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Basso MF, Girardin G, Vergata C, Buti M, Martinelli F. Genome-wide transcript expression analysis reveals major chickpea and lentil genes associated with plant branching. FRONTIERS IN PLANT SCIENCE 2024; 15:1384237. [PMID: 38962245 PMCID: PMC11220206 DOI: 10.3389/fpls.2024.1384237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Accepted: 05/31/2024] [Indexed: 07/05/2024]
Abstract
The search for elite cultivars with better architecture has been a demand by farmers of the chickpea and lentil crops, which aims to systematize their mechanized planting and harvesting on a large scale. Therefore, the identification of genes associated with the regulation of the branching and architecture of these plants has currently gained great importance. Herein, this work aimed to gain insight into transcriptomic changes of two contrasting chickpea and lentil cultivars in terms of branching pattern (little versus highly branched cultivars). In addition, we aimed to identify candidate genes involved in the regulation of shoot branching that could be used as future targets for molecular breeding. The axillary and apical buds of chickpea cultivars Blanco lechoso and FLIP07-318C, and lentil cultivars Castellana and Campisi, considered as little and highly branched, respectively, were harvested. A total of 1,624 and 2,512 transcripts were identified as differentially expressed among different tissues and contrasting cultivars of chickpea and lentil, respectively. Several gene categories were significantly modulated such as cell cycle, DNA transcription, energy metabolism, hormonal biosynthesis and signaling, proteolysis, and vegetative development between apical and axillary tissues and contrasting cultivars of chickpea and lentil. Based on differential expression and branching-associated biological function, ten chickpea genes and seven lentil genes were considered the main players involved in differentially regulating the plant branching between contrasting cultivars. These collective data putatively revealed the general mechanism and high-effect genes associated with the regulation of branching in chickpea and lentil, which are potential targets for manipulation through genome editing and transgenesis aiming to improve plant architecture.
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Affiliation(s)
| | | | - Chiara Vergata
- Department of Biology, University of Florence, Florence, Italy
| | - Matteo Buti
- Department of Agriculture, Food, Environment and Forestry (DAGRI), University of Florence, Florence, Italy
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Tian X, Li Y, Wang S, Zou H, Xiao Q, Ma B, Ma F, Li M. Glucose uptake from the rhizosphere mediated by MdDOF3-MdHT1.2 regulates drought resistance in apple. PLANT BIOTECHNOLOGY JOURNAL 2024; 22:1566-1581. [PMID: 38205680 PMCID: PMC11123392 DOI: 10.1111/pbi.14287] [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: 10/10/2023] [Revised: 11/28/2023] [Accepted: 12/27/2023] [Indexed: 01/12/2024]
Abstract
In plants under drought stress, sugar content in roots increases, which is important for drought resistance. However, the molecular mechanisms for controlling the sugar content in roots during response to drought remain elusive. Here, we found that the MdDOF3-MdHT1.2 module-mediated glucose influx into the root is essential for drought resistance in apple (Malus × domestica). Drought induced glucose uptake from the rhizosphere and up-regulated the transcription of hexose transporter MdHT1.2. Compared with the wild-type plants, overexpression of MdHT1.2 promoted glucose uptake from the rhizosphere, thereby facilitating sugar accumulation in root and enhancing drought resistance, whereas silenced plants showed the opposite phenotype. Furthermore, ATAC-seq, RNA-seq and biochemical analysis demonstrated that MdDOF3 directly bound to the promoter of MdHT1.2 and was strongly up-regulated under drought. Overexpression of MdDOF3 in roots improved MdHT1.2-mediated glucose transport capacity and enhanced plant resistance to drought, but MdDOF3-RNAihr apple plants showed the opposite phenotype. Moreover, overexpression of MdDOF3 in roots did not attenuate drought sensitivity in MdHT1.2-RNAi plants, which was correlated with a lower glucose uptake capacity and glucose content in root. Collectively, our findings deciphered the molecular mechanism through which glucose uptake from the rhizosphere is mediated by MdDOF3-MdHT1.2, which acts to modulate sugar content in root and promote drought resistance.
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Affiliation(s)
- Xiaocheng Tian
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Yuxing Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Shaoteng Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Hui Zou
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Qian Xiao
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Baiquan Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Fengwang Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
| | - Mingjun Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Horticulture, Shaanxi Key Laboratory of AppleNorthwest A&F UniversityYanglingShaanxiChina
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Yu L, Liu D, Yin F, Yu P, Lu S, Zhang Y, Zhao H, Lu C, Yao X, Dai C, Yang QY, Guo L. Interaction between phenylpropane metabolism and oil accumulation in the developing seed of Brassica napus revealed by high temporal-resolution transcriptomes. BMC Biol 2023; 21:202. [PMID: 37775748 PMCID: PMC10543336 DOI: 10.1186/s12915-023-01705-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Accepted: 09/18/2023] [Indexed: 10/01/2023] Open
Abstract
BACKGROUND Brassica napus is an important oilseed crop providing high-quality vegetable oils for human consumption and non-food applications. However, the regulation between embryo and seed coat for the synthesis of oil and phenylpropanoid compounds remains largely unclear. RESULTS Here, we analyzed the transcriptomes in developing seeds at 2-day intervals from 14 days after flowering (DAF) to 64 DAF. The 26 high-resolution time-course transcriptomes are clearly clustered into five distinct groups from stage I to stage V. A total of 2217 genes including 136 transcription factors, are specifically expressed in the seed and show high temporal specificity by being expressed only at certain stages of seed development. Furthermore, we analyzed the co-expression networks during seed development, which mainly included master regulatory transcription factors, lipid, and phenylpropane metabolism genes. The results show that the phenylpropane pathway is prominent during seed development, and the key enzymes in the phenylpropane metabolic pathway, including TT5, BAN, and the transporter TT19, were directly or indirectly related to many key enzymes and transcription factors involved in oil accumulation. We identified candidate genes that may regulate seed oil content based on the co-expression network analysis combined with correlation analysis of the gene expression with seed oil content and seed coat content. CONCLUSIONS Overall, these results reveal the transcriptional regulation between lipid and phenylpropane accumulation during B. napus seed development. The established co-expression networks and predicted key factors provide important resources for future studies to reveal the genetic control of oil accumulation in B. napus seeds.
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Affiliation(s)
- Liangqian Yu
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
| | - Dongxu Liu
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, China
| | - Feifan Yin
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
| | - Pugang Yu
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
| | - Shaoping Lu
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
| | - Yuting Zhang
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
- Yazhouwan National Laboratory, Sanya, 572025, China
| | - Hu Zhao
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
| | - Chaofu Lu
- Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, 59717, USA
| | - Xuan Yao
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China
- Yazhouwan National Laboratory, Sanya, 572025, China
| | - Cheng Dai
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China.
| | - Qing-Yong Yang
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China.
- Yazhouwan National Laboratory, Sanya, 572025, China.
| | - Liang Guo
- National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, 430070, China.
- Yazhouwan National Laboratory, Sanya, 572025, China.
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Zou X, Sun H. DOF transcription factors: Specific regulators of plant biological processes. FRONTIERS IN PLANT SCIENCE 2023; 14:1044918. [PMID: 36743498 PMCID: PMC9897228 DOI: 10.3389/fpls.2023.1044918] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Accepted: 01/03/2023] [Indexed: 06/12/2023]
Abstract
Plant biological processes, such as growth and metabolism, hormone signal transduction, and stress responses, are affected by gene transcriptional regulation. As gene expression regulators, transcription factors activate or inhibit target gene transcription by directly binding to downstream promoter elements. DOF (DNA binding with One Finger) is a classic transcription factor family exclusive to plants that is characterized by its single zinc finger structure. With breakthroughs in taxonomic studies of different species in recent years, many DOF members have been reported to play vital roles throughout the plant life cycle. They are not only involved in regulating hormone signals and various biotic or abiotic stress responses but are also reported to regulate many plant biological processes, such as dormancy, tissue differentiation, carbon and nitrogen assimilation, and carbohydrate metabolism. Nevertheless, some outstanding issues remain. This article mainly reviews the origin and evolution, protein structure, and functions of DOF members reported in studies published in many fields to clarify the direction for future research on DOF transcription factors.
