1
|
Qian Z, Rao X, Zhang R, Gu S, Shen Q, Wu H, Lv S, Xie L, Li X, Wang X, Chen S, Liu L, He L, Li F. Genome-Wide Identification, Evolution, and Expression Analyses of AP2/ERF Family Transcription Factors in Erianthus fulvus. Int J Mol Sci 2023; 24:ijms24087102. [PMID: 37108264 PMCID: PMC10139229 DOI: 10.3390/ijms24087102] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2023] [Revised: 03/29/2023] [Accepted: 04/05/2023] [Indexed: 04/29/2023] Open
Abstract
The AP2/ERF transcription factor family is one of the most important gene families in plants and plays a vital role in plant abiotic stress responses. Although Erianthus fulvus is very important in the genetic improvement of sugarcane, there are few studies concerning AP2/ERF genes in E. fulvus. Here, we identified 145 AP2/ERF genes in the E. fulvus genome. Phylogenetic analysis classified them into five subfamilies. Evolutionary analysis showed that tandem and segmental duplication contributed to the expansion of the EfAP2/ERF family. Protein interaction analysis showed that twenty-eight EfAP2/ERF proteins and five other proteins had potential interaction relationships. Multiple cis-acting elements present in the EfAP2/ERF promoter were related to abiotic stress response, suggesting that EfAP2/ERF may contribute to adaptation to environmental changes. Transcriptomic and RT-qPCR analyses revealed that EfDREB10, EfDREB11, EfDREB39, EfDREB42, EfDREB44, EfERF43, and EfAP2-13 responded to cold stress, EfDREB5 and EfDREB42 responded to drought stress, and EfDREB5, EfDREB11, EfDREB39, EfERF43, and EfAP2-13 responded to ABA treatment. These results will be helpful for better understanding the molecular features and biological role of the E. fulvus AP2/ERF genes and lay a foundation for further research on the function of EfAP2/ERF genes and the regulatory mechanism of the abiotic stress response.
Collapse
Affiliation(s)
- Zhenfeng Qian
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Xibing Rao
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Rongqiong Zhang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Shujie Gu
- Sugarcane Research Institute, Yunnan Agricultural University, Kunming 650201, China
| | - Qingqing Shen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Huaying Wu
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Shaozhi Lv
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Linyan Xie
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Xianli Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Xianhong Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Shuying Chen
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Lufeng Liu
- Sugarcane Research Institute, Yunnan Agricultural University, Kunming 650201, China
| | - Lilian He
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
- Sugarcane Research Institute, Yunnan Agricultural University, Kunming 650201, China
| | - Fusheng Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
- Sugarcane Research Institute, Yunnan Agricultural University, Kunming 650201, China
- The Key Laboratory for Crop Production and Smart Agriculture of Yunnan Province, Kunming 650201, China
| |
Collapse
|
2
|
Fan S, Chen J, Yang R. Candidate Genes for Salt Tolerance in Forage Sorghum under Saline Conditions from Germination to Harvest Maturity. Genes (Basel) 2023; 14:genes14020293. [PMID: 36833220 PMCID: PMC9956952 DOI: 10.3390/genes14020293] [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: 10/03/2022] [Revised: 12/23/2022] [Accepted: 01/16/2023] [Indexed: 01/26/2023] Open
Abstract
To address the plant adaptability of sorghum (Sorghum bicolor) in salinity, the research focus should shift from only selecting tolerant varieties to understanding the precise whole-plant genetic coping mechanisms with long-term influence on various phenotypes of interest to expanding salinity, improving water use, and ensuring nutrient use efficiency. In this review, we discovered that multiple genes may play pleiotropic regulatory roles in sorghum germination, growth, and development, salt stress response, forage value, and the web of signaling networks. The conserved domain and gene family analysis reveals a remarkable functional overlap among members of the bHLH (basic helix loop helix), WRKY (WRKY DNA-binding domain), and NAC (NAM, ATAF1/2, and CUC2) superfamilies. Shoot water and carbon partitioning, for example, are dominated by genes from the aquaporins and SWEET families, respectively. The gibberellin (GA) family of genes is prevalent during pre-saline exposure seed dormancy breaking and early embryo development at post-saline exposure. To improve the precision of the conventional method of determining silage harvest maturity time, we propose three phenotypes and their underlying genetic mechanisms: (i) the precise timing of transcriptional repression of cytokinin biosynthesis (IPT) and stay green (stg1 and stg2) genes; (ii) the transcriptional upregulation of the SbY1 gene and (iii) the transcriptional upregulation of the HSP90-6 gene responsible for grain filling with nutritive biochemicals. This work presents a potential resource for sorghum salt tolerance and genetic studies for forage and breeding.
