation(s)
- Saqlain Haider
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Javed Iqbal
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan.
- Department of Botany, Bacha Khan University, Charsadda, Khyber Pakhtunkhwa, Pakistan.
| | - Sana Naseer
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Muzzafar Shaukat
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Banzeer Ahsan Abbasi
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Tabassum Yaseen
- Department of Botany, Bacha Khan University, Charsadda, Khyber Pakhtunkhwa, Pakistan
| | - Syeda Anber Zahra
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan
| | - Tariq Mahmood
- Plant Biochemistry and Molecular Biology Laboratory, Department of Plant Sciences, Quaid-I-Azam University, Islamabad, 45320, Pakistan.
- Pakistan Academy of Sciences, Islamabad, Pakistan.
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Chennakesavulu K, Singh H, Trivedi PK, Jain M, Yadav SR. State-of-the-Art in CRISPR Technology and Engineering Drought, Salinity, and Thermo-tolerant crop plants. PLANT CELL REPORTS 2022; 41:815-831. [PMID: 33742256 DOI: 10.1007/s00299-021-02681-w] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Accepted: 03/04/2021] [Indexed: 05/28/2023]
Abstract
Our review has described principles and functional importance of CRISPR-Cas9 with emphasis on the recent advancements, such as CRISPR-Cpf1, base editing (BE), prime editing (PE), epigenome editing, tissue-specific (CRISPR-TSKO), and inducible genome editing and their potential applications in generating stress-tolerant plants. Improved agricultural practices and enhanced food crop production using innovative crop breeding technology is essential for increasing access to nutritious foods across the planet. The crop plants play a pivotal role in energy and nutrient supply to humans. The abiotic stress factors, such as drought, heat, and salinity cause a substantial yield loss in crop plants and threaten food security. The most sustainable and eco-friendly way to overcome these challenges are the breeding of crop cultivars with improved tolerance against abiotic stress factors. The conventional plant breeding methods have been highly successful in developing abiotic stress-tolerant crop varieties, but usually cumbersome and time-consuming. Alternatively, the CRISPR/Cas genome editing has emerged as a revolutionary tool for making efficient and precise genetic manipulations in plant genomes. Here, we provide a comprehensive review of the CRISPR/Cas genome editing (GE) technology with an emphasis on recent advances in the plant genome editing, including base editing (BE), prime editing (PE), epigenome editing, tissue-specific (CRISPR-TSKO), and inducible genome editing (CRISPR-IGE), which can be used for obtaining cultivars with enhanced tolerance to various abiotic stress factors. We also describe tissue culture-free, DNA-free GE technology, and some of the CRISPR-based tools that can be modified for their use in crop plants.
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Affiliation(s)
- Kunchapu Chennakesavulu
- Department of Biotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, 247667, India
| | - Harshita Singh
- Department of Biotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, 247667, India
| | - Prabodh Kumar Trivedi
- CSIR-Central Institute of Medicinal and Aromatic Plants (CSIR-CIMAP), Near Kukrail Picnic Spot, Lucknow, 226015, India
| | - Mukesh Jain
- School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Shri Ram Yadav
- Department of Biotechnology, Indian Institute of Technology, Roorkee, Uttarakhand, 247667, India.
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Analyzing the regulatory role of heat shock transcription factors in plant heat stress tolerance: a brief appraisal. Mol Biol Rep 2022; 49:5771-5785. [PMID: 35182323 DOI: 10.1007/s11033-022-07190-x] [Citation(s) in RCA: 31] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Accepted: 01/24/2022] [Indexed: 01/11/2023]
Abstract
An increase in ambient temperature throughout the twenty-first century has been described as a "worldwide threat" for crop production. Due to their sessile lifestyles, plants have evolved highly sophisticated and complex heat stress response (HSR) mechanisms to respond to higher temperatures. The HSR allows plants to minimize the damages caused by heat stress (HS), thus enabling cellular protection. HSR is crucial for their lifecycle and yield, particularly for plants grown in the field. At the cellular level, HSR involves the production of heat shock proteins (HSPs) and other stress-responsive proteins to counter the negative effects of HS. The expression of most HSPs is transcriptionally regulated by heat shock transcription factors (HSFs). HSFs are a group of evolutionary conserved regulatory proteins present in all eukaryotes and regulate various stress responses and biological processes in plants. In recent years, significant progress has been made in deciphering the complex regulatory network of HSFs, and several HSFs not only from model plants but also from major crops have been functionally characterized. Therefore, this review explores the progress made in this fascinating research area and debates the further potential to breed thermotolerant crop cultivars through the modulation of HSF networks. Furthermore, we discussed the role of HSFs in plant HS tolerance in a class-specific manner and shed light on their functional diversity, which is evident from their mode of action. Additionally, some research gaps have been highlighted concerning class-specific manners.
