1
|
Surber SM, Thien Thao NP, Smith CN, Shomo ZD, Barnes AC, Roston RL. Exploring cotton SFR2's conundrum in response to cold stress. PLANT SIGNALING & BEHAVIOR 2024; 19:2362518. [PMID: 38836385 PMCID: PMC11155703 DOI: 10.1080/15592324.2024.2362518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2024] [Accepted: 05/28/2024] [Indexed: 06/06/2024]
Abstract
Cotton is an important agricultural crop to many regions across the globe but is sensitive to low-temperature exposure. The activity of the enzyme SENSITIVE TO FREEZING 2 (SFR2) improves cold tolerance of plants and produces trigalactosylsyldiacylglycerol (TGDG), but its role in cold sensitive plants, such as cotton remains unknown. Recently, it was reported that cotton SFR2 produced very little TGDG under normal and cold conditions. Here, we investigate cotton SFR2 activation and TGDG production. Using multiple approaches in the native system and transformation into Arabidopsis thaliana, as well as heterologous yeast expression, we provide evidence that cotton SFR2 activates differently than previously found among other plant species. We conclude with the hypothesis that SFR2 in cotton is not activated in a similar manner regarding acidification or freezing like Arabidopsis and that other regions of SFR2 protein are critical for activation of the enzyme than previously reported.
Collapse
Affiliation(s)
- Samantha M. Surber
- Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, USA
| | | | - Cailin N. Smith
- Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, USA
| | - Zachery D. Shomo
- Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, USA
| | - Allison C. Barnes
- United States Department of Agriculture, North Carolina State University, Raleigh, NC, USA
| | - Rebecca L. Roston
- Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, USA
| |
Collapse
|
2
|
Sun M, Xiao X, Khan KS, Lyu J, Yu J. Characterization and functions of Myeloblastosis (MYB) transcription factors in cucurbit crops. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2024; 348:112235. [PMID: 39186952 DOI: 10.1016/j.plantsci.2024.112235] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2024] [Revised: 07/15/2024] [Accepted: 08/18/2024] [Indexed: 08/28/2024]
Abstract
Myeloblastosis (MYB) is one of the largest family of transcription factors (TFs) in plants. It plays a key role in plant life activities, such as metabolic regulation, stress resistant, as well as helpful for plant growth and development. In China, cucurbit is an important and nutrients rich vegetable crop, which have high medicinal and socio-economic values. In this review, we discussed the structure and characterization of MYB TFs and how do regulate flower development, fruit maturity, fruit quality, and flavonoid biosynthesis. Furthermore, we highlight the effect and contribution of MYB TFs in the regulation of biotic and abiotic stress resistance. This comprehensive review will provide a new reference for the more effective application of MYB TF in quality control, stress resistance research and molecular breeding of cucurbit crops.
Collapse
Affiliation(s)
- Mingming Sun
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, PR China
| | - Xuemei Xiao
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, PR China; State Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou 730070, PR China.
| | - Khuram Shehzad Khan
- State Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou 730070, PR China; College of Agronomy, Gansu Agricultural University, Lanzhou 730070, China
| | - Jian Lyu
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, PR China; State Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou 730070, PR China
| | - Jihua Yu
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, PR China; State Key Laboratory of Aridland Crop Science, Gansu Agricultural University, Lanzhou 730070, PR China.