Collapse
|
3
|
Bai X, Zhou Y, Islam MA, Zhang W, Ning L, Ling B, Wang Y, Xu Z, Sun D, Chen M. A soybean
GmDREB3
gene contributes to drought tolerance in wheat. Food Energy Secur 2022. [DOI: 10.1002/fes3.426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022] Open
Affiliation(s)
- Xingxuan Bai
- College of Agriculture Shanxi Agricultural University Taigu Shanxi China
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/Key Laboratory of Biology and Genetic Improvement of Triticeae Crops Ministry of Agriculture Beijing China
| | - Yongbin Zhou
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/Key Laboratory of Biology and Genetic Improvement of Triticeae Crops Ministry of Agriculture Beijing China
| | - Md Ashraful Islam
- College of Agriculture Shanxi Agricultural University Taigu Shanxi China
| | - Weibin Zhang
- Maize Research Institute Shanxi Agricultural University Xinzhou China
| | - Lei Ning
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/Key Laboratory of Biology and Genetic Improvement of Triticeae Crops Ministry of Agriculture Beijing China
| | - Bingqi Ling
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/Key Laboratory of Biology and Genetic Improvement of Triticeae Crops Ministry of Agriculture Beijing China
| | - Yanxia Wang
- Shijiazhuang Academy of Agricultural and Forestry Sciences Research Center of Wheat Engineering Technology of Hebei Shijiazhuang Hebei China
| | - Zhao‐Shi Xu
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/Key Laboratory of Biology and Genetic Improvement of Triticeae Crops Ministry of Agriculture Beijing China
| | - Daizhen Sun
- College of Agriculture Shanxi Agricultural University Taigu Shanxi China
| | - Ming Chen
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/Key Laboratory of Biology and Genetic Improvement of Triticeae Crops Ministry of Agriculture Beijing China
| |
Collapse
|
4
|
Bublyk OM, Andreev IO, Kunakh VA. Comparative Analysis of Promoters of DREB2B Transcription Factor Genes in Deschampsia antarctica and Other Grasses. CYTOL GENET+ 2022. [DOI: 10.3103/s0095452722050048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
5
|
Li X, Liang X, Li W, Yao A, Liu W, Wang Y, Yang G, Han D. Isolation and Functional Analysis of MbCBF2, a Malus baccata (L.) Borkh CBF Transcription Factor Gene, with Functions in Tolerance to Cold and Salt Stress in Transgenic Arabidopsis thaliana. Int J Mol Sci 2022; 23:ijms23179827. [PMID: 36077223 PMCID: PMC9456559 DOI: 10.3390/ijms23179827] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Revised: 08/25/2022] [Accepted: 08/26/2022] [Indexed: 11/16/2022] Open
Abstract
CBF transcription factors (TFs) are key regulators of plant stress tolerance and play an integral role in plant tolerance to adverse growth environments. However, in the current research situation, there are few reports on the response of the CBF gene to Begonia stress. Therefore, this experiment investigated a novel CBF TF gene, named MbCBF2, which was isolated from M. baccata seedlings. According to the subcellular localization results, the MbCBF2 protein was located in the nucleus. In addition, the expression level of MbCBF2 was higher in new leaves and roots under low-temperature and high-salt induction. After the introduction of MbCBF2 into Arabidopsis thaliana, the adaptability of transgenic A. thaliana to cold and high-salt environments was significantly enhanced. In addition, the high expression of MbCBF2 can also change many physiological indicators in transgenic A. thaliana, such as increased chlorophyll and proline content, superoxide dismutase (SOD), peroxidase (POD) and catalase (CAT) activity, and reduced malondialdehyde (MDA) content. Therefore, it can be seen from the above results that MbCBF2 can positively regulate the response of A. thaliana to low-temperature and osmotic stress. In addition, MbCBF2 can also regulate the expression of its downstream genes in transgenic lines. It can not only positively regulate the expression of the downstream key genes AtCOR15a, AtERD10, AtRD29a/b and AtCOR6.6/47, related to cold stress at low temperatures, but can also positively regulate the expression of the downstream key genes AtNCED3, AtCAT1, AtP5CS, AtPIF1/4 and AtSnRK2.4, related to salt stress. That is, the overexpression of the MbCBF2 gene further improved the adaptability and tolerance of transgenic plants to low-temperature and high-salt environments.
