1
|
Gan J, Qiu Y, Tao Y, Zhang L, Okita TW, Yan Y, Tian L. RNA-seq analysis reveals transcriptome reprogramming and alternative splicing during early response to salt stress in tomato root. FRONTIERS IN PLANT SCIENCE 2024; 15:1394223. [PMID: 38966147 PMCID: PMC11222332 DOI: 10.3389/fpls.2024.1394223] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/01/2024] [Accepted: 05/30/2024] [Indexed: 07/06/2024]
Abstract
Salt stress is one of the dominant abiotic stress conditions that cause severe damage to plant growth and, in turn, limiting crop productivity. It is therefore crucial to understand the molecular mechanism underlying plant root responses to high salinity as such knowledge will aid in efforts to develop salt-tolerant crops. Alternative splicing (AS) of precursor RNA is one of the important RNA processing steps that regulate gene expression and proteome diversity, and, consequently, many physiological and biochemical processes in plants, including responses to abiotic stresses like salt stress. In the current study, we utilized high-throughput RNA-sequencing to analyze the changes in the transcriptome and characterize AS landscape during the early response of tomato root to salt stress. Under salt stress conditions, 10,588 genes were found to be differentially expressed, including those involved in hormone signaling transduction, amino acid metabolism, and cell cycle regulation. More than 700 transcription factors (TFs), including members of the MYB, bHLH, and WRKY families, potentially regulated tomato root response to salt stress. AS events were found to be greatly enhanced under salt stress, where exon skipping was the most prevalent event. There were 3709 genes identified as differentially alternatively spliced (DAS), the most prominent of which were serine/threonine protein kinase, pentatricopeptide repeat (PPR)-containing protein, E3 ubiquitin-protein ligase. More than 100 DEGs were implicated in splicing and spliceosome assembly, which may regulate salt-responsive AS events in tomato roots. This study uncovers the stimulation of AS during tomato root response to salt stress and provides a valuable resource of salt-responsive genes for future studies to improve tomato salt tolerance.
Collapse
Affiliation(s)
- Jianghuang Gan
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| | - Yongqi Qiu
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| | - Yilin Tao
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| | - Laining Zhang
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| | - Thomas W. Okita
- Institute of Biological Chemistry, Washington State University, Pullman, WA, United States
| | - Yanyan Yan
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| | - Li Tian
- Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
- Key Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, China
| |
Collapse
|
2
|
Hao X, He S. Genome-wide identification, classification and expression analysis of the heat shock transcription factor family in Garlic (Allium sativum L.). BMC PLANT BIOLOGY 2024; 24:421. [PMID: 38760734 PMCID: PMC11102281 DOI: 10.1186/s12870-024-05018-3] [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: 04/15/2023] [Accepted: 04/12/2024] [Indexed: 05/19/2024]
Abstract
BACKGROUND The heat shock transcription factor (HSF) plays a crucial role in the regulatory network by coordinating responses to heat stress as well as other stress signaling pathways. Despite extensive studies on HSF functions in various plant species, our understanding of this gene family in garlic, an important crop with nutritional and medicinal value, remains limited. In this study, we conducted a comprehensive investigation of the entire garlic genome to elucidate the characteristics of the AsHSF gene family. RESULTS In this study, we identified a total of 17 AsHSF transcription factors. Phylogenetic analysis classified these transcription factors into three subfamilies: Class A (9 members), Class B (6 members), and Class C (2 members). Each subfamily was characterized by shared gene structures and conserved motifs. The evolutionary features of the AsHSF genes were investigated through a comprehensive analysis of chromosome location, conserved protein motifs, and gene duplication events. These findings suggested that the evolution of AsHSF genes is likely driven by both tandem and segmental duplication events. Moreover, the nucleotide diversity of the AsHSF genes decreased by only 0.0002% from wild garlic to local garlic, indicating a slight genetic bottleneck experienced by this gene family during domestication. Furthermore, the analysis of cis-acting elements in the promoters of AsHSF genes indicated their crucial roles in plant growth, development, and stress responses. qRT-PCR analysis, co-expression analysis, and protein interaction prediction collectively highlighted the significance of Asa6G04911. Subsequent experimental investigations using yeast two-hybridization and yeast induction experiments confirmed its interaction with HSP70/90, reinforcing its significance in heat stress. CONCLUSIONS This study is the first to unravel and analyze the AsHSF genes in garlic, thereby opening up new avenues for understanding their functions. The insights gained from this research provide a valuable resource for future investigations, particularly in the functional analysis of AsHSF genes.
Collapse
Affiliation(s)
- Xiaomeng Hao
- Institute of Neurobiology, Jining Medical University, Jining, China
| | - Shutao He
- Institute of Biotechnology and Health, Beijing Academy of Science and Technology, Beijing, China.
| |
Collapse
|
3
|
Wang N, Shu X, Zhang F, Song G, Wang Z. Characterization of the Heat Shock Transcription Factor Family in Lycoris radiata and Its Potential Roles in Response to Abiotic Stresses. PLANTS (BASEL, SWITZERLAND) 2024; 13:271. [PMID: 38256823 PMCID: PMC10819275 DOI: 10.3390/plants13020271] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 12/26/2023] [Accepted: 01/14/2024] [Indexed: 01/24/2024]
Abstract
Heat shock transcription factors (HSFs) are an essential plant-specific transcription factor family that regulates the developmental and growth stages of plants, their signal transduction, and their response to different abiotic and biotic stresses. The HSF gene family has been characterized and systematically observed in various species; however, research on its association with Lycoris radiata is limited. This study identified 22 HSF genes (LrHSFs) in the transcriptome-sequencing data of L. radiata and categorized them into three classes including HSFA, HSFB, and HSFC, comprising 10, 8, and 4 genes, respectively. This research comprises basic bioinformatics analyses, such as protein sequence length, molecular weight, and the identification of its conserved motifs. According to the subcellular localization assessment, most LrHSFs were present in the nucleus. Furthermore, the LrHSF gene expression in various tissues, flower developmental stages, two hormones stress, and under four different abiotic stresses were characterized. The data indicated that LrHSF genes, especially LrHSF5, were essentially involved in L. radiata development and its response to different abiotic and hormone stresses. The gene-gene interaction network analysis revealed the presence of synergistic effects between various LrHSF genes' responses against abiotic stresses. In conclusion, these results provided crucial data for further functional analyses of LrHSF genes, which could help successful molecular breeding in L. radiata.
Collapse
Affiliation(s)
- Ning Wang
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Nanjing 210014, China; (N.W.); (X.S.); (F.Z.); (G.S.)
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Jiangsu Provincial Platform for Conservation and Utilization of Agricultural Germplasm, Nanjing 210014, China
| | - Xiaochun Shu
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Nanjing 210014, China; (N.W.); (X.S.); (F.Z.); (G.S.)
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Jiangsu Provincial Platform for Conservation and Utilization of Agricultural Germplasm, Nanjing 210014, China
| | - Fengjiao Zhang
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Nanjing 210014, China; (N.W.); (X.S.); (F.Z.); (G.S.)
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Jiangsu Provincial Platform for Conservation and Utilization of Agricultural Germplasm, Nanjing 210014, China
| | - Guowei Song
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Nanjing 210014, China; (N.W.); (X.S.); (F.Z.); (G.S.)
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Jiangsu Provincial Platform for Conservation and Utilization of Agricultural Germplasm, Nanjing 210014, China
| | - Zhong Wang
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences (Nanjing Botanical Garden Mem. Sun Yat-Sen), Nanjing 210014, China; (N.W.); (X.S.); (F.Z.); (G.S.)
- Jiangsu Key Laboratory for the Research and Utilization of Plant Resources, Jiangsu Provincial Platform for Conservation and Utilization of Agricultural Germplasm, Nanjing 210014, China
| |
Collapse
|
4
|
Zheng R, Chen J, Peng Y, Zhu X, Niu M, Chen X, Xie K, Huang R, Zhan S, Su Q, Shen M, Peng D, Ahmad S, Zhao K, Liu ZJ, Zhou Y. General Analysis of Heat Shock Factors in the Cymbidium ensifolium Genome Provided Insights into Their Evolution and Special Roles with Response to Temperature. Int J Mol Sci 2024; 25:1002. [PMID: 38256078 PMCID: PMC10815800 DOI: 10.3390/ijms25021002] [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: 11/27/2023] [Revised: 12/27/2023] [Accepted: 01/08/2024] [Indexed: 01/24/2024] Open
Abstract
Heat shock factors (HSFs) are the key regulators of heat stress responses and play pivotal roles in tissue development and the temperature-induced regulation of secondary metabolites. In order to elucidate the roles of HSFs in Cymbidium ensifolium, we conducted a genome-wide identification of CeHSF genes and predicted their functions based on their structural features and splicing patterns. Our results revealed 22 HSF family members, with each gene containing more than one intron. According to phylogenetic analysis, 59.1% of HSFs were grouped into the A subfamily, while subfamily HSFC contained only two HSFs. And the HSF gene families were differentiated evolutionarily between plant species. Two tandem repeats were found on Chr02, and two segmental duplication pairs were observed on Chr12, Chr17, and Chr19; this provided evidence for whole-genome duplication (WGD) events in C. ensifolium. The core region of the promoter in most CeHSF genes contained cis-acting elements such as AP2/ERF and bHLH, which were associated with plant growth, development, and stress responses. Except for CeHSF11, 14, and 19, each of the remaining CeHSFs contained at least one miRNA binding site. This included binding sites for miR156, miR393, and miR319, which were responsive to temperature and other stresses. The HSF gene family exhibited significant tissue specificity in both vegetative and floral organs of C. ensifolium. CeHSF13 and CeHSF15 showed relatively significant expression in flowers compared to other genes. During flower development, CeHSF15 exhibited markedly elevated expression in the early stages of flower opening, implicating critical regulatory functions in organ development and floral scent-related regulations. During the poikilothermic treatment, CeHSF14 was upregulated over 200-fold after 6 h of heat treatment. CeHSF13 and CeHSF14 showed the highest expression at 6 h of low temperature, while the expression of CeHSF15 and CeHSF21 continuously decreased at a low temperature. The expression patterns of CeHSFs further confirmed their role in responding to temperature stress. Our study may help reveal the important roles of HSFs in plant development and metabolic regulation and show insight for the further molecular design breeding of C. ensifolium.
Collapse
Affiliation(s)
- Ruiyue Zheng
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Jiemin Chen
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Yukun Peng
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Xuanyi Zhu
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Muqi Niu
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Xiuming Chen
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Kai Xie
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Ruiliu Huang
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Suying Zhan
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Qiuli Su
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Mingli Shen
- College of Life Sciences, Fujian Normal University, Fuzhou 350117, China; (M.S.); (K.Z.)
| | - Donghui Peng
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Sagheer Ahmad
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Kai Zhao
- College of Life Sciences, Fujian Normal University, Fuzhou 350117, China; (M.S.); (K.Z.)
| | - Zhong-Jian Liu
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| | - Yuzhen Zhou
- Ornamental Plant Germplasm Resources Innovation & Engineering Application Research Center, Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization, College of Landscape Architecture and Art, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (R.Z.); (J.C.); (Y.P.); (X.Z.); (M.N.); (X.C.); (K.X.); (R.H.); (S.Z.); (Q.S.); (D.P.); (S.A.)
| |
Collapse
|
5
|
Ma Z, Zhao B, Zhang H, Duan S, Liu Z, Guo X, Meng X, Li G. Upregulation of Wheat Heat Shock Transcription Factor TaHsfC3-4 by ABA Contributes to Drought Tolerance. Int J Mol Sci 2024; 25:977. [PMID: 38256051 PMCID: PMC10816066 DOI: 10.3390/ijms25020977] [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: 11/30/2023] [Revised: 01/04/2024] [Accepted: 01/10/2024] [Indexed: 01/24/2024] Open
Abstract
Drought stress can seriously affect the yield and quality of wheat (Triticum aestivum). So far, although few wheat heat shock transcription factors (Hsfs) have been found to be involved in the stress response, the biological functions of them, especially the members of the HsfC (heat shock transcription factor C) subclass, remain largely unknown. Here, we identified a class C encoding gene, TaHsfC3-4, based on our previous omics data and analyzed its biological function in transgenic plants. TaHsfC3-4 encodes a protein containing 274 amino acids and shows the basic characteristics of the HsfC class. Gene expression profiles revealed that TaHsfC3-4 was constitutively expressed in many tissues of wheat and was induced during seed maturation. TaHsfC3-4 could be upregulated by PEG and abscisic acid (ABA), suggesting that this Hsf may be involved in the regulation pathway depending on ABA in drought resistance. Further results represented that TaHsfC3-4 was localized in the nucleus but had no transcriptional activation activity. Notably, overexpression of TaHsfC3-4 in Arabidopsis thaliana pyr1pyl1pyl2pyl4 (pyr1pyl124) quadruple mutant plants complemented the ABA-hyposensitive phenotypes of the quadruple mutant including cotyledon greening, root elongation, seedling growth, and increased tolerance to drought, indicating positive roles of TaHsfC3-4 in the ABA signaling pathway and drought tolerance. Furthermore, we identified TaHsfA2-11 as a TaHsfC3-4-interacting protein by yeast two-hybrid (Y2H) screening. The experimental data show that TaHsfC3-4 can indeed interact with TaHsfA2-11 in vitro and in vivo. Moreover, transgenic Arabidopsis TaHsfA2-11 overexpression lines exhibited enhanced drought tolerance, too. In summary, our study confirmed the role of TaHsfC3-4 in response to drought stress and provided a target locus for marker-assisted selection breeding to improve drought tolerance in wheat.
