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Guan J, Zhang Y, Li D, Shan Q, Hu Z, Chai T, Zhou A, Qiao K. Synergistic role of phenylpropanoid biosynthesis and citrate cycle pathways in heavy metal detoxification through secretion of organic acids. JOURNAL OF HAZARDOUS MATERIALS 2024; 476:135106. [PMID: 38970974 DOI: 10.1016/j.jhazmat.2024.135106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2024] [Revised: 06/19/2024] [Accepted: 07/03/2024] [Indexed: 07/08/2024]
Abstract
Excessive heavy metal contaminants in soils have serious ecological and environmental impacts, and affect plant growth and crop yields. Phytoremediation is an environmentally friendly means of lowering heavy metal concentrations in soils. In this study, we analyzed phenotypic and physiological traits, and the transcriptome and metabolome, of sheepgrass (Leymus chinensis) exposed to cadmium (Cd), lead (Pb), or zinc (Zn). Phenotypic and physiological analysis indicated that sheepgrass had strong tolerance to Cd/Pb/Zn. Transcriptomic analysis revealed that phenylpropanoid biosynthesis and organic acid metabolism were enriched among differentially expressed genes, and metabolomic analysis indicated that the citrate cycle was enriched in response to Cd/Pb/Zn exposure. Genes encoding enzymes involved in the phenylpropanoid and citrate cycle pathways were up-regulated under the Cd/Pb/Zn treatments. Organic acids significantly reduced heavy metal accumulation and improved sheepgrass tolerance of heavy metals. The results suggest that synergistic interaction of the phenylpropanoid and citrate cycle pathways in sheepgrass roots induced organic acid secretion to alleviate heavy metal toxicity. A cascade of enzymes involved in the interacting pathways could be targeted in molecular design breeding to enhance phytoremediation.
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Affiliation(s)
- Jing Guan
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, PR China
| | - Yixin Zhang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, PR China
| | - Defang Li
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, PR China
| | - Qinghua Shan
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, PR China
| | - Zhangli Hu
- Shenzhen Engineering Laboratory for Marine Algal Biotechnology, Guangdong Engineering Research Center for Marine Algal Biotechnology, Longhua Innovation Institute for Biotechnology, College of Life Science and Oceanography, Shenzhen University, Shenzhen 518060, PR China
| | - Tuanyao Chai
- College of Life Science, University of the Chinese Academy of Sciences, Beijing 100049, PR China
| | - Aimin Zhou
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, PR China
| | - Kun Qiao
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, PR China.
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Aamir M, Shanmugam V, Dubey MK, Husain FM, Adil M, Ansari WA, Rai A, Sah P. Transcriptomic characterization of Trichoderma harzianum T34 primed tomato plants: assessment of biocontrol agent induced host specific gene expression and plant growth promotion. BMC PLANT BIOLOGY 2023; 23:552. [PMID: 37940862 PMCID: PMC10631224 DOI: 10.1186/s12870-023-04502-6] [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: 06/10/2023] [Accepted: 09/30/2023] [Indexed: 11/10/2023]
Abstract
In this study, we investigated the intricate interplay between Trichoderma and the tomato genome, focusing on the transcriptional and metabolic changes triggered during the late colonization event. Microarray probe set (GSE76332) was utilized to analyze the gene expression profiles changes of the un-inoculated control (tomato) and Trichoderma-tomato interactions for identification of the differentially expressed significant genes. Based on principal component analysis and R-based correlation, we observed a positive correlation between the two cross-comaparable groups, corroborating the existence of transcriptional responses in the host triggered by Trichoderma priming. The statistically significant genes based on different p-value cut-off scores [(padj-values or q-value); padj-value < 0.05], [(pcal-values); pcal-value < 0.05; pcal < 0.01; pcal < 0.001)] were cross compared. Through cross-comparison, we identified 156 common genes that were consistently significant across all probability thresholds, and showing a strong positive corelation between p-value and q-value in the selected probe sets. We reported TD2, CPT1, pectin synthase, EXT-3 (extensin-3), Lox