Collapse
Affiliation(s)
- Xingguo Li
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/National-Local Joint Engineering Research Center for Development and Utilization of Small Fruits in Cold Regions/College of Horticulture & Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Xiaoqi Liang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/National-Local Joint Engineering Research Center for Development and Utilization of Small Fruits in Cold Regions/College of Horticulture & Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Wenhui Li
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/National-Local Joint Engineering Research Center for Development and Utilization of Small Fruits in Cold Regions/College of Horticulture & Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Anqi Yao
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/National-Local Joint Engineering Research Center for Development and Utilization of Small Fruits in Cold Regions/College of Horticulture & Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Wanda Liu
- Horticulture Branch of Heilongjiang Academy of Agricultural Sciences, Harbin 150040, China
| | - Yu Wang
- Horticulture Branch of Heilongjiang Academy of Agricultural Sciences, Harbin 150040, China
| | - Guohui Yang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/National-Local Joint Engineering Research Center for Development and Utilization of Small Fruits in Cold Regions/College of Horticulture & Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
- Correspondence: (G.Y.); (D.H.)
| | - Deguo Han
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Northeast Region), Ministry of Agriculture and Rural Affairs/National-Local Joint Engineering Research Center for Development and Utilization of Small Fruits in Cold Regions/College of Horticulture & Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
- Correspondence: (G.Y.); (D.H.)
| |
Collapse
|
6
|
Wu Y, Zhang L, Nie L, Zheng Y, Zhu S, Hou J, Li R, Chen G, Tang X, Wang C, Yuan L. Genome-wide analysis of the DREB family genes and functional identification of the involvement of BrDREB2B in abiotic stress in wucai (Brassica campestris L.). BMC Genomics 2022; 23:598. [PMID: 35978316 PMCID: PMC9382803 DOI: 10.1186/s12864-022-08812-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 07/30/2022] [Indexed: 11/10/2022] Open
Abstract
Dehydration responsive element binding protein (DREB) is a significant transcription factor class known to be implicated in abiotic stresses. In this study, we systematically conducted a genome-wide identification and expression analysis of the DREB gene family, including gene structures, evolutionary relationships, chromosome distribution, conserved domains, and expression patterns. A total of 65 DREB family gene members were identified in Chinese cabbage (Brassica rapa L.) and were classified into five subgroups based on phylogenetic analysis. Through analysis of the conserved domains of BrDREB family genes, only one exon existed in the gene structure. Through the analysis of cis-acting elements, these genes were mainly involved in hormone regulation and adversity stress. In order to identify the function of BrDREB2B, overexpressed transgenic Arabidopsis was constructed. After different stress treatments, the germination rate, root growth, survival rate, and various plant physiological indicators were measured. The results showed that transgenic Arabidopsis thaliana plants overexpressing BrDREB2B exhibited enhanced tolerance to salt, heat and drought stresses. Taken together, our results are the first to report the BrDREB2B gene response to drought and heat stresses in Chinese cabbage and provide a basis for further studies to determine the function of BrDREBs in response to abiotic stresses.
Collapse
Affiliation(s)
- Ying Wu
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China
| | - Liting Zhang
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China
| | - Libing Nie
- College of Horticulture and Forestry, Huazhong Agricultural University, 430070, Wuhan, Hubei, China
| | - Yushan Zheng
- College of Horticulture, Nanjing Agricultural University, 210095, Nanjing, Jiangsu, China
| | - Shidong Zhu
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China.,Wanjiang Vegetable Industrial Technology Institute, 238200, Maanshan, Anhui, China
| | - Jinfeng Hou
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China.,Wanjiang Vegetable Industrial Technology Institute, 238200, Maanshan, Anhui, China
| | - Renjie Li
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China
| | - Guohu Chen
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China.,Wanjiang Vegetable Industrial Technology Institute, 238200, Maanshan, Anhui, China
| | - Xiaoyan Tang
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China.,Wanjiang Vegetable Industrial Technology Institute, 238200, Maanshan, Anhui, China
| | - Chenggang Wang
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China. .,Wanjiang Vegetable Industrial Technology Institute, 238200, Maanshan, Anhui, China.