Collapse
Affiliation(s)
- Zhenyu Ma
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| | - Baihui Zhao
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
- College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, China
| | - Huaning Zhang
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| | - Shuonan Duan
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| | - Zihui Liu
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| | - Xiulin Guo
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| | - Xiangzhao Meng
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| | - Guoliang Li
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Hebei Key Laboratory of Plant Genetic Engineering, Shijiazhuang 050051, China; (Z.M.); (B.Z.); (H.Z.); (S.D.); (Z.L.); (X.G.)
| |
Collapse
|
6
|
Barratt LJ, Franco Ortega S, Harper AL. Identification of candidate regulators of the response to early heat stress in climate-adapted wheat landraces via transcriptomic and co-expression network analyses. FRONTIERS IN PLANT SCIENCE 2024; 14:1252885. [PMID: 38235195 PMCID: PMC10791870 DOI: 10.3389/fpls.2023.1252885] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/04/2023] [Accepted: 11/29/2023] [Indexed: 01/19/2024]
Abstract
Introduction Climate change is likely to lead to not only increased global temperatures but also a more variable climate where unseasonal periods of heat stress are more prevalent. This has been evidenced by the observation of spring-time temperatures approaching 40°C in some of the main spring-wheat producing countries, such as the USA, in recent years. With an optimum growth temperature of around 20°C, wheat is particularly prone to damage by heat stress. A warming climate with increasingly common fluctuations in temperature therefore threatens wheat crops and subsequently the lives and livelihoods of billions of people who depend on the crop for food. To futureproof wheat against a variable climate, a better understanding of the response to early heat stress is required. Methods Here, we utilised DESeq2 to identify 7,827 genes which were differentially expressed in wheat landraces after early heat stress exposure. Candidate hub genes, which may regulate the transcriptional response to early heat stress, were identified via weighted gene co-expression network analysis (WGCNA), and validated by qRT-PCR. Results Two of the most promising candidate hub genes (TraesCS3B02G409300 and TraesCS1B02G384900) may downregulate the expression of genes involved in the drought, salinity, and cold responses-genes which are unlikely to be required under heat stress-as well as photosynthesis genes and stress hormone signalling repressors, respectively. We also suggest a role for a poorly characterised sHSP hub gene (TraesCS4D02G212300), as an activator of the heat stress response, potentially inducing the expression of a vast suite of heat shock proteins and transcription factors known to play key roles in the heat stress response. Discussion The present work represents an exploratory examination of the heat-induced transcriptional change in wheat landrace seedlings and identifies several candidate hub genes which may act as regulators of this response and, thus, may be targets for breeders in the production of thermotolerant wheat varieties.
Collapse
Affiliation(s)
| | | | - Andrea L. Harper
- Centre for Novel Agricultural Products (CNAP), Department of Biology, University of York, York, United Kingdom
| |
Collapse
|
7
|
Xu Y, Jin Y, He D, Di H, Liang Y, Xu Y. A Genome-Wide Analysis and Expression Profile of Heat Shock Transcription Factor (Hsf) Gene Family in Rhododendron simsii. PLANTS (BASEL, SWITZERLAND) 2023; 12:3917. [PMID: 38005814 PMCID: PMC10674592 DOI: 10.3390/plants12223917] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2023] [Revised: 11/01/2023] [Accepted: 11/16/2023] [Indexed: 11/26/2023]
Abstract
Heat shock transcription factors are key players in a number of transcriptional regulatory pathways that function during plant growth and development. However, their mode of action in Rhododendron simsii is still unclear. In this study, 22 RsHsf genes were identified from genomic data of R. simsii. The 22 genes were randomly distributed on 12 chromosomes, and were divided into three major groups according to their phylogenetic relationships. The structures and conserved motifs were predicted for the 22 genes. Analysis of cis-acting elements revealed stress-responsive and phytohormone-responsive elements in the gene promoter regions, but the types and number varied among the different groups of genes. Transcriptional profile analyses revealed that RsHsfs were expressed in a tissue-specific manner, with particularly high transcript levels in the roots. The transcriptional profiles under abiotic stress were detected by qRT-PCR, and the results further validated the critical function of RsHsfs. This study provides basic information about RsHsf family in R. simsii, and paves the way for further research to clarify their precise roles and to breed new stress-tolerant varieties.
Collapse
Affiliation(s)
- Yanan Xu
- Jiyang College, Zhejiang A&F University, Zhuji 311800, China; (Y.X.); (H.D.); (Y.L.)
- College of Advanced Agricultural Sciences, Zhejiang A&F University, Hangzhou 311300, China
| | - Ying Jin
- Zhuji Economic Specialty Station, Zhuji 311800, China; (Y.J.); (D.H.)
| | - Dan He
- Zhuji Economic Specialty Station, Zhuji 311800, China; (Y.J.); (D.H.)
| | - Haochen Di
- Jiyang College, Zhejiang A&F University, Zhuji 311800, China; (Y.X.); (H.D.); (Y.L.)
| | - Ying Liang
- Jiyang College, Zhejiang A&F University, Zhuji 311800, China; (Y.X.); (H.D.); (Y.L.)
| | - Yanxia Xu
- Jiyang College, Zhejiang A&F University, Zhuji 311800, China; (Y.X.); (H.D.); (Y.L.)
- Zhuji Economic Specialty Station, Zhuji 311800, China; (Y.J.); (D.H.)
| |
Collapse
|
8
|
Ling C, Liu Y, Yang Z, Xu J, Ouyang Z, Yang J, Wang S. Genome-Wide Identification of HSF Gene Family in Kiwifruit and the Function of AeHSFA2b in Salt Tolerance. Int J Mol Sci 2023; 24:15638. [PMID: 37958622 PMCID: PMC10649126 DOI: 10.3390/ijms242115638] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 10/19/2023] [Accepted: 10/24/2023] [Indexed: 11/15/2023] Open
Abstract
Heat shock transcription factors (HSFs) play a crucial role in regulating plant growth and response to various abiotic stresses. In this study, we conducted a comprehensive analysis of the AeHSF gene family at genome-wide level in kiwifruit (Actinidia eriantha), focusing on their functions in the response to abiotic stresses. A total of 41 AeHSF genes were identified and categorized into three primary groups, namely, HSFA, HSFB, and HSFC. Further transcriptome analysis revealed that the expression of AeHSFA2b/2c and AeHSFB1c/1d/2c/3b was strongly induced by salt, which was confirmed by qRT-PCR assays. The overexpression of AeHSFA2b in Arabidopsis significantly improved the tolerance to salt stress by increasing AtRS5, AtGolS1 and AtGolS2 expression. Furthermore, yeast one-hybrid, dual-luciferase, and electrophoretic mobility shift assays demonstrated that AeHSFA2b could bind to the AeRFS4 promoter directly. Therefore, we speculated that AeHSFA2b may activate AeRFS4 expression by directly binding its promoter to enhance the kiwifruit's tolerance to salt stress. These results will provide a new insight into the evolutionary and functional mechanisms of AeHSF genes in kiwifruit.
Collapse
Affiliation(s)
| | | | | | | | | | - Jun Yang
- Anhui Province Key Laboratory of Horticultural Crop Quality Biology, School of Horticulture, Anhui Agriculture University, Hefei 230036, China
| | - Songhu Wang
- Anhui Province Key Laboratory of Horticultural Crop Quality Biology, School of Horticulture, Anhui Agriculture University, Hefei 230036, China
| |
Collapse
|
9
|
Wang H, Feng M, Jiang Y, Du D, Dong C, Zhang Z, Wang W, Liu J, Liu X, Li S, Chen Y, Guo W, Xin M, Yao Y, Ni Z, Sun Q, Peng H, Liu J. Thermosensitive SUMOylation of TaHsfA1 defines a dynamic ON/OFF molecular switch for the heat stress response in wheat. THE PLANT CELL 2023; 35:3889-3910. [PMID: 37399070 PMCID: PMC10533334 DOI: 10.1093/plcell/koad192] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Revised: 06/01/2023] [Accepted: 06/12/2023] [Indexed: 07/05/2023]
Abstract
Dissecting genetic components in crop plants associated with heat stress (HS) sensing and adaptation will facilitate the design of modern crop varieties with improved thermotolerance. However, the molecular mechanisms underlying the ON/OFF switch controlling HS responses (HSRs) in wheat (Triticum aestivum) remain largely unknown. In this study, we focused on the molecular action of TaHsfA1, a class A heat shock transcription factor, in sensing dynamically changing HS signals and regulating HSRs. We show that the TaHsfA1 protein is modified by small ubiquitin-related modifier (SUMO) and that this modification is essential for the full transcriptional activation activity of TaHsfA1 in triggering downstream gene expression. During sustained heat exposure, the SUMOylation of TaHsfA1 is suppressed, which partially reduces TaHsfA1 protein activity, thereby reducing the intensity of downstream HSRs. In addition, we demonstrate that TaHsfA1 interacts with the histone acetyltransferase TaHAG1 in a thermosensitive manner. Together, our findings emphasize the importance of TaHsfA1 in thermotolerance in wheat. In addition, they define a highly dynamic SUMOylation-dependent "ON/OFF" molecular switch that senses temperature signals and contributes to thermotolerance in crops.
Collapse
Affiliation(s)
- Haoran Wang
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Man Feng
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Yujie Jiang
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Dejie Du
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Chaoqun Dong
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Zhaoheng Zhang
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Wenxi Wang
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Jing Liu
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Xiangqing Liu
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Sufang Li
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Yongming Chen
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Weilong Guo
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Mingming Xin
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Yingyin Yao
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Zhongfu Ni
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Qixin Sun
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Huiru Peng
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Jie Liu
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), Beijing Key Laboratory of Crop Genetic Improvement, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| |
Collapse
|
10
|
Ren Y, Ma R, Xie M, Fan Y, Feng L, Chen L, Yang H, Wei X, Wang X, Liu K, Cheng P, Wang B. Genome-wide identification, phylogenetic and expression pattern analysis of HSF family genes in the Rye (Secale cereale L.). BMC PLANT BIOLOGY 2023; 23:441. [PMID: 37726665 PMCID: PMC10510194 DOI: 10.1186/s12870-023-04418-1] [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: 02/23/2023] [Accepted: 08/24/2023] [Indexed: 09/21/2023]
Abstract
BACKGROUND Heat shock factor (HSF), a typical class of transcription factors in plants, has played an essential role in plant growth and developmental stages, signal transduction, and response to biotic and abiotic stresses. The HSF genes families has been identified and characterized in many species through leveraging whole genome sequencing (WGS). However, the identification and systematic analysis of HSF family genes in Rye is limited. RESULTS In this study, 31 HSF genes were identified in Rye, which were unevenly distributed on seven chromosomes. Based on the homology of A. thaliana, we analyzed the number of conserved domains and gene structures of ScHSF genes that were classified into seven subfamilies. To better understand the developmental mechanisms of ScHSF family during evolution, we selected one monocotyledon (Arabidopsis thaliana) and five (Triticum aestivum L., Hordeum vulgare L., Oryza sativa L., Zea mays L., and Aegilops tauschii Coss.) specific representative dicotyledons associated with Rye for comparative homology mapping. The results showed that fragment replication events modulated the expansion of the ScHSF genes family. In addition, interactions between ScHSF proteins and promoters containing hormone- and stress-responsive cis-acting elements suggest that the regulation of ScHSF expression was complex. A total of 15 representative genes were targeted from seven subfamilies to characterize their gene expression responses in different tissues, fruit developmental stages, three hormones, and six different abiotic stresses. CONCLUSIONS This study demonstrated that ScHSF genes, especially ScHSF1 and ScHSF3, played a key role in Rye development and its response to various hormones and abiotic stresses. These results provided new insights into the evolution of HSF genes in Rye, which could help the success of molecular breeding in Rye.
Collapse
Affiliation(s)
- Yanyan Ren
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China
| | - Rui Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China
| | - Muhua Xie
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China
| | - Yue Fan
- College of Food Science and Engineering, Xinjiang Institute of Technology, Aksu, 843100, People's Republic of China
| | - Liang Feng
- Chengdu Institute of Food Inspection, Chengdu, 610000, People's Republic of China
| | - Long Chen
- Tianfu New Area General Aviation Profession Academy, Meishan, 620564, China
| | - Hao Yang
- Agricultural Service Center of Langde Town of Leishan County, Qiandongnan Miao and Dong Autonomous Prefecture, 556019, China
| | - Xiaobao Wei
- Guizhou Provincial Center For Disease Control And Prevention, Guiyang, 550025, People's Republic of China
| | - Xintong Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China
| | - Kouhan Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China
| | - Peng Cheng
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China.
| | - Baotong Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, People's Republic of China.
| |
Collapse
|
11
|
Jiang D, Xia M, Xing H, Gong M, Jiang Y, Liu H, Li HL. Exploring the Heat Shock Transcription Factor ( HSF) Gene Family in Ginger: A Genome-Wide Investigation on Evolution, Expression Profiling, and Response to Developmental and Abiotic Stresses. PLANTS (BASEL, SWITZERLAND) 2023; 12:2999. [PMID: 37631210 PMCID: PMC10459109 DOI: 10.3390/plants12162999] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 08/11/2023] [Accepted: 08/18/2023] [Indexed: 08/27/2023]
Abstract
Ginger is a valuable crop known for its nutritional, seasoning, and health benefits. However, abiotic stresses, such as high temperature and drought, can adversely affect its growth and development. Heat shock transcription factors (HSFs) have been recognized as crucial elements for enhancing heat and drought resistance in plants. Nevertheless, no previous study has investigated the HSF gene family in ginger. In this research, a total of 25 ZoHSF members were identified in the ginger genome, which were unevenly distributed across ten chromosomes. The ZoHSF members were divided into three groups (HSFA, HSFB, and HSFC) based on their gene structure, protein motifs, and phylogenetic relationships with Arabidopsis. Interestingly, we found more collinear gene pairs between ZoHSF and HSF genes from monocots, such as rice, wheat, and banana, than dicots like Arabidopsis thaliana. Additionally, we identified 12 ZoHSF genes that likely arose from duplication events. Promoter analysis revealed that the hormone response elements (MEJA-responsiveness and abscisic acid responsiveness) were dominant among the various cis-elements related to the abiotic stress response in ZoHSF promoters. Expression pattern analysis confirmed differential expression of ZoHSF members across different tissues, with most showing responsiveness to heat and drought stress. This study lays the foundation for further investigations into the functional role of ZoHSFs in regulating abiotic stress responses in ginger.
Collapse
Affiliation(s)
- Dongzhu Jiang
- College of Landscape Architecture and Life Science, Chongqing University of Arts and Sciences, Chongqing 402160, China; (D.J.); (M.X.); (H.X.); (Y.J.)