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Affiliation(s)
- Xiaoman Zou
- Key Laboratory of Protected Horticulture of Education Ministry, College of Horticulture, Shenyang Agricultural University, Shenyang, China
| | - Hongmei Sun
- Key Laboratory of Protected Horticulture of Education Ministry, College of Horticulture, Shenyang Agricultural University, Shenyang, China
- National and Local Joint Engineering Research Center of Northern Horticultural Facilities Design and Application Technology, Shenyang, China
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Zhang F, Fan R, Yan L, Hu L, Su F, Yang D, Li J. Genome-wide identification of black pepper (Piper nigrum L.) Dof gene family and the differential gene screening in resistance to Phytophthora capsici. Biologia (Bratisl) 2022. [DOI: 10.1007/s11756-022-01232-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
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Genome-Wide Identification and Expression Analysis of Dof Transcription Factors in Lotus (Nelumbo nucifera Gaertn.). PLANTS 2022; 11:plants11152057. [PMID: 35956535 PMCID: PMC9370771 DOI: 10.3390/plants11152057] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 08/01/2022] [Accepted: 08/03/2022] [Indexed: 12/03/2022]
Abstract
Lotus (Nelumbo nucifera Gaertn.) is a traditional Chinese aquatic flower with high ornamental and economic value, but water salinity seriously affects lotus cultivation and distribution. The Dof transcription factors (TFs) play a crucial function in the regulatory network of growth and defense in plants. However, no systematic investigations of the Dof TFs in lotus have been performed. In this study, comprehensive searches of the lotus genome yielded 29 potential NnDofs. We carried out a series of standardized analyses, which include physical properties, multiple sequence alignment, phylogenetic analysis, gene structure, motif composition, cis-acting element prediction, chromosome distribution, and synteny analysis. The results showed that segment duplication probably caused the NnDofs gene family expansion. The potential functions of NnDofs in lotus development and stress conditions are speculated by promoter analysis. Furthermore, a complete expression investigation of NnDofs utilizing an RNA-seq atlas and quantitative real-time polymerase chain reaction (qRT-PCR) was performed. The majority of the NnDofs exhibit tissue-specific expression patterns, and many genes have been identified as being extremely sensitive to salt stressors. Overall, this study is the first to report a genome-wide assessment of the Dof family in lotus, and the findings offer vital insights for prospective functional studies on lotus salinity stress.
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Gandass N, Salvi P. Intrinsically disordered protein, DNA binding with one finger transcription factor ( OsDOF27) implicates thermotolerance in yeast and rice. FRONTIERS IN PLANT SCIENCE 2022; 13:956299. [PMID: 35968137 PMCID: PMC9372624 DOI: 10.3389/fpls.2022.956299] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Accepted: 06/30/2022] [Indexed: 06/15/2023]
Abstract
Intrinsically disorder regions or proteins (IDRs or IDPs) constitute a large subset of the eukaryotic proteome, which challenges the protein structure-function paradigm. These IDPs lack a stable tertiary structure, yet they play a crucial role in the diverse biological process of plants. This study represents the intrinsically disordered nature of a plant-specific DNA binding with one finger transcription factor (DOF-TF). Here, we have investigated the role of OsDOF27 and characterized it as an intrinsically disordered protein. Furthermore, the molecular role of OsDOF27 in thermal stress tolerance has been elucidated. The qRT-PCR analysis revealed that OsDOF27 was significantly upregulated under different abiotic stress treatments in rice, particularly under heat stress. The stress-responsive transcript induction of OsDOF27 was further correlated with enriched abiotic stress-related cis-regulatory elements present in its promoter region. The in vivo functional analysis of the potential role of OsDOF27 in thermotolerance was further studied in yeast and in planta. Ectopic expression of OsDOF27 in yeast implicates thermotolerance response. Furthermore, the rice transgenic lines with overexpressing OsDOF27 revealed a positive role in mitigating heat stress tolerance. Collectively, our results evidently show the intrinsically disorderedness in OsDOF27 and its role in thermal stress response in rice.
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Niñoles R, Ruiz-Pastor CM, Arjona-Mudarra P, Casañ J, Renard J, Bueso E, Mateos R, Serrano R, Gadea J. Transcription Factor DOF4.1 Regulates Seed Longevity in Arabidopsis via Seed Permeability and Modulation of Seed Storage Protein Accumulation. FRONTIERS IN PLANT SCIENCE 2022; 13:915184. [PMID: 35845633 PMCID: PMC9284063 DOI: 10.3389/fpls.2022.915184] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2022] [Accepted: 05/23/2022] [Indexed: 05/30/2023]
Abstract
Seed longevity is modulated by multiple genetic factors in Arabidopsis thaliana. A previous genome-wide association study using the Elevated Partial Pressure of Oxygen (EPPO) aging assay pinpointed a genetic locus associated with this trait. Reverse genetics identified the transcription factor DOF4.1 as a novel seed longevity factor. dof4.1 loss-of-function plants generate seeds exhibiting higher germination after accelerated aging assays. DOF4.1 is expressed during seed development and RNAseq data show several putative factors that could contribute to the dof4.1 seed longevity phenotype. dof4.1 has reduced seed permeability and a higher levels of seed storage proteins mRNAs (cruciferins and napins) in developing seeds, as compared to wild-type seeds. It has been reported that mutant lines defective in cruciferins or napins present reduced seed longevity. The improved longevity of dof4.1 is totally lost in the quadruple mutant dof4.1 cra crb crc, but not in a dof4.1 line depleted of napins, suggesting a prominent role for cruciferins in this process. Moreover, a negative regulation of DOF4.1 expression by the transcription factor DOF1.8 is suggested by co-inoculation assays in Nicotiana benthamiana. Indeed, DOF1.8 expression anticorrelates with that of DOF4.1 during seed development. In summary, modulation of DOF4.1 levels during seed development contributes to regulate seed longevity.
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Affiliation(s)
- Regina Niñoles
- Instituto de Biología Molecular y Celular de Plantas, Universitat Politècnica de València-Consejo Superior de Investigaciones Científicas, Ciudad Politécnica de la Innovación, Valencia, Spain
| | | | | | | | | | | | | | | | - Jose Gadea
- Instituto de Biología Molecular y Celular de Plantas, Universitat Politècnica de València-Consejo Superior de Investigaciones Científicas, Ciudad Politécnica de la Innovación, Valencia, Spain
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Yang Y, He Z, Bing Q, Duan X, Chen S, Zeng M, Liu X. Two Dof transcription factors promote flavonoid synthesis in kumquat fruit by activating C-glucosyltransferase. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 318:111234. [PMID: 35351306 DOI: 10.1016/j.plantsci.2022.111234] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 12/31/2021] [Accepted: 02/19/2022] [Indexed: 06/14/2023]
Abstract
Although DNA binding with one finger (Dof) constitutes a crucial plant-specific family of transcription factors (TFs) that plays important roles in a wide range of biological processes, the molecular mechanisms underlying Dof regulation of flavonoid biosynthesis in plants remain largely unknown. Here, we characterized 28 Dof genes (FhDof1-FhDof28) from the 'Hongkong' kumquat (Fortunella hindsii) cultivar genome. Promoter analysis and transcriptome profiling revealed that four FhDofs - FhDof4, FhDof9, FhDof15, and FhDof16 - may be involved in flavonoid biosynthesis through binding to the flavonoid C-glycosyltransferase (FhCGT) promoter. We cloned homologous genes of four FhDofs, designated as FcDof4, FcDof9, FcDof15, FcDof16, and a homologous gene of FhCGT, designated as FcCGT, from the widely cultivated 'HuaPi' kumquat (F. crassifolia). Quantitative reverse transcription-polymerase chain reaction analysis revealed that FcDof4 and FcDof16 were significantly correlated with FcCGT expression during development stages in the 'HuaPi' fruit (Pearson's correlation coefficient > 0.7) and were localized to the nucleus. Results of yeast one-hybrid, electrophoretic mobility shift, and dual-luciferase assays indicated that the two FcDofs trigger FcCGT expression by specifically binding to its promoters. Moreover, transient overexpression of FcDof4 and FcDof16 enhances the transcription of structural genes in the flavonoid biosynthetic pathway and increases C-glycosylflavonoid content. Our results provide strong evidence that the TFs FcDof4 and FcDof16 promote flavonoid synthesis in kumquat fruit by activating FcCGT expression.
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Affiliation(s)
- Yuyan Yang
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China; Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, Chongqing 400715, China
| | - Zhilin He
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China
| | - Qihao Bing
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China
| | - Xinyuan Duan
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China
| | - Suoying Chen
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China
| | - Ming Zeng
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China; Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, Chongqing 400715, China
| | - Xiaogang Liu
- College of Horticulture and Landscape Architecture, Southwest University, Chongqing 400715, China; Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education, Chongqing 400715, China.