| | - Lingyun Yuan
- College of Horticulture, Anhui Agricultural University, 230036, Hefei, Anhui, China. .,Wanjiang Vegetable Industrial Technology Institute, 238200, Maanshan, Anhui, China.
| |
Collapse
|
7
|
Overexpression of SgDREB2C from Stylosanthes guianensis Leads to Increased Drought Tolerance in Transgenic Arabidopsis. Int J Mol Sci 2022; 23:ijms23073520. [PMID: 35408881 PMCID: PMC8998575 DOI: 10.3390/ijms23073520] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Revised: 03/15/2022] [Accepted: 03/18/2022] [Indexed: 12/04/2022] Open
Abstract
Stylosanthes guianensis is an excellent forage legume in subtropical and tropical regions with drought tolerance, but little is known about its drought tolerance mechanism. Dehydration responsive element binding proteins (DREBs) are responsive to abiotic stresses. A SgDREB2C was cloned from S. guianensis, while SgDREB2C protein was localized at nucleus. SgDREB2C transcript was induced by dehydration treatment. Transgenic Arabidopsis overexpressing SgDREB2C showed enhanced osmotic and drought tolerance with higher levels of relative germination rate, seedlings survival rate and Fv/Fm and lower levels of ion leakage compared with WT after osmotic and drought stress treatments. In addition, higher levels of superoxide dismutase (SOD) and ascorbate peroxidase (APX) activities and stress responsive gene (COR15A, COR47) transcripts were observed in transgenic Arabidopsis than in WT under drought stress. These results suggest that SgDREB2C regulated drought tolerance, which was associated with increased SOD and APX activities and stress-responsive gene expression under drought stress.
Collapse
|
8
|
Exploitation of Drought Tolerance-Related Genes for Crop Improvement. Int J Mol Sci 2021; 22:ijms221910265. [PMID: 34638606 PMCID: PMC8508643 DOI: 10.3390/ijms221910265] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Revised: 09/15/2021] [Accepted: 09/15/2021] [Indexed: 12/03/2022] Open
Abstract
Drought has become a major threat to food security, because it affects crop growth and development. Drought tolerance is an important quantitative trait, which is regulated by hundreds of genes in crop plants. In recent decades, scientists have made considerable progress to uncover the genetic and molecular mechanisms of drought tolerance, especially in model plants. This review summarizes the evaluation criteria for drought tolerance, methods for gene mining, characterization of genes related to drought tolerance, and explores the approaches to enhance crop drought tolerance. Collectively, this review illustrates the application prospect of these genes in improving the drought tolerance breeding of crop plants.
Collapse
|
9
|
Li Z, Wang G, Liu X, Wang Z, Zhang M, Zhang J. Genome-wide identification and expression profiling of DREB genes in Saccharum spontaneum. BMC Genomics 2021; 22:456. [PMID: 34139993 PMCID: PMC8212459 DOI: 10.1186/s12864-021-07799-5] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2021] [Accepted: 06/10/2021] [Indexed: 12/02/2022] Open
Abstract
Background The dehydration-responsive element-binding proteins (DREBs) are important transcription factors that interact with a DRE/CRT (C-repeat) sequence and involve in response to multiple abiotic stresses in plants. Modern sugarcane are hybrids from the cross between Saccharum spontaneum and Saccharum officinarum, and the high sugar content is considered to the attribution of S. officinaurm, while the stress tolerance is attributed to S. spontaneum. To understand the molecular and evolutionary characterization and gene functions of the DREBs in sugarcane, based on the recent availability of the whole genome information, the present study performed a genome-wide in silico analysis of DREB genes and transcriptome analysis in the polyploidy S. spontaneum. Results Twelve DREB1 genes and six DREB2 genes were identified in S. spontaneum genome and all proteins contained a conserved AP2/ERF domain. Eleven SsDREB1 allele genes were assumed to be originated from tandem duplications, and two of them may be derived after the split of S. spontaneum and the proximal diploid species sorghum, suggesting tandem duplication contributed to the expansion of DREB1-type genes in sugarcane. Phylogenetic analysis revealed that one DREB2 gene was lost during the evolution of sugarcane. Expression profiling showed different SsDREB genes with variable expression levels in the different tissues, indicating seven SsDREB genes were likely involved in the development and photosynthesis of S. spontaneum. Furthermore, SsDREB1F, SsDREB1L, SsDREB2D, and SsDREB2F were up-regulated under drought and cold condition, suggesting that these four genes may be involved in both dehydration and cold response in sugarcane. Conclusions These findings demonstrated the important role of DREBs not only in the stress response, but also in the development and photosynthesis of S. spontaneum. Supplementary Information The online version contains supplementary material available at 10.1186/s12864-021-07799-5.