| |
Collapse
|
3
|
Kim Y, Kim SH, Lim J, Kim SH. ATBS1-INTERACTING FACTOR 2 Positively Regulates Freezing Tolerance via INDUCER OF CBF EXPRESSION 1/C-REPEAT BINDING FACTOR-Induced Cold Acclimation Pathway. PLANT & CELL PHYSIOLOGY 2024; 65:1363-1376. [PMID: 38957969 DOI: 10.1093/pcp/pcae072] [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: 10/13/2023] [Accepted: 07/02/2024] [Indexed: 07/04/2024]
Abstract
The INDUCER OF CBF EXPRESSION 1/C-REPEAT BINDING FACTOR (ICE1/CBF) pathway plays a crucial role in plant responses to cold stress, impacting growth and development. Here, we demonstrated that ATBS1-INTERACTING FACTOR 2 (AIF2), a non-DNA-binding basic helix-loop-helix transcription factor, positively regulates freezing tolerance through the ICE1/CBF-induced cold tolerance pathway in Arabidopsis. Cold stress transcriptionally upregulated AIF2 expression and induced AIF2 phosphorylation, thereby stabilizing the AIF2 protein during early stages of cold acclimation. The AIF2 loss-of-function mutant, aif2-1, exhibited heightened sensitivity to freezing before and after cold acclimation. In contrast, ectopic expression of AIF2, but not the C-terminal-deleted AIF2 variant, restored freezing tolerance. AIF2 enhanced ICE1 stability during cold acclimation and promoted the transcriptional expression of CBFs and downstream cold-responsive genes, ultimately enhancing plant tolerance to freezing stress. MITOGEN-ACTIVATED PROTEIN KINASES 3 and 6 (MPK3/6), known negative regulators of freezing tolerance, interacted with and phosphorylated AIF2, subjecting it to protein degradation. Furthermore, transient co-expression of MPK3/6 with AIF2 and ICE1 downregulated AIF2/ICE1-induced transactivation of CBF2 expression. AIF2 interacted preferentially with BRASSINOSTEROID-INSENSITIVE 2 (BIN2) and MPK3/6 during the early and later stages of cold acclimation, respectively, thereby differentially regulating AIF2 activity in a cold acclimation time-dependent manner. Moreover, AIF2 acted additively in a gain-of-function mutant of BRASSINAZOLE-RESISTANT 1 (BZR1; bzr1-1D) and a triple knockout mutant of BIN2 and its homologs (bin2bil1bil2) to induce CBFs-mediated freezing tolerance. This suggests that cold-induced AIF2 coordinates freezing tolerance along with BZR1 and BIN2, key positive and negative components, respectively, of brassinosteroid signaling pathways.
Collapse
Affiliation(s)
- Yoon Kim
- Division of Biological Science and Technology, Yonsei University, 1 Yonseidae-Gil, Wonju-Si 220-710, Republic of Korea
| | - Sun-Ho Kim
- Division of Biological Science and Technology, Yonsei University, 1 Yonseidae-Gil, Wonju-Si 220-710, Republic of Korea
| | - Jun Lim
- Department of Systems Biotechnology, Konkuk University, Gwangjin-gu, Seoul 05029, Republic of Korea
| | - Soo-Hwan Kim
- Division of Biological Science and Technology, Yonsei University, 1 Yonseidae-Gil, Wonju-Si 220-710, Republic of Korea
| |
Collapse
|
4
|
Qin Y, Dong X, Dong H, Wang X, Ye T, Wang Q, Duan J, Yu M, Zhang T, Du N, Shen S, Piao F, Guo Z. γ-aminobutyric acid contributes to a novel long-distance signaling in figleaf gourd rootstock-induced cold tolerance of grafted cucumber seedlings. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 216:109168. [PMID: 39366198 DOI: 10.1016/j.plaphy.2024.109168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2024] [Revised: 09/15/2024] [Accepted: 09/29/2024] [Indexed: 10/06/2024]
Abstract
Long-distance signals play a vital role in plant stress response. γ-aminobutyric acid (GABA) has been proposed to be a signal and protects crops against diverse stresses. However, whether GABA acts as a long-distance signal to plant response to stresses remains unknown. Here, we found that the GABA content in cucurbita rootstocks, especially figleaf gourd, was significantly higher than that in cucumber. Figleaf gourd rootstock obviously enhanced cold tolerance and GABA accumulation in roots, xylem sap and leaves of grafting cucumber seedlings. Conversely, GABA synthesis inhibitor 3-mercaptopropionic acid (3-MPA) irrigation was more effective than its foliar application in inhibiting grafting-induced cold tolerance. Moreover, fluorescence microscopy confirmed that GABA can be transported from root to shoot through the xylem when the roots of grafted seedlings were fed with fluorescein isothiocyatate-labeled GABA under normal and cold stress conditions. Importantly, 3-MPA irrigation attenuated grafting-induced cold tolerance, as revealed by a decline in the GABA accumulation, the transcripts of ICE1, CBF1 and COR47, the activities of the antioxidant enzymes, and an increase in stomatal aperture. Collectively, our findings strongly support that GABA functions as a novel long-distance signal in figleaf gourd rootstock-induced cold tolerance of grafted cucumber seedlings by modulating CBF-signalling pathways, antioxidant system and stomatal aperture, providing new evidence for long-distance signaling-mediated cold response of plants.