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Li J, Zhang Y, Xu L, Wang C, Luo Y, Feng S, Yuan Y, Yang Q, Feng B. Genome-Wide Identification of DNA Binding with One Finger ( Dof) Gene Family in Tartary Buckwheat ( Fagopyrum tataricum) and Analysis of Its Expression Pattern after Exogenous Hormone Stimulation. BIOLOGY 2022; 11:biology11020173. [PMID: 35205040 PMCID: PMC8869700 DOI: 10.3390/biology11020173] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Revised: 01/14/2022] [Accepted: 01/18/2022] [Indexed: 01/11/2023]
Abstract
Simple Summary A number of studies have demonstrated that DNA binding with one finger (Dof) proteins are involved in multiple biological processes. In the present study, Dof genes or proteins in Tartary buckwheat (FtDofs) were systematically analysed, including their physical properties, phylogenetic relationships, structure, motif composition, cis-acting elements present in promoter regions, chromosomal distribution, gene duplication events, syntenic relationships, expression patterns in different tissues and different fruit developmental stages and responses to exogenous hormone stimulation. The results indicated that the expansion of FtDofs was mainly due to segmental duplication. The tissue-specific expression patterns of FtDofs and their positive responses to exogenous hormone stimulation suggest that they play important roles in the growth and development of Tartary buckwheat as well as in the adaptation to environmental changes. Collectively, this study lays a foundation for further exploration of the function of FtDof genes in Tartary buckwheat. Abstract DNA binding with one finger (Dof) proteins have been proven to be involved in multiple biological processes. However, genome-wide identification of the Dof gene family has not been reported for Tartary buckwheat (Fagopyrum tataricum). In this study, 35 FtDof proteins were identified, and they could be divided into nine phylogenetic subgroups. Proteins within the same subgroup had similar gene structure and motif composition. Moreover, abundant cis-acting elements were present in the promoter regions of FtDof genes. Segmental duplication was the primary driving force for the evolution of the FtDof gene family. Synteny analysis indicated that Tartary buckwheat was closer to dicotyledons, and more orthologous Dof genes existed among them. The expression pattern of FtDofs in different tissues and at different fruit developmental stages varied. Different tissues contained several genes that were specifically expressed. FtDof expression was mainly upregulated under methyl jasmonate treatment and downregulated under other hormone treatments. Taken together, FtDofs may play important roles in the growth and development of Tartary buckwheat and in response to abiotic and biotic stresses. Therefore, the genome-wide identification and expression pattern analysis of the Tartary buckwheat Dof gene family lays a foundation for further exploration of the functional characteristics of FtDofs in the future.
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Affiliation(s)
- Jing Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Yuchuan Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Lei Xu
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Chenyang Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Yan Luo
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Shan Feng
- School of Mathematics and Statistics, Northwestern Polytechnical University, Xi’an 710129, China;
| | - Yuhao Yuan
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Qinghua Yang
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
| | - Baili Feng
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Xianyang 712000, China; (J.L.); (Y.Z.); (L.X.); (C.W.); (Y.L.); (Y.Y.); (Q.Y.)
- Correspondence:
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11
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Wang P, Yan Z, Zong X, Yan Q, Zhang J. Genome-Wide Analysis and Expression Profiles of the Dof Family in Cleistogenes songorica under Temperature, Salt and ABA Treatment. PLANTS 2021; 10:plants10050850. [PMID: 33922432 PMCID: PMC8146245 DOI: 10.3390/plants10050850] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Revised: 04/05/2021] [Accepted: 04/19/2021] [Indexed: 12/05/2022]
Abstract
The DNA-binding with one zinc finger (Dof) family of plant-specific transcription factors has a variety of important functions in gene transcriptional regulation, development, and stress responses. However, the structure and expression patterns of Dof family have not been identified in Cleistogenes songorica, which is an important xerophytic and perennial gramineous grass in desert grassland. In this study, 50 Dof genes were identified in C. songorica and could be classified into four groups. According to genome-wide analysis, 46 of 50 Dof genes were located on 20 chromosomes, and the gene structure and conserved protein motif of these proteins were analyzed. In addition, phylogenetic analysis of Dof genes in C. songorica, Arabidopsis thaliana, Oryza sativa, and Brachypodium distachyon estimated the evolutionary relationships, and these genes were grouped into seven clusters. Moreover, the expression profiles of these Dof genes in C. songorica were analyzed in response to high/low temperature, salinity, and ABA treatments. These results will provide valuable information for future studies on gene classification, cloning, and functional characterization of this family in C. songorica.
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Affiliation(s)
| | | | | | | | - Jiyu Zhang
- Correspondence: ; Tel.: +86-138-9332-9958
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12
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Klees S, Lange TM, Bertram H, Rajavel A, Schlüter JS, Lu K, Schmitt AO, Gültas M. In Silico Identification of the Complex Interplay between Regulatory SNPs, Transcription Factors, and Their Related Genes in Brassica napus L. Using Multi-Omics Data. Int J Mol Sci 2021; 22:E789. [PMID: 33466789 PMCID: PMC7830561 DOI: 10.3390/ijms22020789] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Revised: 01/08/2021] [Accepted: 01/11/2021] [Indexed: 01/07/2023] Open
Abstract
Regulatory SNPs (rSNPs) are a special class of SNPs which have a high potential to affect the phenotype due to their impact on DNA-binding of transcription factors (TFs). Thus, the knowledge about such rSNPs and TFs could provide essential information regarding different genetic programs, such as tissue development or environmental stress responses. In this study, we use a multi-omics approach by combining genomics, transcriptomics, and proteomics data of two different Brassica napus L. cultivars, namely Zhongshuang11 (ZS11) and Zhongyou821 (ZY821), with high and low oil content, respectively, to monitor the regulatory interplay between rSNPs, TFs and their corresponding genes in the tissues flower, leaf, stem, and root. By predicting the effect of rSNPs on TF-binding and by measuring their association with the cultivars, we identified a total of 41,117 rSNPs, of which 1141 are significantly associated with oil content. We revealed several enriched members of the TF families DOF, MYB, NAC, or TCP, which are important for directing transcriptional programs regulating differential expression of genes within the tissues. In this work, we provide the first genome-wide collection of rSNPs for B. napus and their impact on the regulation of gene expression in vegetative and floral tissues, which will be highly valuable for future studies on rSNPs and gene regulation.
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Affiliation(s)
- Selina Klees
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
| | - Thomas Martin Lange
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
| | - Hendrik Bertram
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
| | - Abirami Rajavel
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
| | - Johanna-Sophie Schlüter
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
| | - Kun Lu
- College of Agronomy and Biotechnology, Southwest University, Chongqing 400715, China;
- Academy of Agricultural Sciences, Southwest University, Chongqing 400715, China
- State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Chongqing 400715, China
| | - Armin Otto Schmitt
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
- Center for Integrated Breeding Research (CiBreed), Albrecht-Thaer-Weg 3, Georg-August University, 37075 Göttingen, Germany
| | - Mehmet Gültas
- Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; (S.K.); (T.M.L.); (H.B.); (A.R.); (J.-S.S.); (A.O.S.)
- Center for Integrated Breeding Research (CiBreed), Albrecht-Thaer-Weg 3, Georg-August University, 37075 Göttingen, Germany
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13
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Nilsen KT, Walkowiak S, Xiang D, Gao P, Quilichini TD, Willick IR, Byrns B, N'Diaye A, Ens J, Wiebe K, Ruan Y, Cuthbert RD, Craze M, Wallington EJ, Simmonds J, Uauy C, Datla R, Pozniak CJ. Copy number variation of TdDof controls solid-stemmed architecture in wheat. Proc Natl Acad Sci U S A 2020; 117:28708-28718. [PMID: 33127757 PMCID: PMC7682410 DOI: 10.1073/pnas.2009418117] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Stem solidness is an important agronomic trait of durum (Triticum turgidum L. var. durum) and bread (Triticum aestivum L.) wheat that provides resistance to the wheat stem sawfly. This dominant trait is conferred by the SSt1 locus on chromosome 3B. However, the molecular identity and mechanisms underpinning stem solidness have not been identified. Here, we demonstrate that copy number variation of TdDof, a gene encoding a putative DNA binding with one finger protein, controls the stem solidness trait in wheat. Using map-based cloning, we localized TdDof to within a physical interval of 2.1 Mb inside the SSt1 locus. Molecular analysis revealed that hollow-stemmed wheat cultivars such as Kronos carry a single copy of TdDof, whereas solid-stemmed cultivars such as CDC Fortitude carry multiple identical copies of the gene. Deletion of all TdDof copies from CDC Fortitude resulted in the loss of stem solidness, whereas the transgenic overexpression of TdDof restored stem solidness in the TdDof deletion mutant pithless1 and conferred stem solidness in Kronos. In solid-stemmed cultivars, increased TdDof expression was correlated with the down-regulation of genes whose orthologs have been implicated in programmed cell death (PCD) in other species. Anatomical and histochemical analyses revealed that hollow-stemmed lines had stronger PCD-associated signals in the pith cells compared to solid-stemmed lines, which suggests copy number-dependent expression of TdDof could be directly or indirectly involved in the negative regulation of PCD. These findings provide opportunities to manipulate stem development in wheat and other monocots for agricultural or industrial purposes.