- College of Horticulture and Gardening, Yangtze University, Jingzhou 433200, China
| | - Maoqin Xia
- College of Landscape Architecture and Life Science, Chongqing University of Arts and Sciences, Chongqing 402160, China; (D.J.); (M.X.); (H.X.); (Y.J.)
| | - Haitao Xing
- College of Landscape Architecture and Life Science, Chongqing University of Arts and Sciences, Chongqing 402160, China; (D.J.); (M.X.); (H.X.); (Y.J.)
| | - Min Gong
- College of Biology and Food Engineering, Chongqing Three Gorges University, Chongqing 404100, China;
| | - Yajun Jiang
- College of Landscape Architecture and Life Science, Chongqing University of Arts and Sciences, Chongqing 402160, China; (D.J.); (M.X.); (H.X.); (Y.J.)
| | - Huanfang Liu
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China;
| | - Hong-Lei Li
- College of Landscape Architecture and Life Science, Chongqing University of Arts and Sciences, Chongqing 402160, China; (D.J.); (M.X.); (H.X.); (Y.J.)
| |
Collapse
|
12
|
Su Y, Zhang M, Guo Q, Wei M, Shi H, Wang T, Han Z, Liu H, Liu C, Huang J. Classification of Isatis indigotica Fortune and Isatis tinctoria Linnaeus via comparative analysis of chloroplast genomes. BMC Genomics 2023; 24:465. [PMID: 37596543 PMCID: PMC10436401 DOI: 10.1186/s12864-023-09534-8] [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: 11/11/2022] [Accepted: 07/26/2023] [Indexed: 08/20/2023] Open
Abstract
BACKGROUND Isatis tinctoria Linnaeus and Isatis indigotica Fortune are very inconsistent in their morphological characteristics, but the Flora of China treats them as the same species. In this work, a new technology that differs from conventional barcodes is developed to prove that they are different species and to clarify their classification. RESULTS AND METHODS I. indigotica was indistinguishable from I. tinctoria when using ITS2. CPGAVAS2 was used to construct the chloroplast genomes. MAFFT and DnaSP were used to calculate nucleotide polymorphism, the chloroplast genomes of the two have high diversity in the rpl32 ~ trnL-UAG short region. When using this region as a mini barcode, it was found that there are obvious differences in the base numbers of I. tinctoria and different ploidy I. indigotica were found, but diploid and tetraploid I. indigotica had the same number of bases. Moreover, the reconstruction of the maximum likelihood (ML) tree, utilizing the mini-barcode, demonstrated that I. tinctoria and both diploid and tetraploid I. indigotica are located on distinct branches. The genome size of tetraploid I. indigotica was approximately 643.773 MB, the heterozygosity rate was approximately 0.98%, and the repeat sequence content was approximately 90.43%. This species has a highly heterozygous, extremely repetitive genome. CONCLUSION A new method was established to differentiate between I. indigotica and I. tinctoria. Furthermore, this approach provides a reference and basis for the directional breeding of Isatis.
Collapse
Grants
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
- JATS|[2022]461,JATS[2022]291 Jiangsu Modern Agricultural Industrial Technology System Construction Project
Collapse
Affiliation(s)
- Yong Su
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
| | - Man Zhang
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
| | - Qiaosheng Guo
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China.
| | - Min Wei
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
- China Resources Sanjiu Medical & Pharmaceutical Co., Ltd, Shenzhen City, 518000, PR China
| | - Hongzhuan Shi
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
| | - Tao Wang
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
| | - Zhengzhou Han
- China Resources Sanjiu Medical & Pharmaceutical Co., Ltd, Shenzhen City, 518000, PR China
| | - Huihui Liu
- China Resources Sanjiu Medical & Pharmaceutical Co., Ltd, Shenzhen City, 518000, PR China
| | - Chang Liu
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
| | - Jianmin Huang
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing City, 210095, Jiangsu Province, PR China
| |
Collapse
|
13
|
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.
Collapse
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.
| |
Collapse
|
14
|
Liu H, Li X, Zi Y, Zhao G, Zhu L, Hong L, Li M, Wang S, Long R, Kang J, Yang Q, Chen L. Characterization of the Heat Shock Transcription Factor Family in Medicago sativa L. and Its Potential Roles in Response to Abiotic Stresses. Int J Mol Sci 2023; 24:12683. [PMID: 37628861 PMCID: PMC10454044 DOI: 10.3390/ijms241612683] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2023] [Revised: 08/07/2023] [Accepted: 08/08/2023] [Indexed: 08/27/2023] Open
Abstract
Heat shock transcription factors (HSFs) are important regulatory factors in plant stress responses to various biotic and abiotic stresses and play important roles in growth and development. The HSF gene family has been systematically identified and analyzed in many plants but it is not in the tetraploid alfalfa genome. We detected 104 HSF genes (MsHSFs) in the tetraploid alfalfa genome ("Xinjiangdaye" reference genome) and classified them into three subgroups: 68 in HSFA, 35 in HSFB and 1 in HSFC subgroups. Basic bioinformatics analysis, including genome location, protein sequence length, protein molecular weight and conserved motif identification, was conducted. Gene expression analysis revealed tissue-specific expression for 13 MsHSFs and tissue-wide expression for 28 MsHSFs. Based on transcriptomic data analysis, 21, 11 and 27 MsHSFs responded to drought stress, cold stress and salt stress, respectively, with seven responding to all three. According to RT-PCR, MsHSF27/33 expression gradually increased with cold, salt and drought stress condition duration; MsHSF6 expression increased over time under salt and drought stress conditions but decreased under cold stress. Our results provide key information for further functional analysis of MsHSFs and for genetic improvement of stress resistance in alfalfa.
Collapse
Affiliation(s)
- Hao Liu
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
- College of Grassland Science, Qingdao Agricultural University, Qingdao 266109, China
| | - Xianyang Li
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
| | - Yunfei Zi
- Institute of Forage Crop Science, Ordos Academy of Agricultural and Animal Husbandry Sciences, Ordos 017000, China; (Y.Z.); (G.Z.); (L.Z.); (L.H.); (S.W.)
| | - Guoqing Zhao
- Institute of Forage Crop Science, Ordos Academy of Agricultural and Animal Husbandry Sciences, Ordos 017000, China; (Y.Z.); (G.Z.); (L.Z.); (L.H.); (S.W.)
| | - Lihua Zhu
- Institute of Forage Crop Science, Ordos Academy of Agricultural and Animal Husbandry Sciences, Ordos 017000, China; (Y.Z.); (G.Z.); (L.Z.); (L.H.); (S.W.)
| | - Ling Hong
- Institute of Forage Crop Science, Ordos Academy of Agricultural and Animal Husbandry Sciences, Ordos 017000, China; (Y.Z.); (G.Z.); (L.Z.); (L.H.); (S.W.)
| | - Mingna Li
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
| | - Shiqing Wang
- Institute of Forage Crop Science, Ordos Academy of Agricultural and Animal Husbandry Sciences, Ordos 017000, China; (Y.Z.); (G.Z.); (L.Z.); (L.H.); (S.W.)
| | - Ruicai Long
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
| | - Junmei Kang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
| | - Qingchuan Yang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
| | - Lin Chen
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (H.L.); (X.L.); (M.L.); (R.L.); (J.K.); (Q.Y.)
| |
Collapse
|
15
|
Wang Q, Zhang Z, Guo C, Zhao X, Li Z, Mou Y, Sun Q, Wang J, Yuan C, Li C, Cong P, Shan S. Hsf transcription factor gene family in peanut ( Arachis hypogaea L.): genome-wide characterization and expression analysis under drought and salt stresses. FRONTIERS IN PLANT SCIENCE 2023; 14:1214732. [PMID: 37476167 PMCID: PMC10355374 DOI: 10.3389/fpls.2023.1214732] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/30/2023] [Accepted: 06/07/2023] [Indexed: 07/22/2023]
Abstract
Heat shock transcription factors (Hsfs) play important roles in plant developmental regulations and various stress responses. In present study, 46 Hsf genes in peanut (AhHsf) were identified and analyzed. The 46 AhHsf genes were classed into three groups (A, B, and C) and 14 subgroups (A1-A9, B1-B4, and C1) together with their Arabidopsis homologs according to phylogenetic analyses, and 46 AhHsf genes unequally located on 17 chromosomes. Gene structure and protein motif analysis revealed that members from the same subgroup possessed similar exon/intron and motif organization, further supporting the results of phylogenetic analyses. Gene duplication events were found in peanut Hsf gene family via syntenic analysis, which were important in Hsf gene family expansion in peanut. The expression of AhHsf genes were detected in different tissues using published data, implying that AhHsf genes may differ in function. In addition, several AhHsf genes (AhHsf5, AhHsf11, AhHsf20, AhHsf24, AhHsf30, AhHsf35) were induced by drought and salt stresses. Furthermore, the stress-induced member AhHsf20 was found to be located in nucleus. Notably, overexpression of AhHsf20 was able to enhance salt tolerance. These results from this study may provide valuable information for further functional analysis of peanut Hsf genes.
Collapse
Affiliation(s)
- Qi Wang
- Shandong Peanut Research Institute, Qingdao, China
| | - Zhenbiao Zhang
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
| | - Cun Guo
- Kunming Branch of Yunnan Provincial Tobacco Company, Kunming, China
| | - Xiaobo Zhao
- Shandong Peanut Research Institute, Qingdao, China
| | - Zhiyuan Li
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
| | - Yifei Mou
- Shandong Peanut Research Institute, Qingdao, China
| | - Quanxi Sun
- Shandong Peanut Research Institute, Qingdao, China
| | - Juan Wang
- Shandong Peanut Research Institute, Qingdao, China
| | - Cuiling Yuan
- Shandong Peanut Research Institute, Qingdao, China
| | - Chunjuan Li
- Shandong Peanut Research Institute, Qingdao, China
| | - Ping Cong
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
| | - Shihua Shan
- Shandong Peanut Research Institute, Qingdao, China
| |
Collapse
|
16
|
Samtani H, Sharma A, Khurana P. Ectopic overexpression of TaHsfA5 promotes thermomorphogenesis in Arabidopsis thaliana and thermotolerance in Oryza sativa. PLANT MOLECULAR BIOLOGY 2023:10.1007/s11103-023-01355-3. [PMID: 37166615 DOI: 10.1007/s11103-023-01355-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Accepted: 04/16/2023] [Indexed: 05/12/2023]
Abstract
Heat stress transcription factors (Hsfs) play an important role in regulating the heat stress response in plants. Among the Hsf family members, the group A members act upstream in initiating the response upon sensing heat stress and thus, impart thermotolerance to the plants. In the present study, wheat HsfA5 (TaHsfA5) was found to be one of the Hsfs, which was upregulated both in heat stress and during the recovery period after the stress. TaHsfA5 was found to interact with TaHsfA3 and TaHsfA4, both of which are known to positively regulate the heat stress-responsive genes. Apart from these, TaHsfA5 also interacted with TaHSBP2 protein, whose role has been implicated in attenuating the heat stress response. Further, its heterologous overexpression in Arabidopsis and Oryza sativa promoted thermotolerance in these plants. This indicated that TaHsfA5 positively regulated the heat stress response. Interestingly, the TaHsfA5 overexpression Arabidopsis plants when grown at warm temperatures showed a hyper-thermomorphogenic response in comparison to the wild-type plants. This was found to be consistent with the higher expression of PIF4 and its target auxin-responsive genes in these transgenics in contrast to the wild-type plants. Thus, these results suggest the involvement of TaHsfA5 both in the heat stress response as well as in the thermomorphogenic response in plants.
Collapse
Affiliation(s)
- Harsha Samtani
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India
| | - Aishwarye Sharma
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India
| | - Paramjit Khurana
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India.
| |
Collapse
|
17
|
Wei JT, Zhao SP, Zhang HY, Jin LG, Yu TF, Zheng L, Ma J, Chen J, Zhou YB, Chen M, Fu JD, Ma YZ, Xu ZS. GmDof41 regulated by the DREB1-type protein improves drought and salt tolerance by regulating the DREB2-type protein in soybean. Int J Biol Macromol 2023; 230:123255. [PMID: 36639088 DOI: 10.1016/j.ijbiomac.2023.123255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2022] [Accepted: 01/09/2023] [Indexed: 01/12/2023]
Abstract
Despite their essential and multiple roles in biological processes, the molecular mechanism of Dof transcription factors (TFs) for responding to abiotic stresses is rarely reported in plants. We identified a soybean Dof gene GmDof41 which was involved in the responses to drought, salt, and exogenous ABA stresses. Overexpression of GmDof41 in soybean transgenic hairy roots attenuated H2O2 accumulation and regulated proline homeostasis, resulting in the drought and salt tolerance. Yeast one-hybrid and electrophoretic mobility shift assay (EMSA) illustrated that GmDof41 was regulated by the DREB1-type protein GmDREB1B;1 that could improve drought and salt tolerance in plants. Further studies illustrated GmDof41 can directly bind to the promoter of GmDREB2A which encodes a DREB2-type protein and affects abiotic stress tolerance in plants. Collectively, our results suggested that GmDof41 positively regulated drought and salt tolerance by correlating with GmDREB1B;1 and GmDREB2A. This study provides an important basis for further exploring the abiotic stress-tolerance mechanism of Dof TFs in soybean.
Collapse
Affiliation(s)
- Ji-Tong Wei
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Shu-Ping Zhao
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Hui-Yuan Zhang
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Long-Guo Jin
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Tai-Fei Yu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Lei Zheng
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Jian Ma
- College of Agronomy, Jilin Agricultural University, Changchun 130118, China
| | - Jun Chen
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Yong-Bin Zhou
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Ming Chen
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - Jin-Dong Fu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China
| | - You-Zhi Ma
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China; National Nanfan Research Institute (Sanya), Chinese Academy of Agricultural Sciences/Hainan Yazhou Bay Seed Laboratory, Sanya 572024, China
| | - Zhao-Shi Xu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops/Key Laboratory of Quality Evaluation and Nutrition Health of Agro-Products, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China; College of Agronomy, Jilin Agricultural University, Changchun 130118, China; National Nanfan Research Institute (Sanya), Chinese Academy of Agricultural Sciences/Hainan Yazhou Bay Seed Laboratory, Sanya 572024, China.
| |
Collapse
|
18
|
Transcriptome Analysis of Heat Shock Factor C2a Over-Expressing Wheat Roots Reveals Ferroptosis-like Cell Death in Heat Stress Recovery. Int J Mol Sci 2023; 24:ijms24043099. [PMID: 36834507 PMCID: PMC9967677 DOI: 10.3390/ijms24043099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 02/01/2023] [Accepted: 02/02/2023] [Indexed: 02/09/2023] Open
Abstract
Wheat (Triticum aestivum L.) growing areas in many regions of the world are subject to heat waves which are predicted to increase in frequency because of climate change. The engineering of crop plants can be a useful strategy to mitigate heat stress-caused yield losses. Previously, we have shown that heat shock factor subclass C (TaHsfC2a-B)-overexpression significantly increased the survival of heat-stressed wheat seedlings. Although previous studies have shown that the overexpression of Hsf genes enhanced the survival of plants under heat stress, the molecular mechanisms are largely unknown. To understand the underlying molecular mechanisms involved in this response, a comparative analysis of the root transcriptomes of untransformed control and TaHsfC2a-overexpressing wheat lines by RNA-sequencing have been performed. The results of RNA-sequencing indicated that the roots of TaHsfC2a-overexpressing wheat seedlings showed lower transcripts of hydrogen peroxide-producing peroxidases, which corresponds to the reduced accumulation of hydrogen peroxide along the roots. In addition, suites of genes from iron transport and nicotianamine-related gene ontology categories showed lower transcript abundance in the roots of TaHsfC2a-overexpressing wheat roots than in the untransformed control line following heat stress, which are in accordance with the reduction in iron accumulation in the roots of transgenic plants under heat stress. Overall, these results suggested the existence of ferroptosis-like cell death under heat stress in wheat roots, and that TaHsfC2a is a key player in this mechanism. To date, this is the first evidence to show that a Hsf gene plays a key role in ferroptosis under heat stress in plants. In future, the role of Hsf genes could be further studied on ferroptosis in plants to identify root-based marker genes to screen for heat-tolerant genotypes.