C, and pyruvate kinase (PK), which exhibited upregulated expression, and Glb1 and nitrate reductase (nii), which demonstrated downregulated expression during Trichoderma-tomato interaction. In addition, microbial priming with Trichoderma resulted into differential expression of transcription factors related to systemic defense and flowering including MYB13, MYB78, ERF2, ERF3, ERF5, ERF-1B, NAC, MADS box, ZF3, ZAT10, A20/AN1, polyol sugar transporter like zinc finger proteins, and a novel plant defensin protein. The potential bottleneck and hub genes involved in this dynamic response were also identified. The protein-protein interaction (PPI) network analysis based on 25 topmost DEGS (pcal-value < 0.05) and the Weighted Correlation Gene Network Analysis (WGCNA) of the 1786 significant DEGs (pcal-value < 0.05) we reported the hits associated with carbohydrate metabolism, secondary metabolite biosynthesis, and the nitrogen metabolism. We conclude that the Trichoderma-induced microbial priming re-programmed the host genome for transcriptional response during the late colonization event and were characterized by metabolic shifting and biochemical changes specific to plant growth and development. The work also highlights the relevance of statistical parameters in understanding the gene regulatory dynamics and complex regulatory networks based on differential expression, co-expression, and protein interaction networks orchestrating the host responses to beneficial microbial interactions.
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Affiliation(s)
- Mohd Aamir
- Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, Pusa, New Delhi-110012, Delhi, India.
| | - V Shanmugam
- Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, Pusa, New Delhi-110012, Delhi, India
| | - Manish Kumar Dubey
- Department of Biotechnology, University Centre for Research & Development (UCRD), Chandigarh University, Punjab, 140413, India
| | - Fohad Mabood Husain
- Department of Food Science and Nutrition, College of Food and Agriculture Sciences, King Saud University, Riyadh-11451, Saudi Arabia
| | - Mohd Adil
- Plant, Food and Environmental Sciences, Dalhousie University, Truro, NS, B2N2R9, Canada
| | - Waquar Akhter Ansari
- Department of Botany, Centre for Advanced Study, Institute of Science, Banaras Hindu University, Varanasi, 221002, India
| | - Ashutosh Rai
- Department of Basic and Social Sciences, College of Horticulture, Banda University of Agriculture and Technology, Uttar Pradesh, Banda, 210001, India
| | - Pankaj Sah
- Applied Sciences Department, College of Applied Sciences and Pharmacy, University of Technology and Applied Sciences-Muscat, Al Janubyyah Street, PO Box 74, Muscat, 133, Sultanate of Oman
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Lu L, Yang W, Dong Z, Tang L, Liu Y, Xie S, Yang Y. Integrated Transcriptomic and Metabolomics Analyses Reveal Molecular Responses to Cold Stress in Coconut ( Cocos nucifera L.) Seedlings. Int J Mol Sci 2023; 24:14563. [PMID: 37834015 PMCID: PMC10572742 DOI: 10.3390/ijms241914563] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Revised: 09/20/2023] [Accepted: 09/22/2023] [Indexed: 10/15/2023] Open
Abstract
Coconut is an important tropical and subtropical fruit and oil crop severely affected by cold temperature, limiting its distribution and application. Thus, studying its low-temperature reaction mechanism is required to expand its cultivation range. We used growth morphology and physiological analyses to characterize the response of coconuts to 10, 20, and 30 d of low temperatures, combined with transcriptome and metabolome analysis. Low-temperature treatment significantly reduced the plant height and dry weight of coconut seedlings. The contents of soil and plant analyzer development (SPAD), soluble sugar (SS), soluble protein (SP), proline (Pro), and malondialdehyde (MDA) in leaves were significantly increased, along with the activities of superoxide dismutase (SOD), peroxidase (POD), and catalase (CAT), and the endogenous hormones abscisic acid (ABA), auxin (IAA), zeatin (ZR), and gibberellin (GA) contents. A large number of differentially expressed genes (DEGs) (9968) were detected under low-temperature conditions. Most DEGs were involved in mitogen-activated protein kinase (MAPK) signaling pathway-plant, plant hormone signal transduction, plant-pathogen interaction, biosynthesis of amino acids, amino sugar and nucleotide sugar metabolism, carbon