Collapse
Affiliation(s)
- Zhen Li
- Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Gang Wang
- Jiangsu Key Laboratory for Bioresources of Saline Soils, Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources and Environmental Protection, Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University, Yancheng, 224051, China
| | - Xihui Liu
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
| | - Zhengchao Wang
- Provincial Key Laboratory for Developmental Biology and Neurosciences, College of Life Sciences, Fujian Normal University, Fuzhou, 350007, China
| | - Muqing Zhang
- Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, 530004, Guangxi, China.
| | - Jisen Zhang
- Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. .,Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Nanning, 530004, Guangxi, China.
| |
Collapse
|
10
|
Herath V, Verchot J. Transcriptional Regulatory Networks Associate with Early Stages of Potato Virus X Infection of Solanum tuberosum. Int J Mol Sci 2021; 22:2837. [PMID: 33799566 PMCID: PMC8001266 DOI: 10.3390/ijms22062837] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2021] [Revised: 03/04/2021] [Accepted: 03/09/2021] [Indexed: 11/16/2022] Open
Abstract
Potato virus X (PVX) belongs to genus Potexvirus. This study characterizes the cellular transcriptome responses to PVX infection in Russet potato at 2 and 3 days post infection (dpi). Among the 1242 differentially expressed genes (DEGs), 268 genes were upregulated, and 37 genes were downregulated at 2 dpi while 677 genes were upregulated, and 265 genes were downregulated at 3 dpi. DEGs related to signal transduction, stress response, and redox processes. Key stress related transcription factors were identified. Twenty-five pathogen resistance gene analogs linked to effector triggered immunity or pathogen-associated molecular pattern (PAMP)-triggered immunity were identified. Comparative analysis with Arabidopsis unfolded protein response (UPR) induced DEGs revealed genes associated with UPR and plasmodesmata transport that are likely needed to establish infection. In conclusion, this study provides an insight on major transcriptional regulatory networked involved in early response to PVX infection and establishment.
Collapse
Affiliation(s)
- Venura Herath
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX 77802, USA;
- Department of Agriculture Biology, Faculty of Agriculture, University of Peradeniya, Peradeniya 20400, Sri Lanka
| | - Jeanmarie Verchot
- Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX 77802, USA;
| |
Collapse
|
11
|
The AP2/ERF Gene Family in Triticum durum: Genome-Wide Identification and Expression Analysis under Drought and Salinity Stresses. Genes (Basel) 2020; 11:genes11121464. [PMID: 33297327 PMCID: PMC7762271 DOI: 10.3390/genes11121464] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Revised: 11/30/2020] [Accepted: 12/03/2020] [Indexed: 12/27/2022] Open
Abstract
Members of the AP2/ERF transcription factor family play critical roles in plant development, biosynthesis of key metabolites, and stress response. A detailed study was performed to identify TtAP2s/ERFs in the durum wheat (Triticum turgidum ssp. durum) genome, which resulted in the identification of 271 genes distributed on chromosomes 1A-7B. By carrying 27 genes, chromosome 6A had the highest number of TtAP2s/ERFs. Furthermore, a duplication assay of TtAP2s/ERFs demonstrated that 70 duplicated gene pairs had undergone purifying selection. According to RNA-seq analysis, the highest expression levels in all tissues and in response to stimuli were associated with DRF and ERF subfamily genes. In addition, the results revealed that TtAP2/ERF genes have tissue-specific expression patterns, and most TtAP2/ERF genes were significantly induced in the root tissue. Additionally, 13 TtAP2/ERF genes (six ERFs, three DREBs, two DRFs, one AP2, and one RAV) were selected for further analysis via qRT-PCR of their potential in coping with drought and salinity stresses. The TtAP2/ERF genes belonging to the DREB subfamily were markedly induced under both drought-stress and salinity-stress conditions. Furthermore, docking simulations revealed several residues in the pocket sites of the proteins associated with the stress response, which may be useful in future site-directed mutagenesis studies to increase the stress tolerance of durum wheat. This study could provide valuable insights for further evolutionary and functional assays of this important gene family in durum wheat.