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Affiliation(s)
- Kirby T Nilsen
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
- Brandon Research and Development Centre, Agriculture and Agri-Food Canada, Brandon, MB R7A 5Y3, Canada
| | - Sean Walkowiak
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
- Grain Research Laboratory, Canadian Grain Commission, Winnipeg, MB R3C 3G8, Canada
| | - Daoquan Xiang
- Aquatic and Crop Resource Development Research Centre, National Research Council Canada, Saskatoon, SK S7N 0W9, Canada
| | - Peng Gao
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
| | - Teagen D Quilichini
- Aquatic and Crop Resource Development Research Centre, National Research Council Canada, Saskatoon, SK S7N 0W9, Canada
| | - Ian R Willick
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
| | - Brook Byrns
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
| | - Amidou N'Diaye
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
| | - Jennifer Ens
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
| | - Krystalee Wiebe
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
| | - Yuefeng Ruan
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK S9H 3X2, Canada
| | - Richard D Cuthbert
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK S9H 3X2, Canada
| | | | | | | | | | - Raju Datla
- Global Institute for Food Security, University of Saskatchewan, Saskatoon, SK S7N 4J8, Canada
| | - Curtis J Pozniak
- Crop Development Centre and Department of Plant Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada;
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14
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Lardon R, Wijnker E, Keurentjes J, Geelen D. The genetic framework of shoot regeneration in Arabidopsis comprises master regulators and conditional fine-tuning factors. Commun Biol 2020; 3:549. [PMID: 33009513 PMCID: PMC7532540 DOI: 10.1038/s42003-020-01274-9] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2019] [Accepted: 09/04/2020] [Indexed: 12/21/2022] Open
Abstract
Clonal propagation and genetic engineering of plants requires regeneration, but many species are recalcitrant and there is large variability in explant responses. Here, we perform a genome-wide association study using 190 natural Arabidopsis accessions to dissect the genetics of shoot regeneration from root explants and several related in vitro traits. Strong variation is found in the recorded phenotypes and association mapping pinpoints a myriad of quantitative trait genes, including prior candidates and potential novel regeneration determinants. As most of these genes are trait- and protocol-specific, we propose a model wherein shoot regeneration is governed by many conditional fine-tuning factors and a few universal master regulators such as WUSCHEL, whose transcript levels correlate with natural variation in regenerated shoot numbers. Potentially novel genes in this last category are AT3G09925, SUP, EDA40 and DOF4.4. We urge future research in the field to consider multiple conditions and genetic backgrounds.
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Affiliation(s)
- Robin Lardon
- Department of Plants and Crops, Horticell Lab, Ghent University, 9000, Ghent, Belgium
| | - Erik Wijnker
- Department of Plant Sciences, Laboratory of Genetics, Wageningen University and Research, 6708 PB, Wageningen, The Netherlands
| | - Joost Keurentjes
- Department of Plant Sciences, Laboratory of Genetics, Wageningen University and Research, 6708 PB, Wageningen, The Netherlands
| | - Danny Geelen
- Department of Plants and Crops, Horticell Lab, Ghent University, 9000, Ghent, Belgium.
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15
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Hussain Q, Shi J, Scheben A, Zhan J, Wang X, Liu G, Yan G, King GJ, Edwards D, Wang H. Genetic and signalling pathways of dry fruit size: targets for genome editing-based crop improvement. PLANT BIOTECHNOLOGY JOURNAL 2020; 18:1124-1140. [PMID: 31850661 PMCID: PMC7152616 DOI: 10.1111/pbi.13318] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2018] [Revised: 11/20/2019] [Accepted: 12/08/2019] [Indexed: 05/24/2023]
Abstract
Fruit is seed-bearing structures specific to angiosperm that form from the gynoecium after flowering. Fruit size is an important fitness character for plant evolution and an agronomical trait for crop domestication/improvement. Despite the functional and economic importance of fruit size, the underlying genes and mechanisms are poorly understood, especially for dry fruit types. Improving our understanding of the genomic basis for fruit size opens the potential to apply gene-editing technology such as CRISPR/Cas to modulate fruit size in a range of species. This review examines the genes involved in the regulation of fruit size and identifies their genetic/signalling pathways, including the phytohormones, transcription and elongation factors, ubiquitin-proteasome and microRNA pathways, G-protein and receptor kinases signalling, arabinogalactan and RNA-binding proteins. Interestingly, different plant taxa have conserved functions for various fruit size regulators, suggesting that common genome edits across species may have similar outcomes. Many fruit size regulators identified to date are pleiotropic and affect other organs such as seeds, flowers and leaves, indicating a coordinated regulation. The relationships between fruit size and fruit number/seed number per fruit/seed size, as well as future research questions, are also discussed.
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Affiliation(s)
- Quaid Hussain
- Oil Crops Research Institute of the Chinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of AgricultureWuhanChina
| | - Jiaqin Shi
- Oil Crops Research Institute of the Chinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of AgricultureWuhanChina
| | - Armin Scheben
- School of Biological Sciences and Institute of AgricultureThe University of Western AustraliaPerthWAAustralia
| | - Jiepeng Zhan
- Oil Crops Research Institute of the Chinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of AgricultureWuhanChina
| | - Xinfa Wang
- Oil Crops Research Institute of the Chinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of AgricultureWuhanChina
| | - Guihua Liu
- Oil Crops Research Institute of the Chinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of AgricultureWuhanChina
| | - Guijun Yan
- UWA School of Agriculture and EnvironmentThe UWA Institute of AgricultureThe University of Western AustraliaCrawleyWAAustralia
| | - Graham J. King
- Southern Cross Plant ScienceSouthern Cross UniversityLismoreNSWAustralia
| | - David Edwards
- School of Biological Sciences and Institute of AgricultureThe University of Western AustraliaPerthWAAustralia
| | - Hanzhong Wang
- Oil Crops Research Institute of the Chinese Academy of Agricultural SciencesKey Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of AgricultureWuhanChina
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16
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Liu Y, Liu N, Deng X, Liu D, Li M, Cui D, Hu Y, Yan Y. Genome-wide analysis of wheat DNA-binding with one finger (Dof) transcription factor genes: evolutionary characteristics and diverse abiotic stress responses. BMC Genomics 2020; 21:276. [PMID: 32245398 PMCID: PMC7118883 DOI: 10.1186/s12864-020-6691-0] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Accepted: 03/24/2020] [Indexed: 12/31/2022] Open
Abstract
Background DNA binding with one finger (Dof) transcription factors play important roles in plant growth and abiotic stress responses. Although genome-wide identification and analysis of the DOF transcription factor family has been reported in other species, no relevant studies have emerged in wheat. The aim of this study was to investigate the evolutionary and functional characteristics associated with plant growth and abiotic stress responses by genome-wide analysis of the wheat Dof transcription factor gene family. Results Using the recently released wheat genome database (IWGSC RefSeq v1.0), we identified 96 wheat Dof gene family members, which were phylogenetically clustered into five distinct subfamilies. Gene duplication analysis revealed a broad and heterogeneous distribution of TaDofs on the chromosome groups 1 to 7, and obvious tandem duplication genes were present on chromosomes 2 and 3.Members of the same gene subfamily had similar exon-intron structures, while members of different subfamilies had obvious differences. Functional divergence analysis indicated that type-II functional divergence played a major role in the differentiation of the TaDof gene family. Positive selection analysis revealed that the Dof gene family experienced different degrees of positive selection pressure during the process of evolution, and five significant positive selection sites (30A, 31 T, 33A, 102G and 104S) were identified. Additionally, nine groups of coevolving amino acid sites, which may play a key role in maintaining the structural and functional stability of Dof proteins, were identified. The results from the RNA-seq data and qRT-PCR analysis revealed that TaDof genes exhibited obvious expression preference or specificity in different organs and developmental stages, as well as in diverse abiotic stress responses. Most TaDof genes were significantly upregulated by heat, PEG and heavy metal stresses. Conclusions The genome-wide analysis and identification of wheat DOF transcription factor family and the discovery of important amino acid sites are expected to provide new insights into the structure, evolution and function of the plant Dof gene family.
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Affiliation(s)
- Yue Liu
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China
| | - Nannan Liu
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China
| | - Xiong Deng
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China
| | - Dongmiao Liu
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China
| | - Mengfei Li
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China
| | - Dada Cui
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China
| | - Yingkao Hu
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China.
| | - Yueming Yan
- College of Life Science, Capital Normal University, Xisanhuan Beilu No. 105, 100048, Beijing, People's Republic of China. .,Hubei Collaborative Innovation Center for Grain Industry (HCICGI), Yangtze University, Jingzhou, 434025, China.