metabolism, starch and sucrose metabolism, purine metabolism, and phenylpropanoid biosynthesis pathways. Transcription factors (TFs), including WRKY, AP2/ERF, HSF, bZIP, MYB, and bHLH families, were induced to significantly differentially express under cold stress. In addition, most genes associated with major cold-tolerance pathways, such as the ICE-CBF-COR, MAPK signaling, and endogenous hormones and their signaling pathways, were significantly up-regulated. Under low temperatures, a total of 205 differentially accumulated metabolites (DAMs) were enriched; 206 DAMs were in positive-ion mode and 97 in negative-ion mode, mainly including phenylpropanoids and polyketides, lipids and lipid-like molecules, benzenoids, organoheterocyclic compounds, organic oxygen compounds, organic acids and derivatives, nucleosides, nucleotides, and analogues. Comprehensive metabolome and transcriptome analysis revealed that the related genes and metabolites were mainly enriched in amino acid, flavonoid, carbohydrate, lipid, and nucleotide metabolism pathways under cold stress. Together, the results of this study provide important insights into the response of coconuts to cold stress, which will reveal the underlying molecular mechanisms and help in coconut screening and breeding.
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Affiliation(s)
- Lilan Lu
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Weibo Yang
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Zhiguo Dong
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Longxiang Tang
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Yingying Liu
- School of Earth Sciences, China University of Geosciences, Wuhan 430074, China;
| | - Shuyun Xie
- School of Earth Sciences, China University of Geosciences, Wuhan 430074, China;
| | - Yaodong Yang
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
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Zhao X, Ma K, Li Z, Li W, Zhang X, Liu S, Meng R, Lu B, Li X, Ren J, Zhang L, Yuan X. Transcriptome Analysis Reveals Brassinolide Signaling Pathway Control of Foxtail Millet Seedling Starch and Sucrose Metabolism under Freezing Stress, with Implications for Growth and Development. Int J Mol Sci 2023; 24:11590. [PMID: 37511348 PMCID: PMC10380969 DOI: 10.3390/ijms241411590] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2023] [Revised: 07/14/2023] [Accepted: 07/14/2023] [Indexed: 07/30/2023] Open
Abstract
Low-temperature stress limits the growth and development of foxtail millet. Freezing stress caused by sudden temperature drops, such as late-spring coldness, often occurs in the seedling stage of foxtail millet. However, the ability and coping strategies of foxtail millet to cope with such stress are not clear. In the present study, we analyzed the self-regulatory mechanisms of freezing stress in foxtail millet. We conducted a physiological study on foxtail millet leaves at -4 °C for seven different durations (0, 2, 4, 6, 8, 10, and 12 h). Longer freezing time increased cell-membrane damage, relative conductance, and malondialdehyde content. This led to osmotic stress in the leaves, which triggered an increase in free proline, soluble sugar, and soluble protein contents. The increases in these substances helped to reduce the damage caused by stress. The activities of superoxide dismutase, peroxidase, and catalase increased reactive oxygen species (ROS) content. The optimal time point for the response to freezing stress was 8 h after exposure. The transcriptome analysis of samples held for 8 h at -4 °C revealed 6862 differentially expressed genes (DEGs), among which the majority are implicated in various pathways, including the starch and sucrose metabolic pathways, antioxidant enzyme pathways, brassinolide (BR) signaling pathway, and transcription factors, according to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment. We investigated possible crosstalk between BR signals and other pathways and found that BR signaling molecules were induced in response to freezing stress. The beta-amylase (BAM) starch hydrolase signal was enhanced by the BR signal, resulting in the accelerated degradation of starch and the formation of sugars, which served as emerging ROS scavengers and osmoregulators to resist freezing stress. In conclusion, crosstalk between BR signal transduction, and both starch and sucrose metabolism under freezing stress provides a new perspective for improving freezing resistance in foxtail millet.