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15
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Kumar RR, Dubey K, Goswami S, Hasija S, Pandey R, Singh PK, Singh B, Sareen S, Rai GK, Singh GP, Singh AK, Chinnusamy V, Praveen S. Heterologous expression and characterization of novel manganese superoxide dismutase (Mn-SOD) – A potential biochemical marker for heat stress-tolerance in wheat (Triticum aestivum). Int J Biol Macromol 2020; 161:1029-1039. [DOI: 10.1016/j.ijbiomac.2020.06.026] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2020] [Revised: 06/02/2020] [Accepted: 06/03/2020] [Indexed: 12/15/2022]
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16
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Gene co-expression network analysis to identify critical modules and candidate genes of drought-resistance in wheat. PLoS One 2020; 15:e0236186. [PMID: 32866164 PMCID: PMC7458298 DOI: 10.1371/journal.pone.0236186] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Accepted: 06/30/2020] [Indexed: 12/17/2022] Open
Abstract
AIM To establish a gene co-expression network for identifying principal modules and hub genes that are associated with drought resistance mechanisms, analyzing their mechanisms, and exploring candidate genes. METHODS AND FINDINGS 42 data sets including PRJNA380841 and PRJNA369686 were used to construct the co-expression network through weighted gene co-expression network analysis (WGCNA). A total of 1,896,897,901 (284.30 Gb) clean reads and 35,021 differentially expressed genes (DEGs) were obtained from 42 samples. Functional enrichment analysis indicated that photosynthesis, DNA replication, glycolysis/gluconeogenesis, starch and sucrose metabolism, arginine and proline metabolism, and cell cycle were significantly influenced by drought stress. Furthermore, the DEGs with similar expression patterns, detected by K-means clustering, were grouped into 29 clusters. Genes involved in the modules, such as dark turquoise, yellow, and brown, were found to be appreciably linked with drought resistance. Twelve central, greatly correlated genes in stage-specific modules were subsequently confirmed and validated at the transcription levels, including TraesCS7D01G417600.1 (PP2C), TraesCS5B01G565300.1 (ERF), TraesCS4A01G068200.1 (HSP), TraesCS2D01G033200.1 (HSP90), TraesCS6B01G425300.1 (RBD), TraesCS7A01G499200.1 (P450), TraesCS4A01G118400.1 (MYB), TraesCS2B01G415500.1 (STK), TraesCS1A01G129300.1 (MYB), TraesCS2D01G326900.1 (ALDH), TraesCS3D01G227400.1 (WRKY), and TraesCS3B01G144800.1 (GT). CONCLUSIONS Analyzing the response of wheat to drought stress during different growth stages, we have detected three modules and 12 hub genes that are associated with drought resistance mechanisms, and five of those genes are newly identified for drought resistance. The references provided by these modules will promote the understanding of the drought-resistance mechanism. In addition, the candidate genes can be used as a basis of transgenic or molecular marker-assisted selection for improving the drought resistance and increasing the yields of wheat.
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17
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Li B, Feng Y, Zong Y, Zhang D, Hao X, Li P. Elevated CO 2-induced changes in photosynthesis, antioxidant enzymes and signal transduction enzyme of soybean under drought stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 154:105-114. [PMID: 32535322 DOI: 10.1016/j.plaphy.2020.05.039] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2020] [Revised: 05/26/2020] [Accepted: 05/29/2020] [Indexed: 06/11/2023]
Abstract
Rising atmospheric [CO2] influences plant growth, development, productivity and stress responses. Soybean is a major oil crop. At present, it is unclear how elevated [CO2] affects the physiological and biochemical pathways of soybean under drought stress. In this study, changes in the photosynthetic capacity, photosynthetic pigment and antioxidant level were evaluated in soybean at flowering stages under different [CO2] (400 μmol mol-1 and 600 μmol mol-1) and water level (the relative water content of the soil was 75-85% soil capacity, and the relative water content of the soil was 35-45% soil capacity under drought stress). Changes in levels of osmolytes, hormones and signal transduction enzymes were also determined. The results showed that under drought stress, increasing [CO2] significantly reduced leaf transpiration rate (E), net photosynthetic rate (PN) and chlorophyll b content. Elevated [CO2] significantly decreased the content of malondialdehyde (MDA) and proline (PRO), while significantly increased superoxide dismutase (SOD) and abscisic acid (ABA) under drought stress. Elevated [CO2] significantly increased the transcript and protein levels of calcium-dependent protein kinase (CDPK), and Glutathione S- transferase (GST). The content of HSP-70 and the corresponding gene expression level were significantly reduced by elevated [CO2], irrespective of water treatments. Taken together, these results suggest that elevated [CO2] does not alleviate the negative impacts of drought stress on photosynthesis. ABA, CDPK and GST may play an important role in elevated CO2-induced drought stress responses.