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17
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The DOF Transcription Factors in Seed and Seedling Development. PLANTS 2020; 9:plants9020218. [PMID: 32046332 PMCID: PMC7076670 DOI: 10.3390/plants9020218] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Revised: 02/05/2020] [Accepted: 02/06/2020] [Indexed: 01/28/2023]
Abstract
The DOF (DNA binding with one finger) family of plant-specific transcription factors (TF) was first identified in maize in 1995. Since then, DOF proteins have been shown to be present in the whole plant kingdom, including the unicellular alga Chlamydomonas reinhardtii. The DOF TF family is characterised by a highly conserved DNA binding domain (DOF domain), consisting of a CX2C-X21-CX2C motif, which is able to form a zinc finger structure. Early in the study of DOF proteins, their relevance for seed biology became clear. Indeed, the PROLAMIN BINDING FACTOR (PBF), one of the first DOF proteins characterised, controls the endosperm-specific expression of the zein genes in maize. Subsequently, several DOF proteins from both monocots and dicots have been shown to be primarily involved in seed development, dormancy and germination, as well as in seedling development and other light-mediated processes. In the last two decades, the molecular network underlying these processes have been outlined, and the main molecular players and their interactions have been identified. In this review, we will focus on the DOF TFs involved in these molecular networks, and on their interaction with other proteins.
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18
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Dhanagond S, Liu G, Zhao Y, Chen D, Grieco M, Reif J, Kilian B, Graner A, Neumann K. Non-Invasive Phenotyping Reveals Genomic Regions Involved in Pre-Anthesis Drought Tolerance and Recovery in Spring Barley. FRONTIERS IN PLANT SCIENCE 2019; 10:1307. [PMID: 31708943 PMCID: PMC6823269 DOI: 10.3389/fpls.2019.01307] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2019] [Accepted: 09/19/2019] [Indexed: 05/07/2023]
Abstract
With ongoing climate change, drought events are becoming more frequent and will affect biomass formation when occurring during pre-flowering stages. We explored growth over time under such a drought scenario, via non-invasive imaging and revealed the underlying key genetic factors in spring barley. By comparing with well-watered conditions investigated in an earlier study and including information on timing, QTL could be classified as constitutive, drought or recovery-adaptive. Drought-adaptive QTL were found in the vicinity of genes involved in dehydration tolerance such as dehydrins (Dhn4, Dhn7, Dhn8, and Dhn9) and aquaporins (e.g. HvPIP1;5, HvPIP2;7, and HvTIP2;1). The influence of phenology on biomass formation increased under drought. Accordingly, the main QTL during recovery was the region of HvPPD-H1. The most important constitutive QTL for late biomass was located in the vicinity of HvDIM, while the main locus for seedling biomass was the HvWAXY region. The disappearance of QTL marked the genetic architecture of tiller number. The most important constitutive QTL was located on 6HS in the region of 1-FEH. Stage and tolerance specific QTL might provide opportunities for genetic manipulation to stabilize biomass and tiller number under drought conditions and thereby also grain yield.
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Affiliation(s)
- Sidram Dhanagond
- Department of Genebank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
| | - Guozheng Liu
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
- BBCC – Innovation Center Gent, Gent Zwijnaarde, Belgium
| | - Yusheng Zhao
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
| | - Dijun Chen
- Institute for Biology, Humboldt-Universität zu Berlin, Berlin, Germany
| | - Michele Grieco
- Department of Genebank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
| | - Jochen Reif
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
- Plant Breeding Department, Martin-Luther-University Halle-Wittenberg, Halle, Germany
| | - Benjamin Kilian
- Department of Genebank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
- Global Crop Diversity Trust (GCDT), Bonn, Germany
| | - Andreas Graner
- Department of Genebank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
- Plant Breeding Department, Martin-Luther-University Halle-Wittenberg, Halle, Germany
| | - Kerstin Neumann
- Department of Genebank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
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19
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Yu YH, Bian L, Wan YT, Jiao ZL, Yu KK, Zhang GH, Guo DL. Grape (Vitis vinifera) VvDOF3 functions as a transcription activator and enhances powdery mildew resistance. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2019; 143:183-189. [PMID: 31513952 DOI: 10.1016/j.plaphy.2019.09.010] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2019] [Revised: 09/03/2019] [Accepted: 09/04/2019] [Indexed: 05/20/2023]
Abstract
DOF proteins are plant-specific transcription factors that play vital roles in plant development and defense responses. However, DOFs have primarily been investigated in model plants, and fairly limited research has been performed on grape (Vitis vinifera). In this study, we isolated and characterized a C2-C2 zinc finger structural DOF gene, VvDOF3, from the grape cultivar Jingxiu. The VvDOF3 protein showed nuclear localization and transcriptional activation ability, indicating that it functions as a transcription factor. The VvDOF3 gene was rapidly induced by exogenous salicylic acid (SA), jasmonic acid (JA), and powdery mildew infection. Overexpression of VvDOF3 in Arabidopsis thaliana enhanced resistance to Golovinomyces cichoracearum. Expression of the SA-responsive defense-related gene PR1 and the concentration of SA were up-regulated in transgenic Arabidopsis plants overexpressing VvDOF3. Together, these data suggest that VvDOF3 functions as a transcription factor in grape and enhances powdery mildew resistance through the SA signaling pathway.
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Affiliation(s)
- Yi-He Yu
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China
| | - Lu Bian
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China
| | - Yu-Tong Wan
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China
| | - Ze-Ling Jiao
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China
| | - Ke-Ke Yu
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China
| | - Guo-Hai Zhang
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China
| | - Da-Long Guo
- Henan Engineering Technology Research Center of Quality Regulation and Controlling of Horticultural Plants, College of Forestry, Henan University of Science and Technology, Luoyang, 471023, Henan Province, China.
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20
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Lu K, Wei L, Li X, Wang Y, Wu J, Liu M, Zhang C, Chen Z, Xiao Z, Jian H, Cheng F, Zhang K, Du H, Cheng X, Qu C, Qian W, Liu L, Wang R, Zou Q, Ying J, Xu X, Mei J, Liang Y, Chai YR, Tang Z, Wan H, Ni Y, He Y, Lin N, Fan Y, Sun W, Li NN, Zhou G, Zheng H, Wang X, Paterson AH, Li J. Whole-genome resequencing reveals Brassica napus origin and genetic loci involved in its improvement. Nat Commun 2019; 10:1154. [PMID: 30858362 PMCID: PMC6411957 DOI: 10.1038/s41467-019-09134-9] [Citation(s) in RCA: 179] [Impact Index Per Article: 35.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2018] [Accepted: 02/22/2019] [Indexed: 12/12/2022] Open
Abstract
Brassica napus (2n = 4x = 38, AACC) is an important allopolyploid crop derived from interspecific crosses between Brassica rapa (2n = 2x = 20, AA) and Brassica oleracea (2n = 2x = 18, CC). However, no truly wild B. napus populations are known; its origin and improvement processes remain unclear. Here, we resequence 588 B. napus accessions. We uncover that the A subgenome may evolve from the ancestor of European turnip and the C subgenome may evolve from the common ancestor of kohlrabi, cauliflower, broccoli, and Chinese kale. Additionally, winter oilseed may be the original form of B. napus. Subgenome-specific selection of defense-response genes has contributed to environmental adaptation after formation of the species, whereas asymmetrical subgenomic selection has led to ecotype change. By integrating genome-wide association studies, selection signals, and transcriptome analyses, we identify genes associated with improved stress tolerance, oil content, seed quality, and ecotype improvement. They are candidates for further functional characterization and genetic improvement of B. napus. Brassica napus is a globally important oil crop, but the origin of the allotetraploid genome and its improvement process are largely unknown. Here, the authors take a population genetic approach to resolve its origin and evolutionary history, and identify candidate genes related to important agricultural traits.
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Affiliation(s)
- Kun Lu
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Lijuan Wei
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China
| | - Xiaolong Li
- Biomarker Technologies Corporation, 101300, Beijing, China
| | - Yuntong Wang
- Biomarker Technologies Corporation, 101300, Beijing, China
| | - Jian Wu
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, 100081, Beijing, China
| | - Miao Liu
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Chao Zhang
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Zhiyou Chen
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Zhongchun Xiao
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Hongju Jian
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Feng Cheng
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, 100081, Beijing, China
| | - Kai Zhang
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Hai Du
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Xinchao Cheng
- State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Cunming Qu
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Wei Qian
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Liezhao Liu
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Rui Wang
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Qingyuan Zou
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Jiamin Ying
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Xingfu Xu
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China
| | - Jiaqing Mei
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China
| | - Ying Liang
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - You-Rong Chai
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Zhanglin Tang
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Huafang Wan
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Yu Ni
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China.,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China.,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China
| | - Yajun He
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Na Lin
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Yonghai Fan
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Wei Sun
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China
| | - Nan-Nan Li
- Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China
| | - Gang Zhou
- Biomarker Technologies Corporation, 101300, Beijing, China
| | - Hongkun Zheng
- Biomarker Technologies Corporation, 101300, Beijing, China
| | - Xiaowu Wang
- Institute of Vegetables and Flowers, Chinese Academy of Agricultural Science, 100081, Beijing, China.
| | - Andrew H Paterson
- Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia, 30605, USA.
| | - Jiana Li
- College of Agronomy and Biotechnology, Southwest University, Beibei, 400715, Chongqing, China. .,Academy of Agricultural Sciences, Southwest University, Beibei, 400715, Chongqing, China. .,State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Beibei, 400715, Chongqing, China.