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Affiliation(s)
- Xiatong Zhao
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Ke Ma
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Zhong Li
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Weidong Li
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Xin Zhang
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Shaoguang Liu
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Ru Meng
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Boyu Lu
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Xiaorui Li
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Jianhong Ren
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Liguang Zhang
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
| | - Xiangyang Yuan
- College of Agronomy, Shanxi Agricultural University, Taigu, Jinzhong 030801, China
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Tian Y, Peng K, Ma X, Ren Z, Lou G, Jiang Y, Xia J, Wang D, Yu J, Cang J. Overexpression of TaMYB4 Confers Freezing Tolerance in Arabidopsis thaliana. Int J Mol Sci 2023; 24:11090. [PMID: 37446268 DOI: 10.3390/ijms241311090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Revised: 06/28/2023] [Accepted: 06/29/2023] [Indexed: 07/15/2023] Open
Abstract
Freezing stress is one of the main factors limiting the growth and yield of wheat. In this study, we found that TaMYB4 expression was significantly upregulated in the tillering nodes of the strong cold-resistant winter wheat variety Dongnongdongmai1 (Dn1) under freezing stress. Weighted gene co-expression network analysis, qRT-PCR and protein-DNA interaction experiments demonstrated that monodehydroascorbate reductase (TaMDHAR) is a direct target of TaMYB4. The results showed that overexpression of TaMYB4 enhanced the freezing tolerance of transgenic Arabidopsis. In TaMYB4 overexpression lines (OE-TaMYB4), AtMDHAR2 expression was upregulated and ascorbate-glutathione (AsA-GSH) cycle operation was enhanced. In addition, the expression of cold stress marker genes such as AtCBF1, AtCBF2, AtCBF3, AtCOR15A, AtCOR47, AtKIN1 and AtRD29A in OE-TaMYB4 lines was significantly upregulated. Therefore, TaMYB4 may increase freezing tolerance as a transcription factor (TF) in Arabidopsis through the AsA-GSH cycle and DREB/CBF signaling pathway. This study provides a potential gene for molecular breeding against freezing stress.
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Affiliation(s)
- Yu Tian
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Kankan Peng
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Xuan Ma
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Zhipeng Ren
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Guicheng Lou
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Yunshuang Jiang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Jingqiu Xia
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Duojia Wang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Jing Yu
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Jing Cang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
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Akbari A, Ismaili A, Amirbakhtiar N, Pouresmael M, Shobbar ZS. Genome-wide transcriptional profiling provides clues to molecular mechanisms underlying cold tolerance in chickpea. Sci Rep 2023; 13:6279. [PMID: 37072529 PMCID: PMC10113226 DOI: 10.1038/s41598-023-33398-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 04/12/2023] [Indexed: 05/03/2023] Open
Abstract
Chickpea is an important food legume cultivated in several countries. A sudden drop in autumn temperature, freezing winter temperature, and late spring cold events result in significant losses in chickpea production. The current study used RNA sequencing of two cold tolerant (Saral) and sensitive (ILC533) Kabuli chickpea genotypes to identify cold tolerance-associated genes/pathways. A total of 200.85 million raw reads were acquired from the leaf samples by Illumina sequencing, and around 86% of the clean reads (199 million) were mapped to the chickpea reference genome. The results indicated that 3710 (1980 up- and 1730 down-regulated) and 3473 (1972 up- and 1501 down-regulated) genes were expressed differentially under cold stress in the tolerant and sensitive genotypes, respectively. According to the GO enrichment analysis of uniquely down-regulated genes under cold stress in ILC533, photosynthetic membrane, photosystem II, chloroplast part, and photosystem processes were enriched, revealing that the photosynthesis is severely sensitive to cold stress in this sensitive genotype. Many remarkable transcription factors (CaDREB1E, CaMYB4, CaNAC47, CaTCP4, and CaWRKY33), signaling/regulatory genes (CaCDPK4, CaPP2C6, CaMKK2, and CaHSFA3), and protective genes (CaCOR47, CaLEA3, and CaGST) were identified among the cold-responsive genes of the tolerant genotype. These findings would help improve cold tolerance across chickpea genotypes by molecular breeding or genetic engineering.