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Affiliation(s)
- Bingyan Li
- College of Agriculture, Shanxi Agricultural University, Taigu, 030801, China
| | - Yanan Feng
- College of Agriculture, Shanxi Agricultural University, Taigu, 030801, China
| | - Yuzheng Zong
- College of Agriculture, Shanxi Agricultural University, Taigu, 030801, China
| | - Dongsheng Zhang
- College of Agriculture, Shanxi Agricultural University, Taigu, 030801, China
| | - Xingyu Hao
- College of Agriculture, Shanxi Agricultural University, Taigu, 030801, China
| | - Ping Li
- College of Agriculture, Shanxi Agricultural University, Taigu, 030801, China.
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Abdelrahman M, Ishii T, El-Sayed M, Tran LSP. Heat Sensing and Lipid Reprograming as a Signaling Switch for Heat Stress Responses in Wheat. ACTA ACUST UNITED AC 2020; 61:1399-1407. [DOI: 10.1093/pcp/pcaa072] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2020] [Accepted: 05/11/2020] [Indexed: 12/20/2022]
Abstract
Abstract
Temperature is an essential physical factor that affects the plant life cycle. Almost all plant species have evolved a robust signal transduction system that enables them to sense changes in the surrounding temperature, relay this message and accordingly adjust their metabolism and cellular functions to avoid heat stress-related damage. Wheat (Triticum aestivum), being a cool-season crop, is very sensitive to heat stress. Any increase in the ambient temperature, especially at the reproductive and grain-filling stages, can cause a drastic loss in wheat yield. Heat stress causes lipid peroxidation due to oxidative stress, resulting in the damage of thylakoid membranes and the disruption of their function, which ultimately decreases photosynthesis and crop yield. The cell membrane/plasma membrane plays prominent roles as an interface system that perceives and translates the changes in environmental signals into intracellular responses. Thus, membrane lipid composition is a critical factor in heat stress tolerance or susceptibility in wheat. In this review, we elucidate the possible involvement of calcium influx as an early heat stress-responsive mechanism in wheat plants. In addition, the physiological implications underlying the changes in lipid metabolism under high-temperature stress in wheat and other plant species will be discussed. In-depth knowledge about wheat lipid reprograming can help develop heat-tolerant wheat varieties and provide approaches to solve the impact of global climate change.
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Affiliation(s)
- Mostafa Abdelrahman
- Department of Botany, Faculty of Sciences, Aswan University, Aswan 81528, Egypt
- Arid Land Research Center, Tottori University, Tottori, 680-0001 Japan
- Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, Tsurumi, Yokohama, 230-0045 Japan
| | - Takayoshi Ishii
- Arid Land Research Center, Tottori University, Tottori, 680-0001 Japan
| | - Magdi El-Sayed
- Department of Botany, Faculty of Sciences, Aswan University, Aswan 81528, Egypt
| | - Lam-Son Phan Tran
- Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, Tsurumi, Yokohama, 230-0045 Japan
- Institute of Research and Development, Duy Tan University, Da Nang 550000, Vietnam
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Wheat Heat Shock Factor TaHsfA6f Increases ABA Levels and Enhances Tolerance to Multiple Abiotic Stresses in Transgenic Plants. Int J Mol Sci 2020; 21:ijms21093121. [PMID: 32354160 PMCID: PMC7247712 DOI: 10.3390/ijms21093121] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Revised: 04/24/2020] [Accepted: 04/27/2020] [Indexed: 12/24/2022] Open
Abstract
Abiotic stresses are major constraints limiting crop growth and production. Heat shock factors (Hsfs) play significant roles in mediating plant resistance to various environmental stresses, including heat, drought and salinity. In this study, we explored the biological functions and underlying mechanisms of wheat TaHsfA6f in plant tolerance to various abiotic stresses. Gene expression profiles showed that TaHsfA6f has relatively high expression levels in wheat leaves at the reproductive stage. Transcript levels of TaHsfA6f were substantially up-regulated by heat, dehydration, salinity, low temperature, and multiple phytohormones, but was not induced by brassinosteroids (BR). Subcellular localization analyses revealed that TaHsfA6f is localized to the nucleus. Overexpression of the TaHsfA6f gene in Arabidopsis results in improved tolerance to heat, drought and salt stresses, enhanced sensitivity to exogenous abscisic acid (ABA), and increased accumulation of ABA. Furthermore, RNA-sequencing data demonstrated that TaHsfA6f functions through up-regulation of a number of genes involved in ABA metabolism and signaling, and other stress-associated genes. Collectively, these results provide evidence that TaHsfA6f participates in the regulation of multiple abiotic stresses, and that TaHsfA6f could serve as a valuable gene for genetic modification of crop abiotic stress tolerance.