Collapse
|
19
|
Yun L, Zhang Y, Li S, Yang J, Wang C, Zheng L, Ji L, Yang J, Song L, Shi Y, Zheng X, Zhang Z, Gao J. Phylogenetic and expression analyses of HSF gene families in wheat ( Triticum aestivum L.) and characterization of TaHSFB4-2B under abiotic stress. FRONTIERS IN PLANT SCIENCE 2023; 13:1047400. [PMID: 36762183 PMCID: PMC9905432 DOI: 10.3389/fpls.2022.1047400] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/18/2022] [Accepted: 12/29/2022] [Indexed: 06/18/2023]
Abstract
The heat shock transcription factors (HSFs) family is widely present in eukaryotes including plants. Recent studies have indicated that HSF is a multifunctional group of genes involved in plant growth and development, as well as response to abiotic stresses. Here we combined the bioinformatic, molecular biology way to dissect the function of Hsf, specifically HsfB4 in wheat under abiotic stresses. In this study, we identified 78 TaHSF genes in wheat (Triticum aestivum) and analyzed their phylogenetic relationship and expression regulation motifs. Next, the expression profiles of TaHSFs and AtHSFs were analyzed in different tissues as well as in response to abiotic stress. Furthermore, to explore the role of HSFB4 in abiotic stress response, we cloned TaHSFB4-2B from the wheat variety, Chinese Spring. Subcellular localization analysis showed that TaHSFB4-2B was localized in the nucleus. In addition, We observed TaHSFB4-2B was highly expressed in the root and stem, its transcription was induced under long-term heat shock, cold, and salinity stress. Additionally, overexpression of TaHSFB4-2B suppressed seed germination and growth in Arabidopsis with salinity and mannitol treatment. It also modulated the expression of stress-responsive genes, including AtHSP17.8, AtHSP17.6A, AtHSP17.6C, CAT2, and SOS1, under both normal and stress conditions. From these finding, we propose that TaHSFB4-2B act as a negative regulator of abiotic stress response in the plant.
Collapse
Affiliation(s)
- Liu Yun
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Yan Zhang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Shi Li
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Jingyu Yang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Changyu Wang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Lanjie Zheng
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Li Ji
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Jiaheng Yang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Linhu Song
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Yong Shi
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Xu Zheng
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
| | - Zhiyong Zhang
- College of Life sciences, Neijiang Normal University, Neijiang, Sichuan, China
| | - Jie Gao
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, China
- College of Life sciences, Neijiang Normal University, Neijiang, Sichuan, China
| |
Collapse
|
20
|
Ma Z, Li M, Zhang H, Zhao B, Liu Z, Duan S, Meng X, Li G, Guo X. Alternative Splicing of TaHsfA2-7 Is Involved in the Improvement of Thermotolerance in Wheat. Int J Mol Sci 2023; 24:ijms24021014. [PMID: 36674529 PMCID: PMC9861123 DOI: 10.3390/ijms24021014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Revised: 12/29/2022] [Accepted: 01/03/2023] [Indexed: 01/06/2023] Open
Abstract
High temperature has severely affected plant growth and development, resulting in reduced production of crops worldwide, especially wheat. Alternative splicing (AS), a crucial post-transcriptional regulatory mechanism, is involved in the growth and development of eukaryotes and the adaptation to environmental changes. Previous transcriptome data suggested that heat shock transcription factor (Hsf) TaHsfA2-7 may form different transcripts by AS. However, it remains unclear whether this post-transcriptional regulatory mechanism of TaHsfA2-7 is related to thermotolerance in wheat (Triticum aestivum). Here, we identified a novel splice variant, TaHsfA2-7-AS, which was induced by high temperature and played a positive role in thermotolerance regulation in wheat. Moreover, TaHsfA2-7-AS is predicted to encode a small truncated TaHsfA2-7 isoform, retaining only part of the DNA-binding domain (DBD). TaHsfA2-7-AS is constitutively expressed in various tissues of wheat. Notably, the expression level of TaHsfA2-7-AS is significantly up-regulated by heat shock (HS) during flowering and grain-filling stages in wheat. Further studies showed that TaHsfA2-7-AS was localized in the nucleus but lacked transcriptional activation activity. Ectopic expression of TaHsfA2-7-AS in yeast exhibited improved thermotolerance. Compared to non-transgenic plants, overexpression of TaHsfA2-7-AS in Arabidopsis results in enhanced tolerance to heat stress. Simultaneously, we also found that TaHsfA1 is directly involved in the transcriptional regulation of TaHsfA2-7 and TaHsfA2-7-AS. In summary, our findings demonstrate the function of TaHsfA2-7-AS splicing variant in response to heat stress and establish a link between regulatory mechanisms of AS and the improvement of thermotolerance in wheat.
Collapse
Affiliation(s)
- Zhenyu Ma
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Mingyue Li
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
- College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, China
| | - Huaning Zhang
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Baihui Zhao
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
- College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, China
| | - Zihui Liu
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Shuonan Duan
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| | - Xiangzhao Meng
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
- Correspondence: (X.M.); (G.L.)
| | - Guoliang Li
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
- Correspondence: (X.M.); (G.L.)
| | - Xiulin Guo
- Institute of Biotechnology and Food Science, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang 050051, China
| |
Collapse
|
21
|
Guo Q, Wei R, Xu M, Yao W, Jiang J, Ma X, Qu G, Jiang T. Genome-wide analysis of HSF family and overexpression of PsnHSF21 confers salt tolerance in Populus simonii × P. nigra. FRONTIERS IN PLANT SCIENCE 2023; 14:1160102. [PMID: 37200984 PMCID: PMC10187788 DOI: 10.3389/fpls.2023.1160102] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/06/2023] [Accepted: 03/28/2023] [Indexed: 05/20/2023]
Abstract
Heat shock transcription factor (HSF) is an important TF that performs a dominant role in plant growth, development, and stress response network. In this study, we identified a total of 30 HSF members from poplar, which are unevenly distributed on 17 chromosomes. The poplar HSF family can be divided into three subfamilies, and the members of the same subfamily share relatively conserved domains and motifs. HSF family members are acidic and hydrophilic proteins that are located in the nucleus and mainly carry out gene expansion through segmental replication. In addition, they have rich collinearity across plant species. Based on RNA-Seq analysis, we explored the expression pattern of PtHSFs under salt stress. Subsequently, we cloned the significantly upregulated PtHSF21 gene and transformed it into Populus simonii × P. nigra. Under salt stress, the transgenic poplar overexpressing PtHSF21 had a better growth state and higher reactive oxygen scavenging ability. A yeast one-hybrid experiment indicated PtHSF21 could improve salt tolerance by specifically binding to the anti-stress cis-acting element HSE. This study comprehensively profiled the fundamental information of poplar HSF family members and their responses to salt stress and specifically verified the biological function of PtHSF21, which provides clues for understanding the molecular mechanism of poplar HSF members in response to salt stress.
Collapse
Affiliation(s)
- Qing Guo
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
- School of Architecture and Civil Engineer, Heilongjiang University of Science and Technology, Harbin, China
| | - Ran Wei
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
| | - Min Xu
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
| | - Wenjing Yao
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
- Co-Innovation Center for Sustainable Forestry in Southern China/Bamboo Research Institute, Nanjing Forestry University, Nanjing, China
| | - Jiahui Jiang
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
| | - Xujun Ma
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
| | - Guanzheng Qu
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
- *Correspondence: Guanzheng Qu, ; Tingbo Jiang,
| | - Tingbo Jiang
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China
- *Correspondence: Guanzheng Qu, ; Tingbo Jiang,
| |
Collapse
|
22
|
Rao X, Cheng N, Mathew IE, Hirschi KD, Nakata PA. Crucial role of Arabidopsis glutaredoxin S17 in heat stress response revealed by transcriptome analysis. FUNCTIONAL PLANT BIOLOGY : FPB 2023; 50:58-70. [PMID: 36099929 DOI: 10.1071/fp22002] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2022] [Accepted: 08/21/2022] [Indexed: 06/15/2023]
Abstract
Heat stress can have detrimental effects on plant growth and development. However, the mechanisms by which the plant is able to perceive changes in ambient temperature, transmit this information, and initiate a temperature-induced response are not fully understood. Previously, we showed that heterologous expression of an Arabidopsis thaliana L. monothiol glutaredoxin AtGRXS17 enhances thermotolerance in various crops, while disruption of AtGRXS17 expression caused hypersensitivity to permissive temperature. In this study, we extend our investigation into the effect of AtGRXS17 and heat stress on plant growth and development. Although atgrxs17 plants were found to exhibit a slight decrease in hypocotyl elongation, shoot meristem development, and root growth compared to wild-type when grown at 22°C, these growth phenotypic differences became more pronounced when growth temperatures were raised to 28°C. Transcriptome analysis revealed significant changes in genome-wide gene expression in atgrxs17 plants compared to wild-type under conditions of heat stress. The expression of genes related to heat stress factors, auxin response, cellular communication, and abiotic stress were altered in atgrxs17 plants in response to heat stress. Overall, our findings indicate that AtGRXS17 plays a critical role in controlling the transcriptional regulation of plant heat stress response pathways.
Collapse
Affiliation(s)
- Xiaolan Rao
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430062, P. R. China
| | - Ninghui Cheng
- USDA/ARS Children's Nutrition Research Center, Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA
| | - Iny E Mathew
- USDA/ARS Children's Nutrition Research Center, Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA
| | - Kendal D Hirschi
- USDA/ARS Children's Nutrition Research Center, Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA
| | - Paul A Nakata
- USDA/ARS Children's Nutrition Research Center, Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA
| |
Collapse
|
23
|
Sun T, Wang W, Hu X, Fang Z, Wang Y, Xiang L, Chan Z. Genome-wide identification of heat shock transcription factor families in perennial ryegrass highlights the role of LpHSFC2b in heat stress response. PHYSIOLOGIA PLANTARUM 2022; 174:e13828. [PMID: 36377141 DOI: 10.1111/ppl.13828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2022] [Revised: 10/27/2022] [Accepted: 11/11/2022] [Indexed: 06/16/2023]
Abstract
Perennial ryegrass (Lolium perenne) is a cool-season turf and forage grass. Heat shock transcription factors (HSFs) play an important role in regulating plant abiotic stress. However, HSFs in perennial ryegrass have rarely been characterized. Here, 25 LpHSFs were identified from the perennial ryegrass genome. Phylogenetic analysis showed that the LpHSFs could be classified into 12 subclasses. Gene structure analysis showed that 22 LpHSFs have only one intron. Cis-acting elements analysis revealed that the promoter of 15 LpHSFs contained hormone-responsive and abiotic stress-responsive elements. Expression profile analysis indicated that 24 LpHSFs were differentially expressed under submerge, drought, heat, and cold stresses. In addition, a subclass C2 gene, LpHSFC2b, was significantly induced by abiotic stresses. The LpHSFC2b protein is localized to the nucleus, and heterologous expression of LpHSFC2b in Arabidopsis improves plant thermotolerance. This study provides insights useful for the breeding of stress tolerance in perennial ryegrass.
Collapse
Affiliation(s)
- Tianxiao Sun
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Weiliang Wang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Xianmei Hu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Zhengfu Fang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Yanping Wang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Lin Xiang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Zhulong Chan
- Key Laboratory of Horticultural Plant Biology, Ministry of Education; College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| |
Collapse
|
24
|
Iqbal MZ, Jia T, Tang T, Anwar M, Ali A, Hassan MJ, Zhang Y, Tang Q, Peng Y. A Heat Shock Transcription Factor TrHSFB2a of White Clover Negatively Regulates Drought, Heat and Salt Stress Tolerance in Transgenic Arabidopsis. Int J Mol Sci 2022; 23:12769. [PMID: 36361560 PMCID: PMC9654841 DOI: 10.3390/ijms232112769] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Revised: 09/19/2022] [Accepted: 10/10/2022] [Indexed: 11/15/2023] Open
Abstract
Heat shock transcription factors (HSF) are divided into classes A, B and C. Class A transcription factors are generally recognized as transcriptional activators, while functional characterization of class B and C heat shock transcription factors have not been fully developed in most plant species. We isolated and characterized a novel HSF transcription factor gene, TrHSFB2a (a class B HSF) gene, from the drought stress-sensitive forage crop species, white clover (Trifolium repens). TrHSFB2a was highly homologous to MtHSFB2b, CarHSFB2a, AtHSFB2b and AtHSFB2a. The expression of TrHSFB2a was strongly induced by drought (PEG6000 15% w/v), high temperature (35 °C) and salt stresses (200 mM L-1 NaCl) in white clover, while subcellular localization analysis showed that it is a nuclear protein. Overexpression of the white clover gene TrHSFB2a in Arabidopsis significantly reduced fresh and dry weight, relative water contents (RWC), maximum photosynthesis efficiency (Fv/Fm) and performance index on the absorption basis (PIABS), while it promoted leaf senescence, relative electrical conductivity (REC) and the contents of malondialdehyde (MDA) compared to a wild type under drought, heat and salt stress conditions of Arabidopsis plants. The silencing of its native homolog (AtHSFB2a) by RNA interference in Arabidopsis thaliana showed opposite trends by significantly increasing fresh and dry weights, RWC, maximum photosynthesis efficiency (Fv/Fm) and performance index on the absorption basis (PIABS) and reducing REC and MDA contents under drought, heat and salt stress conditions compared to wild type Arabidopsis plants. These phenotypic and physiological indicators suggested that the TrHSFB2a of white clover functions as a negative regulator of heat, salt and drought tolerance. The bioinformatics analysis showed that TrHSFB2a contained the core B3 repression domain (BRD) that has been reported as a repressor activator domain in other plant species that might repress the activation of the heat shock-inducible genes required in the stress tolerance process in plants. The present study explores one of the potential causes of drought and heat sensitivity in white clover that can be overcome to some extent by silencing the TrHSFB2a gene in white clover.