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Affiliation(s)
- Alireza Akbari
- Department of Plant Production and Genetic Engineering, Faculty of Agriculture, Lorestan University, Khorramabad, Iran
| | - Ahmad Ismaili
- Department of Plant Production and Genetic Engineering, Faculty of Agriculture, Lorestan University, Khorramabad, Iran.
| | - Nazanin Amirbakhtiar
- Genetic Research Department, Seed and Plant Improvement Institute, Agricultural Research, Education and Extension Organization, Karaj, Iran
| | - Masoumeh Pouresmael
- Genetic Research Department, Seed and Plant Improvement Institute, Agricultural Research, Education and Extension Organization, Karaj, Iran
| | - Zahra-Sadat Shobbar
- Department of Systems Biology, Agricultural Biotechnology Research Institute of Iran (ABRII), Agricultural Research, Education and Extension Organization, Karaj, Iran.
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Yang X, Luo Y, Bai H, Li X, Tang S, Liao X, Zhang L, Liu Q. DgMYB2 improves cold resistance in chrysanthemum by directly targeting DgGPX1. HORTICULTURE RESEARCH 2022; 9:uhab028. [PMID: 35039835 PMCID: PMC8801720 DOI: 10.1093/hr/uhab028] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2021] [Revised: 01/18/2022] [Accepted: 10/03/2021] [Indexed: 05/29/2023]
Abstract
MYB transcription factors play important roles in plant responses to cold stress, but the associated underlying mechanisms remain unclear. In this study, a cold-induced MYB transcription factor, DgMYB2, was isolated from chrysanthemum (Chrysanthemum morifolium Ramat). DgMYB2 was localized to the nucleus and exhibited transactivational activity. Overexpression of DgMYB2 improved cold tolerance in chrysanthemum, while cold tolerance in the antisense suppression lines decreased compared to that of the wild type. Additionally, electrophoretic mobility shift assays, chromatin immunoprecipitation, luciferase complementary imaging analysis, and dual-luciferase reporter gene detection experiments confirmed that DgMYB2 directly targets DgGPX1 and increases the activity of glutathione peroxidase to reduce the accumulation of reactive oxygen species, thereby improving cold resistance in chrysanthemum.
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Affiliation(s)
- Xiaohan Yang
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Yunchen Luo
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Huiru Bai
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Xin Li
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Si Tang
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Xiaoqin Liao
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Lei Zhang
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
| | - Qinglin Liu
- Department of Ornamental Horticulture, Sichuan Agricultural University, 211 Huimin Road, Wenjiang District, Chengdu, Sichuan 611130, China
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Comparative Transcriptomic Analyses of Different Jujube Cultivars Reveal the Co-Regulation of Multiple Pathways during Fruit Cracking. Genes (Basel) 2022; 13:genes13010105. [PMID: 35052445 PMCID: PMC8775106 DOI: 10.3390/genes13010105] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Revised: 12/11/2021] [Accepted: 12/29/2021] [Indexed: 12/13/2022] Open
Abstract
Fruit cracking is a common physiological disorder in many fruit species. Jujube (Ziziphus jujuba Mill.) is an economically valuable fruit in which fruit cracking seriously affects fruit yield and quality and causes significant economic losses. To elucidate cracking-related molecular mechanisms, the cracking-susceptible cultivars ‘Cuizaohong’ and ‘Jinsixiaozao’ and the cracking-resistant cultivar ‘Muzao’ were selected, and comparative transcriptome analyses of cracking and non-cracking ‘Cuizaohong’ (CC and NC), cracking and non-cracking ‘Jinsixiaozao’ (CJ and NJ), and non-cracking ‘Muzao’ (NM) were conducted. A total of 131 differentially expressed genes (DEGs) were common to the CC vs. NC and CJ vs. NJ comparisons. To avoid passive processes after fruit cracking, we also mainly focused on the 225 gradually downregulated DEGs in the CJ, NJ, and NM samples. The functional annotation of the candidate DEGs revealed that 61 genes related to calcium, the cell wall, the cuticle structure, hormone metabolism, starch/sucrose metabolism, transcription factors, and water transport were highly expressed in cracking fruits. We propose that expression-level changes in these genes might increase the turgor pressure and weaken mechanical properties, ultimately leading to jujube fruit cracking. These results may serve as a rich genetic resource for future investigations on fruit cracking mechanisms in jujube and in other fruit species.