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Ye J, Yang X, Hu G, Liu Q, Li W, Zhang L, Song X. Genome-Wide Investigation of Heat Shock Transcription Factor Family in Wheat ( Triticum aestivum L.) and Possible Roles in Anther Development. Int J Mol Sci 2020; 21:E608. [PMID: 31963482 PMCID: PMC7013567 DOI: 10.3390/ijms21020608] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2019] [Revised: 01/14/2020] [Accepted: 01/15/2020] [Indexed: 01/19/2023] Open
Abstract
Heat shock transcription factors (HSFs) play crucial roles in resisting heat stress and regulating plant development. Recently, HSFs have been shown to play roles in anther development. Thus, investigating the HSF family members and identifying their protective roles in anthers are essential for the further development of male sterile wheat breeding. In the present study, 61 wheat HSF genes (TaHsfs) were identified in the whole wheat genome and they are unequally distributed on 21 chromosomes. According to gene structure and phylogenetic analyses, the 61 TaHsfs were classified into three categories and 12 subclasses. Genome-wide duplication was identified as the main source of the expansion of the wheat HSF gene family based on 14 pairs of homeologous triplets, whereas only a very small number of TaHsfs were derived by segmental duplication and tandem duplication. Heat shock protein 90 (HSP90), HSP70, and another class of chaperone protein called htpG were identified as proteins that interact with wheat HSFs. RNA-seq analysis indicated that TaHsfs have obvious period- and tissue-specific expression patterns, and the TaHsfs in classes A and B respond to heat shock, whereas the C class TaHsfs are involved in drought regulation. qRT-PCR identified three TaHsfA2bs with differential expression in sterile and fertile anthers, and they may be candidate genes involved in anther development. This comprehensive analysis provides novel insights into TaHsfs, and it will be useful for understanding the mechanism of plant fertility conversion.
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Affiliation(s)
| | | | | | | | | | | | - Xiyue Song
- College of Agronomy, Northwest A&F University, Yangling 712100, Shaanxi, China; (J.Y.); (X.Y.); (G.H.); (Q.L.); (W.L.); (L.Z.)
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21
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Haghir S, Alemzadeh A. Cloning and molecular characterization of TaERF6, a gene encoding a bread wheat ethylene response factor. MOLECULAR BIOLOGY RESEARCH COMMUNICATIONS 2019; 7:153-163. [PMID: 30788378 PMCID: PMC6363940 DOI: 10.22099/mbrc.2018.30339.1336] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Ethylene response factor proteins are important for regulating gene expression under different stresses. Different isoforms for ERF have previously isolated from bread wheat (Triticum aestivum L.) and related genera and called from TaERF1 to TaERF5. We isolated, cloned and molecular characterized a novel one based on TdERF1, an isoform in durum wheat (Triticum turgidum L.) and called TaERF6. Its cDNA was synthesized, sequenced and compared with genomic sequence to figure out intron and exon regions and determine coding sequence region. The length of TdERF1 gene was 1939 bp and cDNA was 1065 bp including two exons, the first one 259 bp and the second one 806 bp separated by a 874 bp intron with a 111 bp 5'-UTR (untranslated region) and 401 bp 3'-UTR. TaERF6 encodes a 353 amino acids protein with nearly 99% identity to TdERF1. Hydrophobic cluster analysis revealed an N-terminal hydrophobic domain contains a highly conserved motif with the consensus sequence of M [C/L/Y] [G/R] [G/R/P] [A/G/V/L/R] [I/L/R/S/P/Q] [L/I/R/H] and hydrophobic clusters in AP2/ERF domain of which tends to form -sheet. Three monopartite nuclear localization signals also identified in TaERF6 that play important role in getting back into the nucleus. The results showed several putative phosphorylation sites in TaERF6 that a motif from residues 246 to 266, the CMVII-4 motif, was predicted to phosphorylate by different kinase proteins and play important roles in TaERF6 function. Phylogenetic analysis showed 7 clusters (I to VII) and 10 subclusters according to their relatedness in Poaceae family.