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21
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Nie J, Wen C, Xi L, Lv S, Zhao Q, Kou Y, Ma N, Zhao L, Zhou X. The AP2/ERF transcription factor CmERF053 of chrysanthemum positively regulates shoot branching, lateral root, and drought tolerance. PLANT CELL REPORTS 2018; 37:1049-1060. [PMID: 29687169 DOI: 10.1007/s00299-018-2290-9] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Accepted: 04/19/2018] [Indexed: 05/21/2023]
Abstract
We find that the DREB subfamily transcription factor, CmERF053, has a novel function to regulate the development of shoot branching and lateral root in addition to affecting abiotic stress. Dehydration-responsive element binding proteins (DREBs) are important plant transcription factors that regulate various abiotic stresses. Here, we isolated an APETALA2/ethylene-responsive factor (AP2/ERF) transcription factor from chrysanthemum (Chrysanthemum morifolium 'Jinba'), CmERF053, the expression of which was rapidly up-regulated by main stem decapitation. Phylogenetic analysis indicated that it belongs to the A-6 group of the DREB subfamily, and the subcellular localization assay confirmed that CmERF053 was a nuclear protein. Overexpression of CmERF053 in Arabidopsis exhibited positive effects of plant lateral organs, which had more shoot branching and lateral roots than did the wild type. We also found that the expression of CmERF053 in axillary buds was induced by exogenous cytokinins. These results suggested that CmERF053 may be involved in cytokinins-related shoot branching pathway. In this study, an altered auxin distribution was observed during root elongation in the seedlings of the overexpression plants. Furthermore, overexpress CmERF053 gene could enhance drought tolerance. Together, these findings indicated that CmERF053 plays crucial roles in regulating shoot branching, lateral root, and drought stress in plant. Moreover, our study provides potential application value for improving plant productivity, ornamental traits, and drought tolerance.
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Affiliation(s)
- Jing Nie
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Chao Wen
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Lin Xi
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Suhui Lv
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Qingcui Zhao
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Yaping Kou
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Nan Ma
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Liangjun Zhao
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China
| | - Xiaofeng Zhou
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, Department of Ornamental Horticulture, China Agricultural University, Beijing, 100193, China.
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22
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Wei Q, Wang W, Hu T, Hu H, Mao W, Zhu Q, Bao C. Genome-wide identification and characterization of Dof transcription factors in eggplant ( Solanum melongena L.). PeerJ 2018. [PMID: 29527420 PMCID: PMC5844252 DOI: 10.7717/peerj.4481] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
Abstract
Eggplant (Solanum melongena L.) is an important vegetable cultivated in Asia, Africa and southern Europe and, following tomato and pepper, ranks as the third most important solanaceous vegetable crop. The Dof (DNA-binding with one finger) family is a group of plant-specific transcription factors that play important roles in plant growth, development, and response to biotic and abiotic stresses. The genes in the Dof family have been identified and analysed in many plant species, but the information remains lacking for eggplant. In the present study, we identified 29 SmeDof members from the eggplant genome database, which were classifed into nine subgroups. The phylogeny, gene structure, conserved motifs and homologous genes of SmeDof genes were comprehensively investigated. Subsequently, we analysed the expression patterns of SmeDof genes in six different eggplant subspecies. The results provide novel insights into the family of SmeDof genes and will promote the understanding of the structure and function of Dof genes in eggplant, and the role of Dof expression during stress.
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Affiliation(s)
- Qingzhen Wei
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
| | - Wuhong Wang
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
| | - Tianhua Hu
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
| | - Haijiao Hu
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
| | - Weihai Mao
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
| | - Qinmei Zhu
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
| | - Chonglai Bao
- Institute of Vegetable Research, Zhejiang Academy of Agricultrual Sciences, Hangzhou, Zhejiang, China
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23
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Li A, Yu X, Cao BB, Peng LX, Gao Y, Feng T, Li H, Ren ZY. LkAP2L2, an AP2/ERF transcription factor gene of Larix kaempferi, with pleiotropic roles in plant branch and seed development. RUSS J GENET+ 2017. [DOI: 10.1134/s1022795417120079] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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24
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Rouhian S, Ahmadi DN, Sorkheh K. Development of Dof (DNA binding with one finger) transcription factor gene-specific primers through data mining as a functional marker and their use for genetic diversity study in barley (Hordeum vulgare L.) germplasm. Genes Genomics 2017. [DOI: 10.1007/s13258-016-0510-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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25
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Corrales AR, Carrillo L, Lasierra P, Nebauer SG, Dominguez-Figueroa J, Renau-Morata B, Pollmann S, Granell A, Molina RV, Vicente-Carbajosa J, Medina J. Multifaceted role of cycling DOF factor 3 (CDF3) in the regulation of flowering time and abiotic stress responses in Arabidopsis. PLANT, CELL & ENVIRONMENT 2017; 40:748-764. [PMID: 28044345 DOI: 10.1111/pce.12894] [Citation(s) in RCA: 83] [Impact Index Per Article: 11.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2015] [Revised: 12/19/2016] [Accepted: 12/21/2016] [Indexed: 05/19/2023]
Abstract
DNA-binding with one finger (DOF)-type transcription factors are involved in many fundamental processes in higher plants, from responses to light and phytohormones to flowering time and seed maturation, but their relation with abiotic stress tolerance is largely unknown. Here, we identify the roles of CDF3, an Arabidopsis DOF gene in abiotic stress responses and developmental processes like flowering time. CDF3 is highly induced by drought, extreme temperatures and abscisic acid treatment. The CDF3 T-DNA insertion mutant cdf3-1 is much more sensitive to drought and low temperature stress, whereas CDF3 overexpression enhances the tolerance of transgenic plants to drought, cold and osmotic stress and promotes late flowering. Transcriptome analysis revealed that CDF3 regulates a set of genes involved in cellular osmoprotection and oxidative stress, including the stress tolerance transcription factors CBFs, DREB2A and ZAT12, which involve both gigantea-dependent and independent pathways. Consistently, metabolite profiling disclosed that the total amount of some protective metabolites including γ-aminobutyric acid, proline, glutamine and sucrose were higher in CDF3-overexpressing plants. Taken together, these results indicate that CDF3 plays a multifaceted role acting on both flowering time and abiotic stress tolerance, in part by controlling the CBF/DREB2A-CRT/DRE and ZAT10/12 modules.
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Affiliation(s)
- Alba-Rocio Corrales
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo, Autopista M40 (km 38), 28223, Madrid, Spain
| | - Laura Carrillo
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo, Autopista M40 (km 38), 28223, Madrid, Spain
| | - Pilar Lasierra
- Centro Nacional de Biotecnología-CSIC, C/Darwin 3, 28049, Madrid, Spain
| | - Sergio G Nebauer
- Departamento de Producción Vegetal, Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain
| | - Jose Dominguez-Figueroa
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo, Autopista M40 (km 38), 28223, Madrid, Spain
| | - Begoña Renau-Morata
- Departamento de Producción Vegetal, Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain
| | - Stephan Pollmann
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo, Autopista M40 (km 38), 28223, Madrid, Spain
| | - Antonio Granell
- Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV), Ingeniero Fausto Elio s/n, 46022, Valencia, Spain
| | - Rosa-Victoria Molina
- Departamento de Producción Vegetal, Universitat Politècnica de València, Camino de Vera s/n, 46022, Valencia, Spain
| | - Jesús Vicente-Carbajosa
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo, Autopista M40 (km 38), 28223, Madrid, Spain
| | - Joaquín Medina
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Campus de Montegancedo, Autopista M40 (km 38), 28223, Madrid, Spain
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26
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Qi X, Li S, Zhu Y, Zhao Q, Zhu D, Yu J. ZmDof3, a maize endosperm-specific Dof protein gene, regulates starch accumulation and aleurone development in maize endosperm. PLANT MOLECULAR BIOLOGY 2017; 93:7-20. [PMID: 27709320 DOI: 10.1007/s11103-016-0543-y] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2016] [Accepted: 09/09/2016] [Indexed: 05/03/2023]
Abstract
To explore the function of Dof transcription factors during kernel development in maize, we first identified Dof genes in the maize genome. We found that ZmDof3 was exclusively expressed in the endosperm of maize kernel and had the features of a Dof transcription factor. Suppression of ZmDof3 resulted in a defective kernel phenotype with reduced starch content and a partially patchy aleurone layer. The expression levels of starch synthesis-related genes and aleurone differentiation-associated genes were down-regulated in ZmDof3 knockdown kernels, indicating that ZmDof3 plays an important role in maize endosperm development. The maize endosperm, occupying a large proportion of the kernel, plays an important role in seed development and germination. Current knowledge regarding the regulation of endosperm development is limited. Dof proteins, a family of plant-specific transcription factors, play critical roles in diverse biological processes. In this study, an endosperm-specific Dof protein gene, ZmDof3, was identified in maize through genome-wide screening. Suppression of ZmDof3 resulted in a defective kernel phenotype. The endosperm of ZmDof3 knockdown kernels was loosely packed with irregular starch granules observed by electronic microscope. Through genome-wide expression profiling, we found that down-regulated genes were enriched in GO terms related to carbohydrate metabolism. Moreover, ZmDof3 could bind to the Dof core element in the promoter of starch biosynthesis genes Du1 and Su2 in vitro and in vivo. In addition, the aleurone at local position in mature ZmDof3 knockdown kernels varied from one to three layers, which consisted of smaller and irregular cells. Further analyses showed that knockdown of ZmDof3 reduced the expression of Nkd1, which is involved in aleurone cell differentiation, and that ZmDof3 could bind to the Dof core element in the Nkd1 promoter. Our study reveals that ZmDof3 functions in maize endosperm development as a positive regulator in the signaling system controlling starch accumulation and aleurone development.