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Wani UM, Majeed ST, Raja V, Wani ZA, Jan N, Andrabi KI, John R. Ectopic expression of a novel cold-resistance protein 1 from Brassica oleracea promotes tolerance to chilling stress in transgenic tomato. Sci Rep 2021; 11:16574. [PMID: 34400729 PMCID: PMC8367951 DOI: 10.1038/s41598-021-96102-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2021] [Accepted: 07/29/2021] [Indexed: 02/07/2023] Open
Abstract
Cold stress is considered as one of the major environmental factors that adversely affects the plant growth and distribution. Therefore, there arises an immediate need to cultivate effective strategies aimed at developing stress-tolerant crops that would boost the production and minimise the risks associated with cold stress. In this study, a novel cold-responsive protein1 (BoCRP1) isolated from Brassica oleracea was ectopically expressed in a cold susceptible tomato genotype Shalimar 1 and its function was investigated in response to chilling stress. BoCRP1 was constitutively expressed in all the tissues of B. oleracea including leaf, root and stem. However, its expression was found to be significantly increased in response to cold stress. Moreover, transgenic tomato plants expressing BoCRP1 exhibited increased tolerance to chilling stress (4 °C) with an overall improved rate of seed germination, increased root length, reduced membrane damage and increased accumulation of osmoprotectants. Furthermore, we observed increased transcript levels of stress responsive genes and enhanced accumulation of reactive oxygen species scavenging enzymes in transgenic plants on exposure to chilling stress. Taken together, these results strongly suggest that BoCRP1 is a promising candidate gene to improve the cold stress tolerance in tomato.
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Affiliation(s)
- Umer Majeed Wani
- grid.412997.00000 0001 2294 5433Plant Molecular Biology Lab, Department of Botany, University of Kashmir, Srinagar, Kashmir 190 006 India ,grid.412997.00000 0001 2294 5433Department of Biotechnology, University of Kashmir, Srinagar, India
| | - Sheikh Tahir Majeed
- grid.412997.00000 0001 2294 5433Department of Biotechnology, University of Kashmir, Srinagar, India
| | - Vaseem Raja
- grid.412997.00000 0001 2294 5433Plant Molecular Biology Lab, Department of Botany, University of Kashmir, Srinagar, Kashmir 190 006 India
| | - Zubair Ahmad Wani
- grid.412997.00000 0001 2294 5433Department of Biotechnology, University of Kashmir, Srinagar, India
| | - Nelofer Jan
- grid.412997.00000 0001 2294 5433Plant Molecular Biology Lab, Department of Botany, University of Kashmir, Srinagar, Kashmir 190 006 India
| | - Khursid Iqbal Andrabi
- grid.412997.00000 0001 2294 5433Department of Biotechnology, University of Kashmir, Srinagar, India
| | - Riffat John
- grid.412997.00000 0001 2294 5433Plant Molecular Biology Lab, Department of Botany, University of Kashmir, Srinagar, Kashmir 190 006 India
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Han Z, Shang X, Shao L, Wang Y, Zhu X, Fang W, Ma Y. Meta-analysis of the effect of expression of MYB transcription factor genes on abiotic stress. PeerJ 2021; 9:e11268. [PMID: 34164229 PMCID: PMC8194419 DOI: 10.7717/peerj.11268] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Accepted: 03/23/2021] [Indexed: 01/06/2023] Open
Abstract
Background MYB proteins are a large group of transcription factors. The overexpression of MYB genes has been reported to improve abiotic stress tolerance in plant. However, due to the variety of plant species studied and the types of gene donors/recipients, along with different experimental conditions, it is difficult to interpret the roles of MYB in abiotic stress tolerance from published data. Methods Using meta-analysis approach, we investigated the plant characteristics involved in cold, drought, and salt stress in MYB-overexpressing plants and analyzed the degrees of influence on plant performance by experimental variables. Results The results show that two of the four measured plant parameters in cold-stressed plants, two of the six in drought-stressed, and four of the 13 in salt-stressed were significantly impacted by MYB overexpression by 22% or more, and the treatment medium, donor/recipient species, and donor type significantly influence the effects of MYB-overexpression on drought stress tolerance. Also, the donor/recipient species, donor type, and stress duration all significantly affected the extent of MYB-mediated salt stress tolerance. In summary, this study compiles and analyzes the data across studies to help us understand the complex interactions that dictate the efficacy of heterologous MYB expression designed for improved abiotic stress tolerance in plants.