Collapse
|
12
|
Wang G, Xu X, Wang H, Liu Q, Yang X, Liao L, Cai G. A tomato transcription factor, SlDREB3 enhances the tolerance to chilling in transgenic tomato. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2019; 142:254-262. [PMID: 31326718 DOI: 10.1016/j.plaphy.2019.07.017] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2019] [Revised: 07/09/2019] [Accepted: 07/16/2019] [Indexed: 05/23/2023]
Abstract
The dehydration response factor (DREB) transcription factor (TF) family can function in response to multiple cues around environment in plants. Nevertheless, the functions of dehydration response factor (DREB protein) in plant cold tolerance, especially in tomatoes (Solanum lycopersicum), have been rarely studied. In this study, the functions of tomato DREB TF (SlDREB3) in cold resistance were studied using transgenic tomatoes. The level of transcripts revealed that SlDREB3 was triggered by H2O2 and 4 °C treatments, indicating that SlDREB3 participates in response to cold stress in plants. SlDREB3-overexpressing plants exhibited high fresh mass, chlorophyll content, Fv/Fm, and O2-evolving activity; low membrane damage; and reactive oxygen species accumulation under chilling stress. Furthermore, the high expression levels of late embryogenesis-abundant genes SlLEA9 and SlLEA26 were detected in transgenic plants in response to cold stress. These findings revealed that SlDREB3 overexpression improved the tolerance to cold stress in transgenic plants possibly by upregulating SlLEAs expression.
Collapse
Affiliation(s)
- Guodong Wang
- College of Biological Science, Jining Medical University, Ri'zhao, Shandong, 276800, PR China.
| | - Xinping Xu
- College of Biological Science, Jining Medical University, Ri'zhao, Shandong, 276800, PR China
| | - Hao Wang
- College of Biological Science, Jining Medical University, Ri'zhao, Shandong, 276800, PR China
| | - Qi Liu
- College of Biological Science, Jining Medical University, Ri'zhao, Shandong, 276800, PR China
| | - Xiaotong Yang
- College of Biological Science, Jining Medical University, Ri'zhao, Shandong, 276800, PR China
| | - Lixiang Liao
- College of Biological Science, Jining Medical University, Ri'zhao, Shandong, 276800, PR China
| | - Guohua Cai
- College of Life Science, Nanjing University, Nan'jing, Jiangshu, 210046, PR China.
| |
Collapse
|
13
|
Akbudak MA, Filiz E, Kontbay K. DREB2 (dehydration-responsive element-binding protein 2) type transcription factor in sorghum ( Sorghum bicolor): genome-wide identification, characterization and expression profiles under cadmium and salt stresses. 3 Biotech 2018; 8:426. [PMID: 30305995 DOI: 10.1007/s13205-018-1454-1] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2018] [Accepted: 09/24/2018] [Indexed: 10/28/2022] Open
Abstract
Biotic and abiotic stresses negatively affect fitness, biomass production, and crop yield in plants. The dehydration-responsive element-binding proteins (DREB) are important transcription factors (TFs), and are induced by abiotic and biotic stresses. In this study, genome-wide identification, in silico sequence, and phylogenetic analyses and expression analyses of DREB2 genes under cadmium (Cd) and salt (NaCl) stresses in sorghum (Sorghum bicolor, Sb) were performed. Six putative SbDREB2 genes were identified in sorghum genome and all contained AP2 domain (PF00847). Nucleotide diversities in SbDREB2 genes were calculated as π: 0.53 and θ: 0.39, respectively. While exon numbers of them were either one or two, length of SbDREB2 proteins ranged from 238 to 388 amino acid residues. Fifty-six cis-acting regulatory elements, which are tissue specific, light, hormone, and stress responsive, were identified in the promotor regions of SbDREB2 genes. Analyses on digital expression data indicated that SbDREB2A and SbDREB2B are more expressed genes than other SbDREB genes in sorghum. Under Cd and NaCl stresses, expressions of SbDREB2 genes were induced at different levels. All SbDREB2 genes in root were up-regulated under salt stress. In case of Cd stress, SbDREB2D gene was particularly up-regulated in leaves and roots. Co-expression analyses revealed four of TFs in co-expression network, indicating that they have roles in transcriptional cascade. Furthermore, five miRNA target regions were identified for four SbDREB2 genes, indicating their roles in post-transcriptional regulation. The predicted 3D structure of SbDREB2 proteins showed some structural divergences and structure overlap between rice and sorghum varied at between 26.58 and 50%. Finally, obtained data could be used in breeding of stress-tolerant plants, particularly genetically engineered DREB2 expressing plants. Findings in this study would also contribute to the understanding of DREB2 genes in plants, especially in sorghum.