Collapse
Affiliation(s)
- Yanping Qin
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Xiaoxing Dong
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Han Dong
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Xiaojie Wang
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Ting Ye
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Qiaonan Wang
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Jingjing Duan
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Mingyao Yu
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Tao Zhang
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Nanshan Du
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Shunshan Shen
- College of Plant Protection, Henan Agricultural University, Zhengzhou, 450046, PR China
| | - Fengzhi Piao
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China.
| | - Zhixin Guo
- College of Horticulture, Henan Agricultural University, Zhengzhou, 450046, PR China.
| |
Collapse
|
5
|
Zhuoma P, Tondrob D, Qunpei T, Fu J, Dan S. Muti-omics revealed the mechanisms of MT-conferred tolerance of Elymus nutans Griseb. to low temperature at XiZang. BMC PLANT BIOLOGY 2024; 24:901. [PMID: 39350016 PMCID: PMC11440804 DOI: 10.1186/s12870-024-05583-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/21/2024] [Accepted: 09/10/2024] [Indexed: 10/04/2024]
Abstract
BACKGROUND Low temperature seriously limited the development of grass and crops in plateau. Thus, it is urgent to develop an effective strategy for improving the plant cold tolerance and elucidate the underlying mechanisms. RESULTS We found that MT alleviated the effects of cold stress on suppressing ENG growth, then improved cold tolerance of ENG. Integration of transcriptome and metabolome profiles showed that both cold exposure (TW) and MT reprogrammed the transcription pattern of galactose and flavonoids biosynthesis, leading to changes in compositions of soluble sugar and flavonoids in ENG. Additionally, TW inhibited the photosynthesis, and destroyed the antioxidant system of ENG, leading to accumulation of oxidant radicals represented by MDA. By contrast, MT promoted activities of antioxidant enzymes and flavonoid accumulation in ENG under cold condition, then reduced the MDA content and maintained normal expression of photosynthesis-related genes in ENG even under TW. Importantly, MT mainly enhanced cold tolerance of ENG via activating zeatin synthesis to regulate flavonoid biosynthesis in vivo. Typically, WRKY11 was identified to regulate MT-associated zeatin synthesis in ENG via directly binding on zeatin3 promoter. CONCLUSIONS MT could enhance ENG tolerance to cold stress via strengthening antioxidant system and especially zeatin synthesis to promote accumulation of flavonoids in ENG. Thus, our research gain insight into the global mechanisms of MT in promoting cold tolerance of ENG, then provided guidance for protecting plant from cold stress in plateau.
Collapse
Affiliation(s)
- Pubu Zhuoma
- Improvement, Institute of Pratacultural Science, Xizang Academy of Agricultural and Animal Husbandry Sciences, Lhasa, Xizang, 850000, China
| | - Dorjeeh Tondrob
- Improvement, Institute of Pratacultural Science, Xizang Academy of Agricultural and Animal Husbandry Sciences, Lhasa, Xizang, 850000, China.
- State Key Laboratory of Highland Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa, Xizang, 850000, China.
| | - Tudeng Qunpei
- Improvement, Institute of Pratacultural Science, Xizang Academy of Agricultural and Animal Husbandry Sciences, Lhasa, Xizang, 850000, China
| | - Juanjuan Fu
- Department of Grassland Science, College of Grassland Agriculture, Northwest A&F University, Yangling, Shaanxi, 712100, China.
- State Key Laboratory of Highland Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa, Xizang, 850000, China.
| | - Sang Dan
- Improvement, Institute of Pratacultural Science, Xizang Academy of Agricultural and Animal Husbandry Sciences, Lhasa, Xizang, 850000, China
| |
Collapse
|
6
|
Wang GL, Wu JQ, Chen YY, Xu YJ, An YH, Ren XQ, Xiong AS. Integrated volatile metabolome and transcriptome analyses provide insights into the warm aroma formation elicited by methyl jasmonate in carrot root. FRONTIERS IN PLANT SCIENCE 2024; 15:1467957. [PMID: 39376232 PMCID: PMC11457697 DOI: 10.3389/fpls.2024.1467957] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/21/2024] [Accepted: 09/02/2024] [Indexed: 10/09/2024]
Abstract
Carrot is a highly significant vegetable cultivated worldwide and possesses a unique aroma with abundant edible and medicinal values. However, it remains largely unknown whether jasmonic acid could regulate aroma formation in carrot. Here, an integrated analysis of the volatile metabolome and transcriptome of carrot roots exposed to different concentrations of methyl jasmonate (MeJA) was performed. The results revealed 1,227 volatile organic compounds and 972 differential accumulated metabolites, with terpenes representing the largest portion. MeJA treatment evidently increased the relative odor activity values as well as the accumulation of most volatile compounds. In addition, 4,787 differentially expressed genes were identified and subjected to function enrichment analysis, indicating a role of terpene biosynthesis and metabolism in response to MeJA application. A network consisting of 4,680 transcription factor-structural pairs that showed highly significant positive correlations was constructed, which may be utilized as genetic targets for examining terpene accumulation and aroma formation elicited by methyl jasmonate. The results from the present work substantially improved our understanding of MeJA-mediated aroma formation in carrot.