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Affiliation(s)
- Zhaolan Han
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Xiaowen Shang
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Lingxia Shao
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Ya Wang
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Xujun Zhu
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Wanping Fang
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
| | - Yuanchun Ma
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu, China
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Li F, Lu X, Duan P, Liang Y, Cui J. Integrating transcriptome and metabolome analyses of the response to cold stress in pumpkin (Cucurbita maxima). PLoS One 2021; 16:e0249108. [PMID: 33956796 PMCID: PMC8101736 DOI: 10.1371/journal.pone.0249108] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Accepted: 03/11/2021] [Indexed: 12/14/2022] Open
Abstract
Cucurbita maxima belong to the genus Cucurbita and are of nutritional and economic importance. Physiological activity, transcriptome, and metabolome analyses of leaf samples from the C. maxima inbreding line IL7 treated at 5 °C and 25 °C were performed. Cold stress resulted in a significant increase in the malondialdehyde content, relative electrical conductivity, soluble protein, sugar content, and catalase activity. A total of 5,553 differentially expressed genes were identified, of which 2,871 were up-regulated and 2,682 down-regulated. In addition, the transcription of differentially expressed genes in the plant hormone signal transduction pathway and transcription factor families of AP2/ERF, bHLH, WRKY, MYB, and HSF was activated. Moreover, 114 differentially expressed metabolites were identified by gas chromatography time-of-flight mass spectrometry, particularly through the analysis of carboxylic acids and derivatives, and organooxygen compounds. The demonstration of a series of potential metabolites and corresponding genes highlighted a comprehensive regulatory mechanism. These findings will provide novel insights into the molecular mechanisms associated with the response to cold stress in C. maxima.
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Affiliation(s)
- Fengmei Li
- Shandong Provincial Key Laboratory of Biochemical Engineering, College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao, Shandong, China
| | - Xiuping Lu
- Shandong Provincial Key Laboratory of Biochemical Engineering, College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao, Shandong, China
| | - Pengfei Duan
- Shandong Provincial Key Laboratory of Biochemical Engineering, College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao, Shandong, China
| | - Yanjiao Liang
- Shandong Provincial Key Laboratory of Biochemical Engineering, College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao, Shandong, China
| | - Jian Cui
- Qingdao Institute of Agricultural Science Research, Qingdao, Shandong, China
- * E-mail:
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12
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Longo C, Holness S, De Angelis V, Lepri A, Occhigrossi S, Ruta V, Vittorioso P. From the Outside to the Inside: New Insights on the Main Factors That Guide Seed Dormancy and Germination. Genes (Basel) 2020; 12:genes12010052. [PMID: 33396410 PMCID: PMC7824603 DOI: 10.3390/genes12010052] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2020] [Revised: 12/28/2020] [Accepted: 12/29/2020] [Indexed: 12/11/2022] Open
Abstract
The transition from a dormant to a germinating seed represents a crucial developmental switch in the life cycle of a plant. Subsequent transition from a germinating seed to an autotrophic organism also requires a robust and multi-layered control. Seed germination and seedling growth are multistep processes, involving both internal and external signals, which lead to a fine-tuning control network. In recent years, numerous studies have contributed to elucidate the molecular mechanisms underlying these processes: from light signaling and light-hormone crosstalk to the effects of abiotic stresses, from epigenetic regulation to translational control. However, there are still many open questions and molecular elements to be identified. This review will focus on the different aspects of the molecular control of seed dormancy and germination, pointing out new molecular elements and how these integrate in the signaling pathways already known.
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