Collapse
|
14
|
Xiang DJ, Man LL, Zhang CL, Peng-Liu, Li ZG, Zheng GC. A new Em-like protein from Lactuca sativa, LsEm1, enhances drought and salt stress tolerance in Escherichia coli and rice. PROTOPLASMA 2018; 255:1089-1106. [PMID: 29417232 DOI: 10.1007/s00709-018-1207-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Accepted: 01/10/2018] [Indexed: 06/08/2023]
Abstract
Late embryogenesis abundant (LEA) proteins are closely related to abiotic stress tolerance of plants. In the present study, we identified a novel Em-like gene from lettuce, termed LsEm1, which could be classified into group 1 LEA proteins, and shared high homology with Cynara cardunculus Em protein. The LsEm1 protein contained three different 20-mer conserved elements (C-element, N-element, and M-element) in the C-termini, N-termini, and middle-region, respectively. The LsEm1 mRNAs were accumulated in all examined tissues during the flowering and mature stages, with a little accumulation in the roots and leaves during the seedling stage. Furthermore, the LsEm1 gene was also expressed in response to salt, dehydration, abscisic acid (ABA), and cold stresses in young seedlings. The LsEm1 protein could effectively reduce damage to the lactate dehydrogenase (LDH) and protect LDH activity under desiccation and salt treatments. The Escherichia coli cells overexpressing the LsEm1 gene showed a growth advantage over the control under drought and salt stresses. Moreover, LsEm1-overexpressing rice seeds were relatively sensitive to exogenously applied ABA, suggesting that the LsEm1 gene might depend on an ABA signaling pathway in response to environmental stresses. The transgenic rice plants overexpressing the LsEm1 gene showed higher tolerance to drought and salt stresses than did wild-type (WT) plants on the basis of the germination performances, higher survival rates, higher chlorophyll content, more accumulation of soluble sugar, lower relative electrolyte leakage, and higher superoxide dismutase activity under stress conditions. The LsEm1-overexpressing rice lines also showed less yield loss compared with WT rice under stress conditions. Furthermore, the LsEm1 gene had a positive effect on the expression of the OsCDPK9, OsCDPK13, OsCDPK15, OsCDPK25, and rab21 (rab16a) genes in transgenic rice under drought and salt stress conditions, implying that overexpression of these genes may be involved in the enhanced drought and salt tolerance of transgenic rice. Thus, this work paves the way for improvement in tolerance of crops by genetic engineering breeding.
Collapse
Affiliation(s)
- Dian-Jun Xiang
- College of Agriculture, Inner Mongolia University for Nationalities, Tongliao, 028042, China
| | - Li-Li Man
- College of Life Science, Inner Mongolia University for Nationalities, Tongliao, 028042, China.
| | - Chun-Lan Zhang
- College of Life Science, Inner Mongolia University for Nationalities, Tongliao, 028042, China
| | - Peng-Liu
- College of Agriculture, Inner Mongolia University for Nationalities, Tongliao, 028042, China
| | - Zhi-Gang Li
- College of Agriculture, Inner Mongolia University for Nationalities, Tongliao, 028042, China
| | - Gen-Chang Zheng
- College of Agriculture, Inner Mongolia University for Nationalities, Tongliao, 028042, China
| |
Collapse
|