Collapse
Affiliation(s)
- Guang-Long Wang
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
- Jiangsu Provincial Agricultural Green and Low Carbon Production Technology Engineering Research Center, Huaiyin Institute of Technology, Huaian, China
| | - Jia-Qi Wu
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
| | - Yang-Yang Chen
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
| | - Yu-Jie Xu
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
| | - Ya-Hong An
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
| | - Xu-Qin Ren
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
- Jiangsu Provincial Agricultural Green and Low Carbon Production Technology Engineering Research Center, Huaiyin Institute of Technology, Huaian, China
| | - Ai-Sheng Xiong
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, College of Horticulture, Nanjing Agricultural University, Nanjing, China
| |
Collapse
|
7
|
Bulgakov VP, Fialko AV, Yugay YA. Involvement of epigenetic factors in flavonoid accumulation during plant cold adaptation. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 216:109096. [PMID: 39250844 DOI: 10.1016/j.plaphy.2024.109096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2024] [Revised: 08/26/2024] [Accepted: 09/03/2024] [Indexed: 09/11/2024]
Abstract
Plant responses to cold stress include either induction of flavonoid biosynthesis as part of defense responses or initially elevated levels of these substances to mitigate sudden temperature fluctuations. The role of chromatin modifying factors and, in general, epigenetic variability in these processes is not entirely clear. In this work, we review the literature to establish the relationship between flavonoids, cold and chromatin modifications. We demonstrate the relationship between cold acclimation and flavonoid accumulation, and then describe the cold adaptation signaling pathways and their relationship with chromatin modifying factors. Particular attention was paid to the cold signaling module OST1-HOS1-ICE1 and the novel function of the E3 ubiquitin protein ligase HOS1 (a protein involved in chromatin modification during cold stress) in flavonoid regulation.
Collapse
Affiliation(s)
- Victor P Bulgakov
- Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 159 Stoletija Str., Vladivostok, 690022, Russia; Institute of Automation and Control Processes, Far Eastern Branch of the Russian Academy of Sciences, 5 Radio Str., Vladivostok, 690041, Russia.
| | - Alexandra V Fialko
- Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 159 Stoletija Str., Vladivostok, 690022, Russia; Institute of Automation and Control Processes, Far Eastern Branch of the Russian Academy of Sciences, 5 Radio Str., Vladivostok, 690041, Russia
| | - Yulia A Yugay
- Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the Russian Academy of Sciences, 159 Stoletija Str., Vladivostok, 690022, Russia
| |
Collapse
|
8
|
Ma X, Zhu P, Du Y, Song Q, Ye W, Tang X, He J, Zhong Y, Ou J, Pang X. Transcriptome analysis and genome-wide identification of the dehydration-responsive element binding gene family in jackfruit under cold stress. BMC Genomics 2024; 25:833. [PMID: 39232675 PMCID: PMC11373402 DOI: 10.1186/s12864-024-10732-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Accepted: 08/21/2024] [Indexed: 09/06/2024] Open
Abstract
BACKGROUND Jackfruit (Artocarpus heterophyllus Lam.) is the world's largest and heaviest fruit and adapts to hot, humid tropical climates. Low-temperature injury in winter is a primary abiotic stress, which affects jackfruit growth and development. Therefore, breeding cold-resistant varieties and identifying the vital genes in the process of cold resistance are essential. The dehydration-responsive element binding (DREB) gene family is among the subfamily of the APETALA2/ethylene response factor transcription factor family and is significant in plant abiotic stress responses. METHODS In this study, a comparative analysis of the cold resistance property of 'GuangXi' ('GX') and 'Thailand' ('THA') jackfruit strains with different cold resistance characteristics was performed through chlorophyll fluorescence and transcriptome sequencing. RESULTS We found that differentially expressed genes (DEGs) are significantly enriched in the metabolic processes. Here, 93 DREB genes were identified in the jackfruit genome, and phylogenetic analysis was used to classify them into seven groups. Gene structure, conserved motifs, chromosomal location, and homologous relationships were used to analyze the structural characteristics of the DREB family. Transcriptomics indicated that most of the AhDREB genes exhibited down-regulated expression in 'THA.' The DEGs AhDREB12, AhDREB21, AhDREB29, and AhDREB34 were selected for quantitative real-time PCR, and the results showed that these genes also had down-regulated expression in 'THA.' CONCLUSIONS The above results suggest the significance of the DREB family in improving the cold resistance property of 'GX.'