Collapse
Affiliation(s)
- Muhammad Zafar Iqbal
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Tong Jia
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Tao Tang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Muhammad Anwar
- Guangdong Key Laboratory of Plant Epigenetics, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518055, China
| | - Asif Ali
- Key Laboratory of Southwest Crop Genetic Resources and Genetic Improvement, Ministry of Education, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China
| | - Muhammad Jawad Hassan
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Youzhi Zhang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Qilin Tang
- Maize Research Institute, Sichuan Agricultural University, Chengdu 611130, China
| | - Yan Peng
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| |
Collapse
|
25
|
Ma J, Zhang G, Ye Y, Shang L, Hong S, Ma Q, Zhao Y, Gu C. Genome-Wide Identification and Expression Analysis of HSF Transcription Factors in Alfalfa ( Medicago sativa) under Abiotic Stress. PLANTS (BASEL, SWITZERLAND) 2022; 11:2763. [PMID: 36297789 PMCID: PMC9609925 DOI: 10.3390/plants11202763] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Revised: 10/13/2022] [Accepted: 10/17/2022] [Indexed: 06/16/2023]
Abstract
Alfalfa (Medicago sativa) is one of the most important legume forage species in the world. It is often affected by several abiotic stressors that result in reduced yields and poor growth. Therefore, it is crucial to study the resistance of M. sativa to abiotic stresses. Heat shock transcription factors (HSF) are key players in a number of transcriptional regulatory pathways. These pathways play an essential role in controlling how plants react to different abiotic stressors. Studies on the HSF gene family have been reported in many species but have not yet undergone a thorough analysis in M. sativa. Therefore, in order to identify a more comprehensive set of HSF genes, from the genomic data, we identified 16 members of the MsHSF gene, which were unevenly distributed over six chromosomes. We also looked at their gene architectures and protein motifs, and phylogenetic analysis allowed us to divide them into 3 groups with a total of 15 subgroups. Along with these aspects, we then examined the physicochemical properties, subcellular localization, synteny analysis, GO annotation and enrichment, and protein interaction networks of amino acids. Finally, the analysis of 16 MsHSF genes' expression levels across all tissues and under four abiotic stresses using publicly available RNA-Seq data revealed that these genes had significant tissue-specific expression. Moreover, the expression of most MsHSF genes increased dramatically under abiotic stress, further validating the critical function played by the MsHSF gene family in abiotic stress. These results provided basic information about MsHSF gene family and laid a foundation for further study on the biological role of MsHSF gene in response to stress in M. sativa.
Collapse
Affiliation(s)
- Jin Ma
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Guozhe Zhang
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Yacheng Ye
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Linxue Shang
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Sidan Hong
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Qingqing Ma
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Yu Zhao
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| | - Cuihua Gu
- College of Landscape and Architecture, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Zhejiang Provincial Key Laboratory of Germplasm Innovation and Utilization for Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
- Key Laboratory of National Forestry and Grassland Administration on Germplasm Innovation and Utilization for Southern Garden Plants, Zhejiang Agriculture & Forestry University, Hangzhou 311300, China
| |
Collapse
|
26
|
Tang B, Li X, Zhang X, Yin Q, Xie L, Zou X, Liu F, Dai X. Transcriptome data reveal gene clusters and key genes in pepper response to heat shock. FRONTIERS IN PLANT SCIENCE 2022; 13:946475. [PMID: 36212322 PMCID: PMC9532576 DOI: 10.3389/fpls.2022.946475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Accepted: 08/08/2022] [Indexed: 06/16/2023]
Abstract
Climate change and global warming pose a great threat to plant growth and development as well as crop productivity. To better study the genome-wide gene expression under heat, we performed a time-course (0.5 to 24 h) transcriptome analysis in the leaf and root of 40-day-old pepper plants under 40°C as well as in control plants. Clustering analysis (K-means) showed that the expression of 29,249 genes can be grouped into 12 clusters with distinct expression dynamics under stress. Gene ontology (GO) enrichment analysis and transcription factor (TF) identification were performed on the clusters with certain expression patterns. Comparative analysis between the heat-treated and control plants also identified differentially expressed genes (DEGs), which showed the largest degree of change at 24 h. Interestingly, more DEGs were identified in the root than in the leaf. Moreover, we analyzed the gene expression of 25 heat shock factor genes (HSFs) in pepper after heat stress, identified five of these HSFs that responded to heat stress, and characterized the role of these genes in heat-tolerant (17CL30) and heat-susceptible (05S180) pepper lines. The findings of this study improve our understanding of the genome-wide heat stress response in pepper.
Collapse
Affiliation(s)
- Bingqian Tang
- College of Horticulture, Hunan Agricultural University, Changsha, China
- Longping Branch, Graduate School of Hunan University, Changsha, China
- ERC for Germplasm Innovation and New Variety, Breeding of Horticultural Crops, Changsha, China
- Key Laboratory for Vegetable Biology of Hunan Province, Changsha, China
| | - Xiumin Li
- Longping Branch, Graduate School of Hunan University, Changsha, China
| | - Xinhao Zhang
- College of Horticulture, Hunan Agricultural University, Changsha, China
| | - Qinbiao Yin
- College of Horticulture, Hunan Agricultural University, Changsha, China
| | - LingLing Xie
- Key Laboratory for Vegetable Biology of Hunan Province, Changsha, China
| | - Xuexiao Zou
- College of Horticulture, Hunan Agricultural University, Changsha, China
- Longping Branch, Graduate School of Hunan University, Changsha, China
- ERC for Germplasm Innovation and New Variety, Breeding of Horticultural Crops, Changsha, China
- Key Laboratory for Vegetable Biology of Hunan Province, Changsha, China
| | - Feng Liu
- College of Horticulture, Hunan Agricultural University, Changsha, China
- Longping Branch, Graduate School of Hunan University, Changsha, China
- ERC for Germplasm Innovation and New Variety, Breeding of Horticultural Crops, Changsha, China
- Key Laboratory for Vegetable Biology of Hunan Province, Changsha, China
| | - Xiongze Dai
- College of Horticulture, Hunan Agricultural University, Changsha, China
- ERC for Germplasm Innovation and New Variety, Breeding of Horticultural Crops, Changsha, China
- Key Laboratory for Vegetable Biology of Hunan Province, Changsha, China
| |
Collapse
|
27
|
Zhang Y, Wang C, Wang C, Yun L, Song L, Idrees M, Liu H, Zhang Q, Yang J, Zheng X, Zhang Z, Gao J. OsHsfB4b Confers Enhanced Drought Tolerance in Transgenic Arabidopsis and Rice. Int J Mol Sci 2022; 23:ijms231810830. [PMID: 36142741 PMCID: PMC9501395 DOI: 10.3390/ijms231810830] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2022] [Revised: 09/06/2022] [Accepted: 09/10/2022] [Indexed: 11/16/2022] Open
Abstract
Heat shock factors (Hsfs) play pivotal roles in plant stress responses and confer stress tolerance. However, the functions of several Hsfs in rice (Oryza sativa L.) are not yet known. In this study, genome-wide analysis of the Hsf gene family in rice was performed. A total of 25 OsHsf genes were identified, which could be clearly clustered into three major groups, A, B, and C, based on the characteristics of the sequences. Bioinformatics analysis showed that tandem duplication and fragment replication were two important driving forces in the process of evolution and expansion of the OsHsf family genes. Both OsHsfB4b and OsHsfB4d showed strong responses to the stress treatment. The results of subcellular localization showed that the OsHsfB4b protein was in the nucleus whereas the OsHsfB4d protein was located in both the nucleus and cytoplasm. Over-expression of the OsHsfB4b gene in Arabidopsis and rice can increase the resistance to drought stress. This study provides a basis for understanding the function and evolutionary history of the OsHsf gene family, enriching our knowledge of understanding the biological functions of OsHsfB4b and OsHsfB4d genes involved in the stress response in rice, and also reveals the potential value of OsHsfB4b in rice environmental adaptation improvement.
Collapse
Affiliation(s)
- Yan Zhang
- College of Life Sciences, Neijiang Normal University, Neijiang 641004, China
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Chen Wang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Changyu Wang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Liu Yun
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Linhu Song
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Muhammad Idrees
- College of Life Sciences, Neijiang Normal University, Neijiang 641004, China
| | - Huiying Liu
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Qianlong Zhang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Jingyu Yang
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Xu Zheng
- State Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome Engineering, Longzi Lake Campus, College of Agronomy, Henan Agricultural University, Zhengzhou 450046, China
| | - Zhiyong Zhang
- College of Life Sciences, Neijiang Normal University, Neijiang 641004, China
- Correspondence: (Z.Z.); (J.G.)
| | - Jie Gao
- College of Life Sciences, Neijiang Normal University, Neijiang 641004, China
- Correspondence: (Z.Z.); (J.G.)
| |
Collapse
|
28
|
The heat stress transcription factor family in Aegilops tauschii: genome-wide identification and expression analysis under various abiotic stresses and light conditions. Mol Genet Genomics 2022; 297:1689-1709. [DOI: 10.1007/s00438-022-01952-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Accepted: 09/03/2022] [Indexed: 10/14/2022]
|
29
|
Yuan T, Liang J, Dai J, Zhou XR, Liao W, Guo M, Aslam M, Li S, Cao G, Cao S. Genome-Wide Identification of Eucalyptus Heat Shock Transcription Factor Family and Their Transcriptional Analysis under Salt and Temperature Stresses. Int J Mol Sci 2022; 23:ijms23148044. [PMID: 35887387 PMCID: PMC9318532 DOI: 10.3390/ijms23148044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2022] [Revised: 07/19/2022] [Accepted: 07/20/2022] [Indexed: 11/24/2022] Open
Abstract
Heat shock transcription factors (HSFs) activate heat shock protein gene expression by binding their promoters in response to heat stress and are considered to be pivotal transcription factors in plants. Eucalyptus is a superior source of fuel and commercial wood. During its growth, high temperature or other abiotic stresses could impact its defense capability and growth. Hsf genes have been cloned and sequenced in many plants, but rarely in Eucalyptus. In this study, we used bioinformatics methods to analyze and identify Eucalyptus Hsf genes, their chromosomal localization and structure. The phylogenetic relationship and conserved domains of their encoded proteins were further analyzed. A total of 36 Hsf genes were identified and authenticated from Eucalyptus, which were scattered across 11 chromosomes. They could be classified into three classes (A, B and C). Additionally, a large number of stress-related cis-regulatory elements were identified in the upstream promoter sequence of HSF, and cis-acting element analysis indicated that the expression of EgHsf may be regulated by plant growth and development, metabolism, hormones and stress responses. The expression profiles of five representative Hsf genes, EgHsf4, EgHsf9, EgHsf13, EgHsf24 and EgHsf32, under salt and temperature stresses were examined by qRT-PCR. The results show that the expression pattern of class B genes (EgHsf4, EgHsf24 and EgHsf32) was more tolerant to abiotic stresses than that of class A genes (EgHsf9 and EgHsf13). However, the expressions of all tested Hsf genes in six tissues were at different levels. Finally, we investigated the network of interplay between genes, and the results suggest that there may be synergistic effects between different Hsf genes in response to abiotic stresses. We conclude that the Hsf gene family played an important role in the growth and developmental processes of Eucalyptus and could be vital for maintaining cell homeostasis against external stresses. This study provides basic information on the members of the Hsf gene family in Eucalyptus and lays the foundation for the functional identification of related genes and the further investigation of their biological functions in plant stress regulation.
Collapse
Affiliation(s)
- Tan Yuan
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
| | - Jianxiang Liang
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
| | - Jiahao Dai
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
| | - Xue-Rong Zhou
- Commonwealth Scientific Industrial Research Organization (CSIRO) Agriculture Food, Canberra, ACT 2601, Australia;
| | - Wenhai Liao
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
| | - Mingliang Guo
- Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (M.G.); (M.A.)
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Mohammad Aslam
- Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (M.G.); (M.A.)
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Shubin Li
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
| | - Guangqiu Cao
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
- Correspondence: (G.C.); (S.C.)
| | - Shijiang Cao
- College of Forestry, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (T.Y.); (J.L.); (J.D.); (W.L.); (S.L.)
- Correspondence: (G.C.); (S.C.)
| |
Collapse
|
30
|
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.
Collapse
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
| |
Collapse
|
31
|
Mallick B, Kumari M, Pradhan SK, C P, Acharya GC, Naresh P, Das B, Shashankar P. Genome-wide analysis and characterization of heat shock transcription factors (Hsfs) in common bean (Phaseolus vulgaris L.). Funct Integr Genomics 2022; 22:743-756. [PMID: 35718806 DOI: 10.1007/s10142-022-00875-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Accepted: 06/08/2022] [Indexed: 11/28/2022]
Abstract
Heat shock transcription factors (Hsfs) play an essential role as transcriptional regulatory proteins against heat stress by controlling the expression of heat-responsive genes. Common bean is a highly thermosensitive crop, and, therefore, its genome sequence information is segregated, characterized here in terms of heat shock transcription factors and its evolutionary significance. In this study, a complete comprehensive set of 29 non-redundant full-length Hsf genes were identified and characterized from Phaseolus vulgaris L. (PvHsf) genome sequence. Detailed gene information such as chromosomal localization, domain position, motif organization, and exon-intron identification were analyzed. All the 29 PvHsf genes were mapped on 8 out of 11 chromosomes, indicating the gene duplication occurred in the common bean genome. Motif analysis and exon-intron structure were conserved in each group, which showed that the cytoplasmic proteins highly influence the conserved structure of PvHsfs and heat-induced response. The HSF genes were grouped into three classes, i.e., A to C and 14 groups, based on structural features and phylogenetic relationships. Only one pair of paralog sequences suggests that it may be derived from the duplication event during evolution. A comparative genomics study indicated the influence of whole-genome duplication and purifying selection on the common bean genome during development. In silico expression analysis showed the active role of class A and B family during abiotic stress conditions and higher expression in floral organs. The qRT-PCR analysis revealed PvHSFA8 as the master regulator and PvHSFB1A and PvHSFB2A induction during heat exposure in French beans.