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Affiliation(s)
- Xin Qi
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Shixue Li
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Yaxi Zhu
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Qian Zhao
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Dengyun Zhu
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Beijing, 100193, China
| | - Jingjuan Yu
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Beijing, 100193, China.
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27
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Song A, Gao T, Li P, Chen S, Guan Z, Wu D, Xin J, Fan Q, Zhao K, Chen F. Transcriptome-Wide Identification and Expression Profiling of the DOF Transcription Factor Gene Family in Chrysanthemum morifolium. FRONTIERS IN PLANT SCIENCE 2016; 7:199. [PMID: 26941763 PMCID: PMC4763086 DOI: 10.3389/fpls.2016.00199] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2015] [Accepted: 02/05/2016] [Indexed: 05/02/2023]
Abstract
The family of DNA binding with one finger (DOF) transcription factors is plant specific, and these proteins contain a highly conserved domain (DOF domain) of 50-52 amino acids that includes a C2C2-type zinc finger motif at the N-terminus that is known to function in a number of plant processes. Here, we characterized 20 DOF genes in the important ornamental species chrysanthemum (Chrysanthemum morifolium) based on transcriptomic sequences. Phylogenetic analysis identified one pair of putative orthologous proteins in Arabidopsis and chrysanthemum and six pairs of paralogous proteins in chrysanthemum. Conserved motifs in the DOF proteins shared by Arabidopsis and chrysanthemum were analyzed using MEME. Bioinformatics analysis revealed that 13 CmDOFs could be targeted by 16 miRNA families. Moreover, we used 5' RLM-RACE to map the cleavage sites in CmDOF3, 15, and 21. The expression of these 20 genes in response to phytohormone treatments and abiotic stresses was characterized, and the expression patterns of six pairs of paralogous CmDOF genes were found to completely differ from one another, except for CmDOF6 and CmDOF7. This work will promote our research of the various functions of DOF gene family members in plant hormone and stress responses.
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28
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Francoz E, Ranocha P, Burlat V, Dunand C. Arabidopsis seed mucilage secretory cells: regulation and dynamics. TRENDS IN PLANT SCIENCE 2015; 20:515-24. [PMID: 25998090 DOI: 10.1016/j.tplants.2015.04.008] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2014] [Revised: 03/02/2015] [Accepted: 04/15/2015] [Indexed: 05/21/2023]
Abstract
Seeds from various angiosperm species produce polysaccharide mucilage facilitating germination and, therefore, conferring major evolutionary advantages. The seed epidermal mucilage secretory cells (MSCs) undergo numerous tightly controlled changes of their extracellular matrixes (ECMs) throughout seed development. Recently, major progress based on the model species Arabidopsis thaliana was published, including the identification of 54 genes necessary for mucilage synthesis and release. Here, we review these genes that constitute the so-called 'MSC toolbox', within which transcription factors and proteins related to polysaccharide production, secretion, modification, and stabilization are the most abundant and belong to complex regulatory networks. We also discuss how seed coat 'omics data-mining, comparative genomics, and operon-like gene cluster studies will provide means to identify new members of the MSC toolbox.
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Affiliation(s)
- Edith Francoz
- Université de Toulouse, UPS, UMR 5546, Laboratoire de Recherche en Sciences Végétales, BP 42617, F-31326 Castanet-Tolosan, France; CNRS, UMR 5546, BP 42617, F-31326 Castanet-Tolosan, France
| | - Philippe Ranocha
- Université de Toulouse, UPS, UMR 5546, Laboratoire de Recherche en Sciences Végétales, BP 42617, F-31326 Castanet-Tolosan, France; CNRS, UMR 5546, BP 42617, F-31326 Castanet-Tolosan, France
| | - Vincent Burlat
- Université de Toulouse, UPS, UMR 5546, Laboratoire de Recherche en Sciences Végétales, BP 42617, F-31326 Castanet-Tolosan, France; CNRS, UMR 5546, BP 42617, F-31326 Castanet-Tolosan, France.
| | - Christophe Dunand
- Université de Toulouse, UPS, UMR 5546, Laboratoire de Recherche en Sciences Végétales, BP 42617, F-31326 Castanet-Tolosan, France; CNRS, UMR 5546, BP 42617, F-31326 Castanet-Tolosan, France.
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29
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Identifying key interactions stabilizing DOF zinc finger-DNA complexes using in silico approaches. J Theor Biol 2015; 382:150-9. [PMID: 26092376 DOI: 10.1016/j.jtbi.2015.06.013] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2015] [Revised: 05/09/2015] [Accepted: 06/06/2015] [Indexed: 11/21/2022]
Abstract
DOF (DNA-binding with one finger) proteins, a family of DNA-binding transcription factors, are members of zinc fingers unique to plants. They are associated with different plant specific phenomena including germination, dormancy, light and defense responses. Until now, there is no report of experimentally solved structure for DOF proteins, making empirical investigation of DOF-DNA interaction more challenging. It has been shown that comparative modeling can be used to reliably predict the three-dimensional (3D) model of structurally unknown proteins whenever a suitable template is available. Furthermore, current molecular mechanics force fields allow prediction of interaction energies for macromolecular complexes. Therefore, the approaches considered in this work were to model the 3D structures of DOF zinc fingers (ZFs) from Arabidopsis thaliana complexed with DNA molecule, to calculate their binding energies, to identify key interactions established between ZFs and DNA, and to determine the impact of the different interactions on the binding energies. The results were used to predict the binding affinities for the novel designed ZFs and may be used in engineering DNA binding proteins.
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30
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Gupta S, Malviya N, Kushwaha H, Nasim J, Bisht NC, Singh VK, Yadav D. Insights into structural and functional diversity of Dof (DNA binding with one finger) transcription factor. PLANTA 2015; 241:549-62. [PMID: 25564353 DOI: 10.1007/s00425-014-2239-3] [Citation(s) in RCA: 90] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2014] [Accepted: 12/25/2014] [Indexed: 05/18/2023]
Abstract
The structural, functional and in-silico studies of Dof transcription factor attempted so far reveals immense opportunity to analyze the plant genomes in terms of number of Dof genes and discuss in light of the evolution. The multiple functions of Dof genes needs to explored for crop improvement. Transcription factors play a very vital role in gene regulation at transcriptional level and are being extensively studied across phylas. In recent years, sequencing of plant genomes has led to genome-wide identification and characterizations of diverse types of plant-specific transcription factor gene family providing key insights into their structural and functional diversity. The DNA binding with one finger (Dof), a class belonging to C2H2-type zinc finger family proteins, is a plant-specific transcription factor having multiple roles such as seed maturation and germination, phytohormone and light-mediated regulation and plant responses to biotic and abiotic stresses. Dof proteins are present across plant lineage, from green algae to higher angiosperm, and represent a unique class of transcription factor having bifunctional binding activities, with both DNA and proteins, to regulate the complex transcriptional machinery in plant cells. The structural and functional diversity of the Dof transcription factor family along with the bioinformatics analysis highlighting the phylogeny of Dof families is reviewed in light of its importance in plant biotechnology for crop improvement.