Collapse
Affiliation(s)
- Xiangwei Ma
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Pengjin Zhu
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China.
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China.
| | - Yingjun Du
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Qiqi Song
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Weiyan Ye
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Xiuguan Tang
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Jiang He
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Yunjie Zhong
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Jingli Ou
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| | - Xinhua Pang
- Guangxi Subtropical Crops Research Institute , Nanning, 530000, China
- Guangxi Key Laboratory of Quality and Safety Control for Subtropical Fruits, Nanning, 530000, China
| |
Collapse
|
9
|
Zhang Y, Zhang Z, Ai Y, Zhang H, Chen Y, Ye R, Sun L, Shen H, Cheng Q. CaAOS as a hub gene based on physiological and transcriptomic analyses of cold-resistant and cold-sensitive pepper cultivars. Int J Biol Macromol 2024; 276:133961. [PMID: 39029820 DOI: 10.1016/j.ijbiomac.2024.133961] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2024] [Revised: 06/28/2024] [Accepted: 07/16/2024] [Indexed: 07/21/2024]
Abstract
The yield and quality of pepper are considerably influenced by the cold conditions. Herein, we performed morphological, physiological and transcriptomic analyses by using two pepper seedlings, '2379' (cold-resistant) and '2380' (cold-sensitive). Briefly, 60 samples from each cultivar were analyzed at four distinct time points (0, 6, 24 and 48 h) at 5 °C in darkness. The physiological indices and activities of enzymes exhibited marked differences between the two cultivars. Transcriptomic analysis indicated that, compared to the control group, 11,415 DEGs were identified in '2379' and '2380' at 24 h. In the early stage, the number of DEGs in '2379' was 5.68 times higher than that in '2380', potentially explaining the observed differences in tolerance to colds. Processes such as protein targeting to membranes, jasmonic acid (JA)-mediated signalling, cold response and abscisic acid-activated signalling were involved. Subsequently, we identified a hub gene, CaAOS, that is involved in JA biosynthesis, positively influences cold tolerance and is a target of CaMYC2. Variations in the GC-motif of the CaAOS's promoter may influence the expression levels of CaAOS under cold treatment. The result of this study may lead to the development of more effective strategies for enhancing cold tolerance, potentially benefitting pepper breeding in cold regions.
Collapse
Affiliation(s)
- Yingxue Zhang
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Zongpeng Zhang
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Yixin Ai
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Haizhou Zhang
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Yan Chen
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Ruiquan Ye
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Liang Sun
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Huolin Shen
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China
| | - Qing Cheng
- Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, China Agricultural University, Beijing 100193, China.
| |
Collapse
|
10
|
Shilpa, Thakur R, Prasad P. Epigenetic regulation of abiotic stress responses in plants. Biochim Biophys Acta Gen Subj 2024; 1868:130661. [PMID: 38885816 DOI: 10.1016/j.bbagen.2024.130661] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 02/15/2024] [Accepted: 06/13/2024] [Indexed: 06/20/2024]
Abstract
Plants face a wide array of challenges in their environment, both from living organisms (biotic stresses) and non-living factors (abiotic stresses). Among the major abiotic stressors affecting crop plants, variations in temperature, water availability, salinity, and cold pose significant threats to crop yield and the quality of produce. Plants possess remarkable adaptability and resilience, and they employ a range of genetic and epigenetic mechanisms to respond and cope with abiotic stresses. A few crucial set of epigenetic mechanisms that support plants in their battle against these stresses includes DNA methylation and histone modifications. These mechanisms play a pivotal role in enabling plants to endure and thrive under challenging environmental conditions. The mechanisms of different epigenetic mechanisms in responding to the abiotic stresses vary. Each plant species and type of stress may trigger distinct epigenetic responses, highlighting the complexity of the plant's ability to adapt under stress conditions. This review focuses on the paramount importance of epigenetics in enhancing a plant's ability to survive and excel under various abiotic stresses. It highlights recent advancements in our understanding of the epigenetic mechanisms that contribute to abiotic stress tolerance in plants. This growing knowledge is pivotal for shaping future efforts aimed at mitigating the impact of abiotic stresses on diverse crop plants.