Collapse
Affiliation(s)
- B Mallick
- Department of Bioinformatics, Orissa University of Agriculture & Technology, Bhubaneswar, India
| | - M Kumari
- ICAR-Research Complex for Eastern Region, RS, Ranchi, India. .,Central Horticultural Experiment Station (ICAR-IIHR), Bhubaneswar, India.
| | - S K Pradhan
- Department of Bioinformatics, Orissa University of Agriculture & Technology, Bhubaneswar, India
| | - Parmeswaran C
- Division of Biotechnology, ICAR-National Rice Research Institute, Cuttack, Odisha, India
| | - G C Acharya
- Central Horticultural Experiment Station (ICAR-IIHR), Bhubaneswar, India
| | - P Naresh
- Central Horticultural Experiment Station (ICAR-IIHR), Bhubaneswar, India
| | - Bishnupriya Das
- Central Horticultural Experiment Station (ICAR-IIHR), Bhubaneswar, India
| | - P Shashankar
- Division of Biotechnology, ICAR-National Rice Research Institute, Cuttack, Odisha, India
| |
Collapse
|
32
|
Meena S, Samtani H, Khurana P. Elucidating the functional role of heat stress transcription factor A6b (TaHsfA6b) in linking heat stress response and the unfolded protein response in wheat. PLANT MOLECULAR BIOLOGY 2022; 108:621-634. [PMID: 35305221 DOI: 10.1007/s11103-022-01252-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Accepted: 02/07/2022] [Indexed: 05/26/2023]
Abstract
TaHsfA6b-4D relocalizes intracellularly upon heat stress and play a significant role in linking the heat stress response to unfolded-protein response so as to maintain cellular homeostasis. Heat stress transcription factors (Hsfs) play a crucial role in protecting the plants against heat stress (HS). In case of wheat, TaHsfA6b-4D (earlier known as TaHsfA2d) has been identified as a seed preferential transcription factor and its role has been shown in various abiotic stresses such as heat, salt and drought stress. In the present study, a homeologue of TaHsfA6b gene (TaHsfA6b-4A) was identified and was found to be transcriptionally inactive but it localized to the nucleus. Interestingly, TaHsfA6b-4D localized to the endoplasmic reticulum-Golgi complex and peroxisomes under non-stress conditions, but was observed to accumulate in the nucleus upon HS. The expression of TaHsfA6b-4D was upregulated by dithiothreitol (DTT), which is a known ER stress inducer. Consistent with this, Arabidopsis transgenic plants overexpressing TaHsfA6b-4D performed better on DTT containing media, which further corroborated with the increased expression of ER stress marker genes in these transgenic plants in comparison to the wild type plants. Thus, these studies together suggest that TaHsfA6b-4D may relocalize intracellularly upon heat stress and may play a significant role in linking the unfolded-protein response with heat stress response so as to maintain protein homeostasis inside the cell under heat stress.
Collapse
Affiliation(s)
- Shaloo Meena
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India
| | - Harsha Samtani
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India
| | - Paramjit Khurana
- Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India.
| |
Collapse
|
33
|
Zhao D, Qi X, Zhang Y, Zhang R, Wang C, Sun T, Zheng J, Lu Y. Genome-wide analysis of the heat shock transcription factor gene family in Sorbus pohuashanensis (Hance) Hedl identifies potential candidates for resistance to abiotic stresses. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2022; 175:68-80. [PMID: 35180530 DOI: 10.1016/j.plaphy.2022.02.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2021] [Revised: 01/13/2022] [Accepted: 02/08/2022] [Indexed: 06/14/2023]
Abstract
Heat shock transcription factors (Hsfs) are essential regulators of plant responses to abiotic stresses, growth, and development. However, all the Hsf family members have not been identified in Sorbus pohuashanensis. Therefore, the aim of this study was to identify the Hsf family members in S. pohuashanensis and examine their expression under abiotic stress conditions through the integration of gene structure, phylogenetic relationships, chromosome location, and expression patterns. Bioinformatics-based methods, identified 33 Hsfs in S. pohuashanensis. Phylogenetic analysis of Hsfs from S. pohuashanensis and other species revealed that they were more closely related to apples and white pears, followed by Populus trichocarpa, and most distantly related to Arabidopsis. Moreover, the Hsfs were clustered into three major groups: A, B, and C. Gene structure and conserved motif analysis revealed a high degree of conservation among members of the same class. Collinearity analysis revealed that segmental duplication played an essential role in increasing the size of the SpHsfs gene family in S. pohuashanensis. Additionally, several cis-acting elements associated with growth and development, hormone response, and stress were found in the promoter region of SpHsfs genes. Furthermore, expression analysis in various tissues of S. pohuashanensis showed that the genes were closely associated with heat, drought, salt stress, growth, and developmental processes. Overall, these results provide valuable information on the evolutionary relationships of the Hsf gene family. These genes stand as strong functional candidates for further studies on the resistance of S. pohuashanensis to abiotic stresses.
Collapse
Affiliation(s)
- Dongxue Zhao
- School of Landscape Architecture, Beijing University of Agriculture, Beijing, 102206, China
| | - Xiangyu Qi
- School of Landscape Architecture, Beijing University of Agriculture, Beijing, 102206, China
| | - Yan Zhang
- School of Landscape Architecture, Beijing University of Agriculture, Beijing, 102206, China
| | - Ruili Zhang
- School of Landscape Architecture, Beijing University of Agriculture, Beijing, 102206, China
| | - Cong Wang
- School of Landscape Architecture, Beijing University of Agriculture, Beijing, 102206, China
| | - Tianxu Sun
- Shandong Institute of Territorial and Spatial Planning, Jinan, Shandong Province, 250000, China
| | - Jian Zheng
- School of Landscape Architecture, Beijing University of Agriculture, Beijing, 102206, China.
| | - Yizeng Lu
- Shandong Provincial Center of Forest Tree Germplasm Resources, Jinan, Shandong Province, 250102, China.
| |
Collapse
|
34
|
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.
Collapse
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.)
| |
Collapse
|
35
|
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.
Collapse
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.
| |
Collapse
|
36
|
Li XT, Feng XY, Zeng Z, Liu Y, Shao ZQ. Comparative Analysis of HSF Genes From Secale cereale and its Triticeae Relatives Reveal Ancient and Recent Gene Expansions. Front Genet 2021; 12:801218. [PMID: 34887907 PMCID: PMC8650501 DOI: 10.3389/fgene.2021.801218] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Accepted: 11/08/2021] [Indexed: 11/18/2022] Open
Abstract
Plants have evolved sophisticated systems to cope with the environmental stresses, with the heat shock factor (HSF) family proteins composing an integral part of the transcriptional regulation system. Understanding the evolutionary history and functional diversity of HSFs will facilitate improving tolerance of crops to adverse environmental conditions. In this study, genome-wide analysis of Secale cereale identified 31 HSF genes. The total number of HSF genes in S. cereale is larger than that in barley and the three subgenomes of wheat, suggesting it is a valuable resource for mining functional HSFs. Chromosome analysis revealed an uneven distribution of HSF genes among the 7 S. cereale chromosomes, with no HSF gene was detected on chromosome 4. Further interspecies synteny analysis revealed that chromosome reorganization during species-speciation may lead to the escape of HSF genes from the S. cereale chromosome 4. Phylogenetic analysis revealed that S. cereale experienced more HSF gene duplications than barley and the three wheat subgenomes. Expression analysis demonstrated that S. cereale HSF genes showed diverse expression patterns across plant developmental stages and upon drought and freezing treatment, suggesting functional diversity of the gene family. Notably, we detected distinct expression patterns for a recently duplicated HSF gene pair, indicating functional divergence may have occurred between the two genes. The study presents the genome organization, evolutionary features and expression patterns of the S. cereale HSF genes. These results provide new insights into the evolution of HSF genes in Triticeae and may serve as a resource for Triticeae molecular breeding.
Collapse
Affiliation(s)
- Xiao-Tong Li
- School of Life Sciences, Nanjing University, Nanjing, China
| | - Xing-Yu Feng
- School of Life Sciences, Nanjing University, Nanjing, China
| | - Zhen Zeng
- School of Life Sciences, Nanjing University, Nanjing, China
| | - Yang Liu
- School of Life Sciences, Nanjing University, Nanjing, China
| | - Zhu-Qing Shao
- School of Life Sciences, Nanjing University, Nanjing, China
| |
Collapse
|
37
|
Kumar J, Gupta DS, Kesari R, Verma R, Murugesan S, Basu PS, Soren KR, Gupta S, Singh NP. Comprehensive RNAseq analysis for identification of genes expressed under heat stress in lentil. PHYSIOLOGIA PLANTARUM 2021; 173:1785-1807. [PMID: 33829491 DOI: 10.1111/ppl.13419] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2020] [Revised: 04/06/2021] [Indexed: 06/12/2023]
Abstract
Lentils are highly sensitive to abrupt increases in temperature during the mid to late reproductive stages, leading to severe biomass and seed yield reduction. Therefore, we carried out an RNAseq analysis between IG4258 (heat tolerant) and IG3973 (heat sensitive) lentil genotypes at the reproductive stage under both normal and heat stress conditions in the field. It resulted in 209,549 assembled transcripts and among these 161,809 transcripts had coding regions, of which 94,437 transcripts were annotated. The differential gene expression analysis showed upregulation of 678 transcripts and downregulation of 680 transcripts between the tolerant and sensitive genotypes at the early reproductive stage. While 76 transcripts were upregulated and 47 transcripts were downregulated at the late reproductive stage under heat stress conditions. The validation of 12 up-or downregulated transcripts through RT-PCR corresponded well with the expression analysis data of RNAseq, with a correlation of R2 = 0.89. Among these transcripts, the DN364_c1_g1_i9 and DN2218_c0_g1_i5 transcripts encoded enzymes involved in the tryptophan pathway, indicating that tryptophan biosynthesis plays a role under heat stress in lentil. Moreover, KEGG pathways enrichment analysis identified transcripts associated with genes encoding proteins/regulating factors related to different metabolic pathways including signal transduction, fatty acid biosynthesis, rRNA processing, ribosome biogenesis, gibberellin (GA) biosynthesis, and riboflavin biosynthesis. This analysis also identified 6852 genic-SSRs leading to the development of 4968 SSR primers that are potential genomic resources for molecular mapping of heat-tolerant genes in lentil.
Collapse
Affiliation(s)
- Jitendra Kumar
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - Debjyoti Sen Gupta
- Division of Crop Improvement, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - Ravi Kesari
- Department of Plant Breeding and Genetics, Bhola Paswan Shastri Agricultural College, Purnea, India
| | - Renu Verma
- Division of Basic Sciences, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | | | - Partha Sarathi Basu
- Division of Basic Sciences, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - Khela Ram Soren
- Division of Biotechnology, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | - Sanjeev Gupta
- All India Co-ordinated Research Project on MULLaRP, ICAR-Indian Institute of Pulses Research, Kanpur, India
| | | |
Collapse
|
38
|
Genome-wide identification and analysis of the heat shock transcription factor family in moso bamboo (Phyllostachys edulis). Sci Rep 2021; 11:16492. [PMID: 34389742 PMCID: PMC8363633 DOI: 10.1038/s41598-021-95899-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2020] [Accepted: 07/23/2021] [Indexed: 02/07/2023] Open
Abstract
Heat shock transcription factors (HSFs) are central elements in the regulatory network that controls plant heat stress response. They are involved in multiple transcriptional regulatory pathways and play important roles in heat stress signaling and responses to a variety of other stresses. We identified 41 members of the HSF gene family in moso bamboo, which were distributed non-uniformly across its 19 chromosomes. Phylogenetic analysis showed that the moso bamboo HSF genes could be divided into three major subfamilies; HSFs from the same subfamily shared relatively conserved gene structures and sequences and encoded similar amino acids. All HSF genes contained HSF signature domains. Subcellular localization prediction indicated that about 80% of the HSF proteins were located in the nucleus, consistent with the results of GO enrichment analysis. A large number of stress response-associated cis-regulatory elements were identified in the HSF upstream promoter sequences. Synteny analysis indicated that the HSFs in the moso bamboo genome had greater collinearity with those of rice and maize than with those of Arabidopsis and pepper. Numerous segmental duplicates were found in the moso bamboo HSF gene family. Transcriptome data indicated that the expression of a number of PeHsfs differed in response to exogenous gibberellin (GA) and naphthalene acetic acid (NAA). A number of HSF genes were highly expressed in the panicles and in young shoots, suggesting that they may have functions in reproductive growth and the early development of rapidly-growing shoots. This study provides fundamental information on members of the bamboo HSF gene family and lays a foundation for further study of their biological functions in the regulation of plant responses to adversity.
Collapse
|
39
|
Rehman A, Peng Z, Li H, Qin G, Jia Y, Pan Z, He S, Qayyum A, Du X. Genome wide analysis of IQD gene family in diploid and tetraploid species of cotton (Gossypium spp.). Int J Biol Macromol 2021; 184:1035-1061. [PMID: 34174315 DOI: 10.1016/j.ijbiomac.2021.06.115] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Revised: 05/31/2021] [Accepted: 06/16/2021] [Indexed: 12/25/2022]
Abstract
Calmodulin (CaM) is considered as the most significant Ca2+ signaling messenger that mediate various biochemical and physiological reactions. IQ domain (IQD) proteins are plant specific CML/CaM calcium binding which are characterized by domains of 67 amino acids. 50, 50, 94, and 99 IQD genes were detected from G. arboreum (A2), G. raimondii (D5), G. barbadense (AD2) and G. hirsutum (AD1) respectively. Existence of more orthologous genes in cotton species than Arabidopsis, advocated that polyploidization produced new cotton specific orthologous gene clusters. Duplication of gene events depicts that IQD gene family of cotton evolution was under strong purifying selection. G. hirsutum exhibited high level synteny. GarIQD25 exhibited high expression in stem, root, flower, ovule and fiber in G. arboreum. In G. raimondii, GraIQD03 demonstrated upregulation across stem, ovule, fiber and seed. GbaIQD11 and GbaIQD62 exhibited upregulation in fiber development in G. barbadense. GhiIQD69 recognized as main candidate genes for plant parts, floral tissues, fiber and ovule development. Promotor analysis identified cis-regulatory elements were involved in plant growth and development. Overwhelmingly, present study paves the way to better understand the evolution of cotton IQD genes and lays a foundation for future investigation of IQD in cotton.