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Affiliation(s)
- Shahrzad Haghir
- Department of Crop Production and Plant Breeding, School of Agriculture, Shiraz University, Shiraz, Iran
| | - Abbas Alemzadeh
- Department of Crop Production and Plant Breeding, School of Agriculture, Shiraz University, Shiraz, Iran
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22
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Lohani N, Golicz AA, Singh MB, Bhalla PL. Genome-wide analysis of the Hsf gene family in Brassica oleracea and a comparative analysis of the Hsf gene family in B. oleracea, B. rapa and B. napus. Funct Integr Genomics 2019; 19:515-531. [DOI: 10.1007/s10142-018-0649-1] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Revised: 11/12/2018] [Accepted: 11/19/2018] [Indexed: 02/05/2023]
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23
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Kumar RR, Singh K, Ahuja S, Tasleem M, Singh I, Kumar S, Grover M, Mishra D, Rai GK, Goswami S, Singh GP, Chinnusamy V, Rai A, Praveen S. Quantitative proteomic analysis reveals novel stress-associated active proteins (SAAPs) and pathways involved in modulating tolerance of wheat under terminal heat. Funct Integr Genomics 2018; 19:329-348. [PMID: 30465139 DOI: 10.1007/s10142-018-0648-2] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2018] [Revised: 11/14/2018] [Accepted: 11/14/2018] [Indexed: 02/06/2023]
Abstract
Terminal heat stress has detrimental effect on the growth and yield of wheat. Very limited information is available on heat stress-associated active proteins (SAAPs) in wheat. Here, we have identified 159 protein groups with 4271 SAAPs in control (22 ± 3 °C) and HS-treated (38 °C, 2 h) wheat cvs. HD2985 and HD2329 using iTRAQ. We identified 3600 proteins to be upregulated and 5825 proteins to be downregulated in both the wheat cvs. under HS. We observed 60.3% of the common SAAPs showing upregulation in HD2985 (thermotolerant) and downregulation in HD2329 (thermosusceptible) under HS. GO analysis showed proton transport (molecular), photosynthesis (biological), and ATP binding (cellular) to be most altered under HS. Most of the SAAPs identified were observed to be chloroplast localized and involved in photosynthesis. Carboxylase enzyme was observed most abundant active enzymes in wheat under HS. An increase in the degradative isoenzymes (α/β-amylases) was observed, as compared to biosynthesis enzymes (ADP-glucophosphorylase, soluble starch synthase, etc.) under HS. Transcript profiling showed very high relative fold expression of HSP17, CDPK, Cu/Zn SOD, whereas downregulation of AGPase, SSS under HS. The identified SAAPs can be used for targeted protein-based precision wheat-breeding program for the development of 'climate-smart' wheat.
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Affiliation(s)
- Ranjeet R Kumar
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, 110012, India.
| | - Khushboo Singh
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Sumedha Ahuja
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Mohd Tasleem
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Indra Singh
- CABin, Indian Agricultural Statistical Research Institute (IASRI), Pusa, New Delhi, 110012, India
| | - Sanjeev Kumar
- CABin, Indian Agricultural Statistical Research Institute (IASRI), Pusa, New Delhi, 110012, India
| | - Monendra Grover
- CABin, Indian Agricultural Statistical Research Institute (IASRI), Pusa, New Delhi, 110012, India
| | - Dwijesh Mishra
- CABin, Indian Agricultural Statistical Research Institute (IASRI), Pusa, New Delhi, 110012, India
| | - Gyanendra K Rai
- Sher-E-Kashmir University of Agriculture Science and Technology, Chatta, Jammu and Kashmir, 180009, India
| | - Suneha Goswami
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Gyanendra P Singh
- Indian Institute of Wheat and Barley Research, Karnal, Haryana, 132001, India
| | - Viswanathan Chinnusamy
- Division of Plant Physiology, Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Anil Rai
- CABin, Indian Agricultural Statistical Research Institute (IASRI), Pusa, New Delhi, 110012, India
| | - Shelly Praveen
- Division of Biochemistry, Indian Agricultural Research Institute, New Delhi, 110012, India.
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