Collapse
Affiliation(s)
- Shilpa
- Department of Biotechnology, Dr Yashwant Singh Parmar University of Horticulture and Forestry, Solan, Himachal Pradesh, India.
| | - Rajnikant Thakur
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla-2, Himachal Pradesh, India
| | - Pramod Prasad
- ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Shimla-2, Himachal Pradesh, India.
| |
Collapse
|
11
|
Xu L, Yang L, Li A, Guo J, Wang H, Qi H, Li M, Yang P, Song S. An AP2/ERF transcription factor confers chilling tolerance in rice. SCIENCE ADVANCES 2024; 10:eado4788. [PMID: 39196924 PMCID: PMC11352847 DOI: 10.1126/sciadv.ado4788] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2024] [Accepted: 07/24/2024] [Indexed: 08/30/2024]
Abstract
Cold stress, a prominent adverse environmental factor, severely hinders rice growth and productivity. Unraveling the complex mechanisms governing chilling tolerance in rice is crucial for molecular breeding of cold-tolerant varieties. Here, we identify an APETALA2/Ethylene Responsive Factor (AP2/ERF) transcription factor, OsERF52, as a positive modulator in response to low temperatures. OsERF52 directly regulates the expression of C-Repeat Binding Factor (CBF) genes in rice. In addition, Osmotic Stress/ABA-Activated Protein Kinase 9-mediated phosphorylation of OsERF52 at S261 enhances its stability and interaction with Ideal Plant Architecture 1 and OsbHLH002/OsICE1. This collaborative activation leads to the expression of OsCBFs, thereby initiating the chilling response in rice. Notably, plants with base-edited OsERF52S261D-3HA exhibit enhanced chilling resistance without yield penalty. Our findings unveil the mechanism orchestrated by a regulatory framework involving a protein kinase and transcription factors from diverse families, offering potential genetic resources for developing chilling-tolerant rice varieties.
Collapse
Affiliation(s)
- Liang Xu
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Lijia Yang
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Aipeng Li
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Jiazhuo Guo
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Huanyu Wang
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Haoyue Qi
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| | - Ming Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430026, China
| | - Pingfang Yang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430026, China
| | - Shiyong Song
- State Key Laboratory of Rice Biology and Breeding, Zhejiang Provincial Key Laboratory of Crop Genetic Resources, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
| |
Collapse
|
12
|
He Y, Zhang Y, Li J, Ren Z, Zhang W, Zuo X, Zhao W, Xing M, You J, Chen X. Transcriptome dynamics in Artemisia annua provides new insights into cold adaptation and de-adaptation. FRONTIERS IN PLANT SCIENCE 2024; 15:1412416. [PMID: 39268001 PMCID: PMC11390472 DOI: 10.3389/fpls.2024.1412416] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/04/2024] [Accepted: 07/25/2024] [Indexed: 09/15/2024]
Abstract
Plants adapt to cold stress through a tightly regulated process involving metabolic reprogramming and tissue remodeling to enhance tolerance within a short timeframe. However, the precise differences and interconnections among various organs during cold adaptation remain poorly understood. This study employed dynamic transcriptomic and metabolite quantitative analyses to investigate cold adaptation and subsequent de-adaptation in Artemisia annua, a species known for its robust resistance to abiotic stress. Our findings revealed distinct expression patterns in most differentially expressed genes (DEGs) encoding transcription factors and components of the calcium signal transduction pathway within the two organs under cold stress. Notably, the long-distance transport of carbon sources from source organs (leaves) to sink organs (roots) experienced disruption followed by resumption, while nitrogen transport from roots to leaves, primarily in the form of amino acids, exhibited acceleration. These contrasting transport patterns likely contribute to the observed differences in cold response between the two organs. The transcriptomic analysis further indicated that leaves exhibited increased respiration, accumulated anti-stress compounds, and initiated the ICE-CBF-COR signaling pathway earlier than roots. Differential expression of genes associated with cell wall biosynthesis suggests that leaves may undergo cell wall thickening while roots may experience thinning. Moreover, a marked difference was observed in phenylalanine metabolism between the two organs, with leaves favoring lignin production and roots favoring flavonoid synthesis. Additionally, our findings suggest that the circadian rhythm is crucial in integrating temperature fluctuations with the plant's internal rhythms during cold stress and subsequent recovery. Collectively, these results shed light on the coordinated response of different plant organs during cold adaptation, highlighting the importance of inter-organ communication for successful stress tolerance.