Collapse
Affiliation(s)
- Abdul Rehman
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Zhen Peng
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Hongge Li
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Guangyong Qin
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China
| | - Yinhua Jia
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Zhaoe Pan
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Shoupu He
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Abdul Qayyum
- Department of Plant Breeding and Genetics, Bahauddin Zakariya university, Multan 66000, Pakistan
| | - Xiongming Du
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China.
| |
Collapse
|
40
|
Rehman A, Atif RM, Azhar MT, Peng Z, Li H, Qin G, Jia Y, Pan Z, He S, Qayyum A, Du X. Genome wide identification, classification and functional characterization of heat shock transcription factors in cultivated and ancestral cottons (Gossypium spp.). Int J Biol Macromol 2021; 182:1507-1527. [PMID: 33965497 DOI: 10.1016/j.ijbiomac.2021.05.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 04/30/2021] [Accepted: 05/03/2021] [Indexed: 11/30/2022]
Abstract
Heat shock transcription factors (HSF) have been demonstrated to play a significant transcriptional regulatory role in plants and considered as an integral part of signal transduction pathways against environmental stresses especially heat stress. Despite of their importance, HSFs have not yet been identified and characterized in all cotton species. In this study, we report the identification of 42, 39, 67, and 79 non-redundant HSF genes from diploid cottons G. arboreum (A2) and G. raimondii (D5), and tetraploid cottons G. barbadense (AD2) and G. hirsutum (AD1) respectively. The chromosome localization of identified HSFs revealed their random distribution on all the 13 chromosomes of A and D genomes of cotton with few regions containing HSFs in clusters. The genes structure and conserved domain analysis revealed the family-specific conservation of intron/exon organization and conserved domains in HSFs. Various abiotic stress-related cis-regulatory elements were identified from the putative promoter regions of cotton HSFs suggesting their possible role in mediating abiotic stress tolerance. The combined phylogenetic analysis of all the cotton HSFs grouped them into three subfamilies; with 145 HSFs belong to class A, 85 to class B, and 17 to class C subfamily. Moreover, a detailed analysis of HSF gene family in four species of cotton elucidated the role of allopolyploid and hybridization during evolutionary cascade of allotetraploid cotton. Comparatively, existence of more orthologous genes in cotton species than Arabidopsis, advocated that polyploidization produced new cotton specific orthologous gene clusters. Phylogenetic, collinearity and multiple synteny analyses exhibited dispersed, segmental, proximal, and tandem gene duplication events in HSF gene family. Duplication of gene events suggests that HSF gene family of cotton evolution was under strong purifying selection. Expression analysis revealed that GarHSF04 were found to be actively involved in PEG and salinity tolerance in G. arboreum. GhiHSF14 upregulated in heat and downregulated in salinity whilst almost illustrated similar behavior under cold and PEG treatments and GhiHSF21 exhibited down regulation almost across all the stresses in G. hirsutum. Overwhelmingly, present study paves the way to better understand the evolution of cotton HSF TFs and lays a foundation for future investigation of HSFs in improving abiotic stress tolerance in cotton.
Collapse
Affiliation(s)
- Abdul Rehman
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China; Department of Plant Breeding and Genetics, Bahauddin Zakariya university, Multan 60800, Pakistan
| | - Rana Muhammad Atif
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad 38040, Pakistan; Center of Advanced Studies in Agriculture & Food Security, University of Agriculture, Faisalabad 38040, Pakistan.
| | - Muhammad Tehseen Azhar
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; Institute of Molecular Biology and Biotechnology, Bahauddin Zakariya University, Multan 60800, Pakistan
| | - Zhen Peng
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Hongge Li
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Guangyong Qin
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China
| | - Yinhua Jia
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Zhaoe Pan
- State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Shoupu He
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China
| | - Abdul Qayyum
- Department of Plant Breeding and Genetics, Bahauddin Zakariya university, Multan 60800, Pakistan
| | - Xiongming Du
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450000, China; State Key Laboratory of Cotton Biology, Institute of Cotton Research Chinese Academy of Agricultural Science, Anyang 455000, Henan, China.
| |
Collapse
|
41
|
Zhai H, Jiang C, Zhao Y, Yang S, Li Y, Yan K, Wu S, Luo B, Du Y, Jin H, Liu X, Zhang Y, Lu F, Reynolds M, Ou X, Qiao W, Jiang Z, Peng T, Gao D, Hu W, Wang J, Gao H, Yin G, Zhang K, Li G, Wang D. Wheat heat tolerance is impaired by heightened deletions in the distal end of 4AL chromosomal arm. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:1038-1051. [PMID: 33372381 PMCID: PMC8131055 DOI: 10.1111/pbi.13529] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Accepted: 12/09/2020] [Indexed: 05/14/2023]
Abstract
Heat stress (HS) causes substantial damages to worldwide crop production. As a cool season crop, wheat (Triticum aestivum) is sensitive to HS-induced damages. To support the genetic improvement of wheat HS tolerance (HST), we conducted fine mapping of TaHST1, a locus required for maintaining wheat vegetative and reproductive growth under elevated temperatures. TaHST1 was mapped to the distal terminus of 4AL chromosome arm using genetic populations derived from two BC6 F6 breeding lines showing tolerance (E6015-4T) or sensitivity (E6015-3S) to HS. The 4AL region carrying TaHST1 locus was approximately 0.949 Mbp and contained the last 19 high confidence genes of 4AL according to wheat reference genome sequence. Resequencing of E6015-3S and E6015-4T and haplotype analysis of 3087 worldwide wheat accessions revealed heightened deletion polymorphisms in the distal 0.949 Mbp region of 4AL, which was confirmed by the finding of frequent gene losses in this region in eight genome-sequenced hexaploid wheat cultivars. The great majority (86.36%) of the 3087 lines displayed different degrees of nucleotide sequence deletions, with only 13.64% of them resembling E6015-4T in this region. These deletions can impair the presence and/or function of TaHST1 and surrounding genes, thus rendering global wheat germplasm vulnerable to HS or other environmental adversities. Therefore, conscientious and urgent efforts are needed in global wheat breeding programmes to optimize the structure and function of 4AL distal terminus by ensuring the presence of TaHST1 and surrounding genes. The new information reported here will help to accelerate the ongoing global efforts in improving wheat HST.
Collapse
Affiliation(s)
- Huijie Zhai
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
- School of Life Science and TechnologyHenan Institute of Science and TechnologyXinxiangChina
| | - Congcong Jiang
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Yue Zhao
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Shuling Yang
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Yiwen Li
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Kunfang Yan
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Shuyu Wu
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Bingke Luo
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Yi Du
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Huaibing Jin
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Xin Liu
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Yanbin Zhang
- Crop Breeding InstituteHeilongjiang Academy of Agricultural SciencesHarbinChina
| | - Fei Lu
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | | | - Xingqi Ou
- School of Life Science and TechnologyHenan Institute of Science and TechnologyXinxiangChina
| | - Wenchen Qiao
- Dryland Farming InstituteHebei Academy of Agricultural and Forestry SciencesHengshuiHebeiChina
| | - Zhikai Jiang
- Xinxiang Academy of Agricultural SciencesXinxiangHenanChina
| | - Tao Peng
- Jiyuan Academy of Agricultral SciencesJiyuanHenanChina
| | - Derong Gao
- Yangzhou Academy of Agricultural SciencesYangzhouJiangsuChina
| | - Wenjing Hu
- Yangzhou Academy of Agricultural SciencesYangzhouJiangsuChina
| | - Jiangchun Wang
- Yantai Academy of Agricultural SciencesYantaiShandongChina
| | - Haitao Gao
- Luoyang Academy of Agricultral and Forestry SciencesLuoyangHenanChina
| | - Guihong Yin
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Kunpu Zhang
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Guangwei Li
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
| | - Daowen Wang
- College of AgronomyState Key Laboratory of Wheat and Maize Crop Science, and Center for Crop Genome EngineeringHenan Agricultural UniversityZhengzhouChina
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| |
Collapse
|
42
|
Yan Q, Zong X, Wu F, Li J, Ma T, Zhao Y, Ma Q, Wang P, Wang Y, Zhang J. Integrated analysis of co-expression, conserved genes and gene families reveal core regulatory network of heat stress response in Cleistogenes songorica, a xerophyte perennial desert plant. BMC Genomics 2020; 21:715. [PMID: 33066732 PMCID: PMC7566159 DOI: 10.1186/s12864-020-07122-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2020] [Accepted: 10/05/2020] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND As global warming continues, heat stress (HS) is becoming an increasingly significant factor limiting plant growth and reproduction, especially for cool-season grass species. The objective of this study was to determine the transcriptional regulatory network of Cleistogenes songorica under HS via transcriptome profiling, identify of gene families and comparative analysis across major Poaceae species. RESULTS Physiological analysis revealed significantly decreased leaf relative water content (RWC) but increased proline (Pro) content in C. songorica under 24 h of HS. Transcriptome profiling indicated that 16,028 and 14,645 genes were differentially expressed in the shoots and roots of C. songorica under HS, respectively. Two subgenomes of C. songorica provide equal contribution under HS on the basis of the distribution and expression of differentially expressed genes (DEGs). Furthermore, 216 DEGs were identified as key evolutionarily conserved genes involved in the response to HS in C. songorica via comparative analysis with genes of four Poaceae species; these genes were involved in the 'response to heat' and 'heat acclimation'. Notably, most of the conserved DEGs belonged to the heat-shock protein (HSP) superfamily. Similar results were also obtained from co-expression analysis. Interestingly, hub-genes of co-expression analysis were found to overlap with conserved genes, especially heat-shock protein (HSP). In C. songorica, 84 HSP and 32 heat-shock transcription factor (HSF) genes were identified in the allotetraploid C. songorica genome, and might have undergone purifying selection during evolutionary history based on syntenic and phylogenetic analysis. By analysing the expression patterns of the CsHSPs and CsHSFs, we found that the transcript abundance of 72.7% of the CsHSP genes and of 62.5% of the CsHSF genes changed under heat stress in both the shoots and roots. Finally, a core regulatory network of HS was constructed on the basis of the CsHSP, CsHSF and other responsive genes in C. songorica. CONCLUSIONS Regulatory network and key genes were comprehensively analysed and identified in C. songorica under HS. This study improves our knowledge of thermotolerance mechanisms in native grasses, and also provides candidate genes for potential applications in the genetic improvement of grasses.
Collapse
Affiliation(s)
- Qi Yan
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Xifang Zong
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Fan Wu
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Jie Li
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Tiantian Ma
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Yufeng Zhao
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Qian Ma
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Penglei Wang
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Yanrong Wang
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China
| | - Jiyu Zhang
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, People's Republic of China.
| |
Collapse
|
43
|
Investigation of an Antioxidative System for Salinity Tolerance in Oenanthe javanica. Antioxidants (Basel) 2020; 9:antiox9100940. [PMID: 33019501 PMCID: PMC7601823 DOI: 10.3390/antiox9100940] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2020] [Revised: 09/10/2020] [Accepted: 09/23/2020] [Indexed: 12/18/2022] Open
Abstract
Abiotic stress, such as drought and salinity, severely affect the growth and yield of many plants. Oenanthe javanica (commonly known as water dropwort) is an important vegetable that is grown in the saline-alkali soils of East Asia, where salinity is the limiting environmental factor. To study the defense mechanism of salt stress responses in water dropwort, we studied two water dropwort cultivars, V11E0022 and V11E0135, based on phenotypic and physiological indexes. We found that V11E0022 were tolerant to salt stress, as a result of good antioxidant defense system in the form of osmolyte (proline), antioxidants (polyphenols and flavonoids), and antioxidant enzymes (APX and CAT), which provided novel insights for salt-tolerant mechanisms. Then, a comparative transcriptomic analysis was conducted, and Gene Ontology (GO) analysis revealed that differentially expressed genes (DEGs) involved in the carbohydrate metabolic process could reduce oxidative stress and enhance energy production that can help in adaptation against salt stress. Similarly, lipid metabolic processes can also enhance tolerance against salt stress by reducing the transpiration rate, H2O2, and oxidative stress. Furthermore, the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis showed that DEGs involved in hormone signals transduction pathway promoted the activities of antioxidant enzymes and reduced oxidative stress; likewise, arginine and proline metabolism, and flavonoid pathways also stimulated the biosynthesis of proline and flavonoids, respectively, in response to salt stress. Moreover, transcription factors (TFs) were also identified, which play an important role in salt stress tolerance of water dropwort. The finding of this study will be helpful for crop improvement under salt stress.
Collapse
|
44
|
Guo XL, Yuan SN, Zhang HN, Zhang YY, Zhang YJ, Wang GY, Li YQ, Li GL. Heat-response patterns of the heat shock transcription factor family in advanced development stages of wheat (Triticum aestivum L.) and thermotolerance-regulation by TaHsfA2-10. BMC PLANT BIOLOGY 2020; 20:364. [PMID: 32746866 PMCID: PMC7397617 DOI: 10.1186/s12870-020-02555-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2019] [Accepted: 07/19/2020] [Indexed: 05/26/2023]
Abstract
BACKGROUND Heat shock transcription factors (Hsfs) are present in majority of plants and play central roles in thermotolerance, transgenerational thermomemory, and many other stress responses. Our previous paper identified at least 82 Hsf members in a genome-wide study on wheat (Triticum aestivum L.). In this study, we analyzed the Hsf expression profiles in the advanced development stages of wheat, isolated the markedly heat-responsive gene TaHsfA2-10 (GenBank accession number MK922287), and characterized this gene and its role in thermotolerance regulation in seedlings of Arabidopsis thaliana (L. Heynh.). RESULTS In the advanced development stages, wheat Hsf family transcription profiles exhibit different expression patterns and varying heat-responses in leaves and roots, and Hsfs are constitutively expressed to different degrees under the normal growth conditions. Overall, the majority of group A and B Hsfs are expressed in leaves while group C Hsfs are expressed at higher levels in roots. The expression of a few Hsf genes could not be detected. Heat shock (HS) caused upregulation about a quarter of genes in leaves and roots, while a number of genes were downregulated in response to HS. The highly heat-responsive gene TaHsfA2-10 was isolated through homeologous cloning. qRT-PCR revealed that TaHsfA2-10 is expressed in a wide range of tissues and organs of different development stages of wheat under the normal growth conditions. Compared to non-stress treatment, TaHsfA2-10 was highly upregulated in response to HS, H2O2, and salicylic acid (SA), and was downregulated by abscisic acid (ABA) treatment in two-leaf-old seedlings. Transient transfection of tobacco epidermal cells revealed subcellular localization of TaHsfA2-10 in the nucleus under the normal growth conditions. Phenotypic observation indicated that TaHsfA2-10 could improve both basal thermotolerance and acquired thermotolerance of transgenic Arabidopsis thaliana seedlings and rescue the thermotolerance defect of the T-DNA insertion mutant athsfa2 during HS. Compared to wild type (WT) seedlings, the TaHsfA2-10-overexpressing lines displayed both higher chlorophyll contents and higher survival rates. Yeast one-hybrid assay results revealed that TaHsfA2-10 had transactivation activity. The expression levels of thermotolerance-related AtHsps in the TaHsfA2-10 transgeinc Arabidopsis thaliana were higher than those in WT after HS. CONCLUSIONS Wheat Hsf family members exhibit diversification and specificity of transcription expression patterns in advanced development stages under the normal conditions and after HS. As a markedly responsive transcriptional factor to HS, SA and H2O2, TaHsfA2-10 involves in thermotolerance regulation of plants through binding to the HS responsive element in promoter domain of relative Hsps and upregulating the expression of Hsp genes.