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Affiliation(s)
- S Gupta
- Department of Biotechnology, D.D.U Gorakhpur University, Gorakhpur, 273 009, Uttar Pradesh, India
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Wu Q, Li D, Li D, Liu X, Zhao X, Li X, Li S, Zhu L. Overexpression of OsDof12 affects plant architecture in rice (Oryza sativa L.). FRONTIERS IN PLANT SCIENCE 2015; 6:833. [PMID: 26500670 PMCID: PMC4597119 DOI: 10.3389/fpls.2015.00833] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2015] [Accepted: 09/23/2015] [Indexed: 05/05/2023]
Abstract
Dof (DNA binding with one finger) proteins, a class of plant-specific transcription factors, are involved in plant growth and developmental processes and stress responses. However, their biological functions remain to be elucidated, especially in rice (Oryza sativa L.). Previously, we have reported that OsDof12 can promote rice flowering under long-day conditions. Here, we further investigated the other important agronomical traits of the transgenic plants overexpressing OsDof12 and found that overexpressing OsDof12 could lead to reduced plant height, erected leaf, shortened leaf blade, and smaller panicle resulted from decreased primary and secondary branches number. These results implied that OsDof12 is involved in rice plant architecture formation. Furthermore, we performed a series of Brassinosteroid (BR)-responsive tests and found that overexpression of OsDof12 could also result in BR hyposensitivity. Of note, in WT plants the expression of OsDof12 was found up-regulated by BR treatment while in OsDof12 overexpression plants two positive BR signaling regulators, OsBRI1 and OsBZR1, were significantly down-regulated, indicating that OsDof12 may act as a negative BR regulator in rice. Taken together, our results suggested that overexpression of OsDof12 could lead to altered plant architecture by suppressing BR signaling. Thus, OsDof12 might be used as a new potential genetic regulator for future rice molecular breeding.
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Affiliation(s)
- Qi Wu
- Rice Research Institute, Sichuan Agricultural UniversityChengdu, China
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of SciencesBeijing, China
| | - Dayong Li
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of SciencesBeijing, China
| | - Dejun Li
- Key Laboratory of Biology and Genetic Resources of Rubber Tree, Rubber Research Institute, Chinese Academy of Tropical Agricultural SciencesDanzhou, China
| | - Xue Liu
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of SciencesBeijing, China
- Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of SciencesBeijing, China
| | - Xianfeng Zhao
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of SciencesBeijing, China
| | - Xiaobing Li
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of SciencesBeijing, China
| | - Shigui Li
- Rice Research Institute, Sichuan Agricultural UniversityChengdu, China
- *Correspondence: Shigui Li, Rice Research Institute, Sichuan Agricultural University, No. 211 Huimin Road, Chengdu 611130, China
| | - Lihuang Zhu
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of SciencesBeijing, China
- Lihuang Zhu, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, No.1 West Beichen Road, Chaoyang District, Beijing 100101, China
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Liu YF, Li QT, Lu X, Song QX, Lam SM, Zhang WK, Ma B, Lin Q, Man WQ, Du WG, Shui GH, Chen SY, Zhang JS. Soybean GmMYB73 promotes lipid accumulation in transgenic plants. BMC PLANT BIOLOGY 2014; 14:73. [PMID: 24655684 PMCID: PMC3998039 DOI: 10.1186/1471-2229-14-73] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2014] [Accepted: 03/20/2014] [Indexed: 05/18/2023]
Abstract
BACKGROUND Soybean is one of the most important oil crops. The regulatory genes involved in oil accumulation are largely unclear. We initiated studies to identify genes that regulate this process. RESULTS One MYB-type gene GmMYB73 was found to display differential expression in soybean seeds of different developing stages by microarray analysis and was further investigated for its functions in lipid accumulation. GmMYB73 is a small protein with single MYB repeat and has similarity to CPC-like MYB proteins from Arabidopsis. GmMYB73 interacted with GL3 and EGL3, and then suppressed GL2, a negative regulator of oil accumulation. GmMYB73 overexpression enhanced lipid contents in both seeds and leaves of transgenic Arabidopsis plants. Seed length and thousand-seed weight were also promoted. GmMYB73 introduction into the Arabidopsis try cpc double mutant rescued the total lipids, seed size and thousand-seed weight. GmMYB73 also elevated lipid levels in seeds and leaves of transgenic Lotus, and in transgenic hairy roots of soybean plants. GmMYB73 promoted PLDα1 expression, whose promoter can be bound and inhibited by GL2. PLDα1 mutation reduced triacylglycerol levels mildly in seeds but significantly in leaves of Arabidopsis plants. CONCLUSIONS GmMYB73 may reduce GL2, and then release GL2-inhibited PLDα1 expression for lipid accumulation. Manipulation of GmMYB73 may potentially improve oil production in legume crop plants.
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Affiliation(s)
- Yun-Feng Liu
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Qing-Tian Li
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Xiang Lu
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Qing-Xin Song
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Sin-Man Lam
- State Key Lab of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Wan-Ke Zhang
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Biao Ma
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Qing Lin
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Wei-Qun Man
- Institute of Soybean Research, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin 150086, China
| | - Wei-Guang Du
- Institute of Soybean Research, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin 150086, China
| | - Guang-Hou Shui
- State Key Lab of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Shou-Yi Chen
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Jin-Song Zhang
- State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
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Corrales AR, Nebauer SG, Carrillo L, Fernández-Nohales P, Marqués J, Renau-Morata B, Granell A, Pollmann S, Vicente-Carbajosa J, Molina RV, Medina J. Characterization of tomato Cycling Dof Factors reveals conserved and new functions in the control of flowering time and abiotic stress responses. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:995-1012. [PMID: 24399177 DOI: 10.1093/jxb/ert451] [Citation(s) in RCA: 66] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
DNA binding with One Finger (DOF) transcription factors are involved in multiple aspects of plant growth and development but their precise roles in abiotic stress tolerance are largely unknown. Here we report a group of five tomato DOF genes, homologous to Arabidopsis Cycling DOF Factors (CDFs), that function as transcriptional regulators involved in responses to drought and salt stress and flowering-time control in a gene-specific manner. SlCDF1-5 are nuclear proteins that display specific binding with different affinities to canonical DNA target sequences and present diverse transcriptional activation capacities in vivo. SlCDF1-5 genes exhibited distinct diurnal expression patterns and were differentially induced in response to osmotic, salt, heat, and low-temperature stresses. Arabidopsis plants overexpressing SlCDF1 or SlCDF3 showed increased drought and salt tolerance. In addition, the expression of various stress-responsive genes, such as COR15, RD29A, and RD10, were differentially activated in the overexpressing lines. Interestingly, overexpression in Arabidopsis of SlCDF3 but not SlCDF1 promotes late flowering through modulation of the expression of flowering control genes such as CO and FT. Overall, our data connect SlCDFs to undescribed functions related to abiotic stress tolerance and flowering time through the regulation of specific target genes and an increase in particular metabolites.
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Affiliation(s)
- Alba-Rocío Corrales
- Centro de Biotecnología y Genómica de Plantas (UPM-INIA), Campus Montegancedo, Autopista M40 (km 38), 28223 Madrid, Spain
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Le Hir R, Bellini C. The plant-specific dof transcription factors family: new players involved in vascular system development and functioning in Arabidopsis. FRONTIERS IN PLANT SCIENCE 2013; 4:164. [PMID: 23755058 PMCID: PMC3665933 DOI: 10.3389/fpls.2013.00164] [Citation(s) in RCA: 70] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2013] [Accepted: 05/10/2013] [Indexed: 05/02/2023]
Abstract
In higher plants phloem and xylem are responsible for long-distance transport of water, nutrients, and signals that act systemically at short or long-distance to coordinate developmental processes. The formation of the plant vascular system is a complex process that integrates signaling events and gene regulation at transcriptional and posttranscriptional levels. Thanks to transcriptomic and proteomic analysis we start to better understand the mechanisms underlying the formation and the functioning of the vascular system. The role of the DNA-binding with one finger (Dof TFs), a group of plant-specific transcription factors, recently emerged as part of the transcriptional regulatory networks acting on the formation and functioning of the vascular tissues. More than half of the members of this TF family are expressed in the vascular system. In addition some of them have been proposed to be mobile proteins, suggesting a possible role in the control of short- or long-distance signaling as well. This review summarizes the current knowledge on Dof TFs family in Arabidopsis with a special focus on their role in vascular development and functioning.
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Affiliation(s)
- Rozenn Le Hir
- UMR1318 Institut Jean-Pierre Bourgin, INRA-AgroParisTech, INRA Centre de Versailles, Versailles, France
- *Correspondence: Rozenn Le Hir, UMR1318 Institut Jean-Pierre Bourgin, INRA-AgroParisTech, INRA Centre de Versailles, Route de Saint-Cyr (RD10), 78026 Versailles Cedex, France. e-mail:
| | - Catherine Bellini
- UMR1318 Institut Jean-Pierre Bourgin, INRA-AgroParisTech, INRA Centre de Versailles, Versailles, France
- Department of Plant Physiology, Umeå Plant Science Centre, Umeå University, Umeå, Sweden
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