Collapse
Affiliation(s)
- Xiu-lin Guo
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences / Plant Genetic Engineering Center of Hebei Province, No. 598, Heping West Street, Shijiazhuang, 050051 PR China
| | - Sai-nan Yuan
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences / Plant Genetic Engineering Center of Hebei Province, No. 598, Heping West Street, Shijiazhuang, 050051 PR China
- College of Life Sciences, Hebei Normal University, Shijiazhuang, 050024 PR China
| | - Hua-ning Zhang
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences / Plant Genetic Engineering Center of Hebei Province, No. 598, Heping West Street, Shijiazhuang, 050051 PR China
| | - Yuan-yuan Zhang
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences / Plant Genetic Engineering Center of Hebei Province, No. 598, Heping West Street, Shijiazhuang, 050051 PR China
- College of Life Sciences, Hebei Normal University, Shijiazhuang, 050024 PR China
| | - Yu-jie Zhang
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences / Plant Genetic Engineering Center of Hebei Province, No. 598, Heping West Street, Shijiazhuang, 050051 PR China
| | - Gui-yan Wang
- Faculty of Agronomy, Hebei Agricultural University, No. 2596, Lekai South Street, Baoding, 071001 PR China
| | - Ya-qing Li
- Shijiazhuang Academy of Agriculture and Forestry Science, No. 479, Shengli North Street, Shijiazhuang, 050000 PR China
| | - Guo-liang Li
- Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences / Plant Genetic Engineering Center of Hebei Province, No. 598, Heping West Street, Shijiazhuang, 050051 PR China
| |
Collapse
|
45
|
Wang J, Hu H, Wang W, Wei Q, Hu T, Bao C. Genome-Wide Identification and Functional Characterization of the Heat Shock Factor Family in Eggplant ( Solanum melongena L.) under Abiotic Stress Conditions. PLANTS 2020; 9:plants9070915. [PMID: 32698415 PMCID: PMC7412109 DOI: 10.3390/plants9070915] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/28/2020] [Revised: 07/14/2020] [Accepted: 07/15/2020] [Indexed: 01/10/2023]
Abstract
Plant heat shock factors (Hsfs) play crucial roles in various environmental stress responses. Eggplant (Solanum melongena L.) is an agronomically important and thermophilic vegetable grown worldwide. Although the functions of Hsfs under environmental stress conditions have been characterized in the model plant Arabidopsis thaliana and tomato, their roles in responding to various stresses remain unclear in eggplant. Therefore, we characterized the eggplant SmeHsf family and surveyed expression profiles mediated by the SmeHsfs under various stress conditions. Here, using reported Hsfs from other species as queries to search SmeHsfs in the eggplant genome and confirming the typical conserved domains, we identified 20 SmeHsf genes. The SmeHsfs were further classified into 14 subgroups on the basis of their structure. Additionally, quantitative real-time PCR revealed that SmeHsfs responded to four stresses—cold, heat, salinity and drought—which indicated that SmeHsfs play crucial roles in improving tolerance to various abiotic stresses. The expression pattern of SmeHsfA6b exhibited the most immediate response to the various environmental stresses, except drought. The genome-wide identification and abiotic stress-responsive expression pattern analysis provide clues for further analysis of the roles and regulatory mechanism of SmeHsfs under environmental stresses.
Collapse
|
46
|
Liu X, Meng P, Yang G, Zhang M, Peng S, Zhai MZ. Genome-wide identification and transcript profiles of walnut heat stress transcription factor involved in abiotic stress. BMC Genomics 2020; 21:474. [PMID: 32650719 PMCID: PMC7350716 DOI: 10.1186/s12864-020-06879-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2019] [Accepted: 07/02/2020] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Walnut (Juglans regia) is an important tree cultivated worldwide and is exposed to a series of both abiotic and biotic stress during their life-cycles. The heat stress transcription factors (HSFs) play a crucial role in plant response to various stresses by regulating the expression of stress-responsive genes. HSF genes are classified into 3 classes: HSFA, HSFB, and HSFC. HSFA gene has transcriptional activation function and is the main regulator of high temperature-induced gene expression. HSFB gene negatively regulates plant resistance to drought and NaCl. And HSFC gene may be involved in plant response to various stresses. There are some reports about the HSF family in herbaceous plants, however, there are no reports about the HSFs in walnut. RESULT In this study, based on the complete genome sequencing of walnut, the bioinformatics method was used and 29 HSF genes were identified. These HSFs covered 18 HSFA, 9 HSFB, and 2 HSFC genes. Phylogenetic analysis of these HSF proteins along with those from Arabidopsis thaliana showed that the HSFs in the two species are closely related to each other and have different evolutionary processes. The distribution of conserved motifs and the sequence analysis of HSF genes family indicated that the members of the walnut HSFs are highly conserved. Quantitative Real-Time PCR (qRT-PCR) analysis revealed that the most of walnut HSFs were expressed in the walnut varieties of 'Qingxiang' and 'Xiangling' under high temperature (HT), high salt and drought stress, and some JrHSFs expression pattern are different between the two varieties. CONCLUSION The complex HSF genes family from walnut was confirmed by genome-wide identification, evolutionary exploration, sequence characterization and expression analysis. This research provides useful information for future studies on the function of the HSF genes and molecular mechanism in plant stress response.
Collapse
Affiliation(s)
- Xuejiao Liu
- Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, 712100, Shaanxi, China
| | - Panpan Meng
- Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, 712100, Shaanxi, China
| | - Guiyan Yang
- Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, 712100, Shaanxi, China
| | - Mengyan Zhang
- Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, 712100, Shaanxi, China
| | - Shaobing Peng
- Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, 712100, Shaanxi, China.
| | - Mei Zhi Zhai
- Laboratory of Walnut Research Center, College of Forestry, Northwest A & F University, Yangling, 712100, Shaanxi, China
| |
Collapse
|
47
|
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.
Collapse
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
| |
Collapse
|
48
|
Zhang H, Li G, Fu C, Duan S, Hu D, Guo X. Genome-wide identification, transcriptome analysis and alternative splicing events of Hsf family genes in maize. Sci Rep 2020; 10:8073. [PMID: 32415117 PMCID: PMC7229205 DOI: 10.1038/s41598-020-65068-z] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Accepted: 04/26/2020] [Indexed: 12/13/2022] Open
Abstract
Heat shock transcription factor (Hsf) plays a transcriptional regulatory role in plants during heat stress and other abiotic stresses. 31 non-redundant ZmHsf genes from maize were identified and clustered in the reference genome sequenced by Single Molecule Real Time (SMRT). The amino acid length, chromosome location, and presence of functional domains and motifs of all ZmHsfs sequences were analyzed and determined. Phylogenetics and collinearity analyses reveal gene duplication events in Hsf family and collinearity blocks shared by maize, rice and sorghum. The results of RNA-Seq analysis of anthesis and post-anthesis periods in maize show different expression patterns of ZmHsf family members. Specially, ZmHsf26 of A2 subclass and ZmHsf23 of A6 subclass were distinctly up-regulated after heat shock (HS) at post-anthesis stage. Nanopore transcriptome sequencing of maize seedlings showed that alternative splicing (AS) events occur in ZmHsf04 and ZmHsf17 which belong to subclass A2 after heat shock. Through sequence alignment, semi-quantitative and quantitative RT-PCR, we found that intron retention events occur in response to heat shock, and newly splice isoforms, ZmHsf04-II and ZmHsf17-II, were transcribed. Both new isoforms contain several premature termination codons in their introns which may lead to early termination of translation. The ZmHsf04 expression was highly increased than that of ZmHsf17, and the up-regulation of ZmHsf04-I transcription level were significantly higher than that of ZmHsf04-II after HS.
Collapse
Affiliation(s)
- Huaning Zhang
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, P.R. China
| | - Guoliang Li
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, P.R. China
| | - Cai Fu
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, P.R. China
| | - Shuonan Duan
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, P.R. China
| | - Dong Hu
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, P.R. China.
| | - Xiulin Guo
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, 050051, P.R. China.
| |
Collapse
|
49
|
Zhang H, Li G, Hu D, Zhang Y, Zhang Y, Shao H, Zhao L, Yang R, Guo X. Functional characterization of maize heat shock transcription factor gene ZmHsf01 in thermotolerance. PeerJ 2020; 8:e8926. [PMID: 32309048 PMCID: PMC7153558 DOI: 10.7717/peerj.8926] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Accepted: 03/17/2020] [Indexed: 11/20/2022] Open
Abstract
BACKGROUND Heat waves can critically influence maize crop yields. Plant heat shock transcription factors (HSFs) play a key regulating role in the heat shock (HS) signal transduction pathway. METHOD In this study, a homologous cloning method was used to clone HSF gene ZmHsf01 (accession number: MK888854) from young maize leaves. The transcript levels of ZmHsf01 were detected using qRT-PCR in different tissues and treated by HS, abscisic acid (ABA), hydrogen peroxide (H2O2), respectively, and the functions of gene ZmHsf01 were studied in transgenic yeast and Arabidopsis. RESULT ZmHsf01 had a coding sequence (CDS) of 1176 bp and encoded a protein consisting of 391 amino acids. The homologous analysis results showed that ZmHsf01 and SbHsfA2d had the highest protein sequence identities. Subcellular localization experiments confirmed that ZmHsf01 was localized in the nucleus. ZmHsf01 was expressed in many maize tissues. It was up-regulated by HS, and up-regulated in roots and down-regulated in leaves under ABA and H2O2treatments. ZmHsf01-overexpressing yeast cells showed increased thermotolerance. In Arabidopsis seedlings, ZmHsf01 compensated for the thermotolerance defects of mutant athsfa2, and ZmHsf01-overexpressing lines showed enhanced basal and acquired thermotolerance. When compared to wild type (WT) seedlings, ZmHsf01-overexpressing lines showed higher chlorophyll content and survival rates after HS. Heat shock protein (HSP) gene expression levels were more up-regulated in ZmHsf01-overexpressing Arabidopsis seedlings than WT seedlings. These results suggest that ZmHsf01 plays a vital role in response to HS in plant.
Collapse
Affiliation(s)
- Huaning Zhang
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, China
| | - Guoliang Li
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, China
| | - Dong Hu
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, China
| | - Yuanyuan Zhang
- College of Life Science, Hebei Normal University, Shijiazhuang, Hebei, China
| | - Yujie Zhang
- College of Agriculture and Forestry Science and Technology, Hebei North University, Zhangjiakou, China
| | - Hongbo Shao
- Salt-soil Agricultural Center, Key Laboratory of Agricultural Environment in the Lower Reaches of Yangtze River Plain, Institute of Agriculture Resources and Environment, Jiangsu Academy of Agricultural Sciences (JAAS), Nanjing, P.R. China
- Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University, Yancheng, Jiangsu, China
- College of Environment and Safety Engineering, Qingdao University of Science & Technology, Qingdao, China
| | - Lina Zhao
- College of Life Science, Hebei Normal University, Shijiazhuang, Hebei, China
| | - Ruiping Yang
- Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University, Yancheng, Jiangsu, China
| | - Xiulin Guo
- Plant Genetic Engineering Center of Hebei Province/Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, China
| |
Collapse
|
50
|
Zandalinas SI, Fritschi FB, Mittler R. Signal transduction networks during stress combination. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:1734-1741. [PMID: 31665392 DOI: 10.1093/jxb/erz486] [Citation(s) in RCA: 79] [Impact Index Per Article: 19.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2019] [Accepted: 10/18/2019] [Indexed: 05/18/2023]
Abstract
Episodes of heat waves combined with drought can have a devastating impact on agricultural production worldwide. These conditions, as well as many other types of stress combinations, impose unique physiological and developmental demands on plants and require the activation of dedicated pathways. Here, we review recent RNA sequencing studies of stress combination in plants, and conduct a meta-analysis of the transcriptome response of plants to different types of stress combination. Our analysis reveals that each different stress combination is accompanied by its own set of stress combination-specific transcripts, and that the response of different transcription factor families is unique to each stress combination. The alarming rate of increase in global temperatures, coupled with the predicted increase in future episodes of extreme weather, highlight an urgent need to develop crop plants with enhanced tolerance to stress combination. The uniqueness and complexity of the physiological and molecular response of plants to each different stress combination, highlighted here, demonstrate the daunting challenge we face in accomplishing this goal. Dedicated efforts combining field experimentation, omics, and network analyses, coupled with advanced phenotyping and breeding methods, will be needed to address specific crops and particular stress combinations relevant to maintaining our future food chain secured.
Collapse
Affiliation(s)
- Sara I Zandalinas
- Bond Life Sciences Center, Interdisciplinary Plant Group, and Division of Plant Sciences, College of Agriculture, Food and Natural Resources, University of Missouri, Columbia, MO USA
| | - Felix B Fritschi
- Bond Life Sciences Center, Interdisciplinary Plant Group, and Division of Plant Sciences, College of Agriculture, Food and Natural Resources, University of Missouri, Columbia, MO USA
| | - Ron Mittler
- Bond Life Sciences Center, Interdisciplinary Plant Group, and Division of Plant Sciences, College of Agriculture, Food and Natural Resources, University of Missouri, Columbia, MO USA
| |
Collapse
|