Collapse
Affiliation(s)
- Yunxiao He
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Yujiao Zhang
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
- Yanbian Korean Autonomous Prefecture Academy of Agricultural Sciences, Yanbian, Jilin, China
| | - Jiangnan Li
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Zhiyi Ren
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Wenjing Zhang
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Xianghua Zuo
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Wei Zhao
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Ming Xing
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Jian You
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| | - Xia Chen
- National and Local United Engineering Laboratory for Chinese Herbal Medicine Breeding and Cultivation, School of Life Sciences, Jilin University, Changchun, Jilin, China
| |
Collapse
|
13
|
Gill AS, Wolyn DJ. Transcriptomic analysis of Asparagus officinalis cultivars with varying levels of freezing tolerance over fall acclimation and spring deacclimation periods. FRONTIERS IN PLANT SCIENCE 2024; 15:1442784. [PMID: 39220003 PMCID: PMC11361922 DOI: 10.3389/fpls.2024.1442784] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/02/2024] [Accepted: 07/16/2024] [Indexed: 09/04/2024]
Abstract
Asparagus (Asparagus officinalis L.) is an important vegetable crop in southern Ontario, Canada, where winter air and soil temperatures below 0°C are common. Consequently, cultivars growing in this area must possess winterhardiness and freezing tolerance for survival. Asparagus acquires freezing tolerance in the fall through cold acclimation and loses freezing tolerance in the spring through deacclimation. To understand the molecular bases of these processes, transcriptomic analysis (RNA-Seq) was conducted on two cultivars, one adapted, 'Guelph Millennium' (GM), and one unadapted, 'UC157' (UC), to the winter conditions of southern Ontario. RNA extracted from bud and rhizome tissues, sampled on three dates during early spring and late fall, was subjected to sequencing. In the fall, the numbers of differentially expressed (DE) genes at the second and third harvests increased, relative to the first harvest, in dormant buds and rhizomes as freezing tolerance of cultivars increased, and the majority of DE genes were downregulated. In spring, freezing tolerance decreased as plants deacclimated and most genes DE at second and third harvests were upregulated in both cultivars. GM had lower LT50 (lethal temperature at which 50% of plants die) values and hence higher freezing tolerance than UC on specific sampling dates during both spring and fall, and expression patterns of specific genes were correlated with LT50 differences. Functional analysis revealed that these genes were involved in carbohydrate metabolic process, plant hormone signal transduction (auxin and gibberellin), proline metabolism, biosynthesis of secondary metabolites, circadian rhythm, and late embryogenesis abundant proteins and could be associated with cold acclimation and deacclimation processes. These findings will help researchers understand the molecular mechanisms of freezing tolerance in asparagus, leading to breeding and genetic strategies to improve the trait.
Collapse
Affiliation(s)
| | - David J. Wolyn
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| |
Collapse
|
14
|
He Z, Zhou M, Feng X, Di Q, Meng D, Yu X, Yan Y, Sun M, Li Y. The Role of Brassinosteroids in Plant Cold Stress Response. Life (Basel) 2024; 14:1015. [PMID: 39202757 PMCID: PMC11355907 DOI: 10.3390/life14081015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2024] [Revised: 08/14/2024] [Accepted: 08/14/2024] [Indexed: 09/03/2024] Open
Abstract
Temperature affects plant growth and geographical distribution. Cold stress occurs when temperatures fall below the physiologically optimal range for plants, causing permanent and irreversible damage to plant growth, development, and production. Brassinosteroids (BRs) are steroid hormones that play an important role in plant growth and various stress responses. Recent studies have shown that low temperatures affect BR biosynthesis in many plant species and that BR signaling is involved in the regulation of plant tolerance to low temperatures, both in the CBF-dependent and CBF-independent pathways. These two regulatory pathways correspond to transient and acclimation responses of low temperature, respectively. The crosstalk between BRs and other hormones is a significant factor in low-temperature tolerance. We provide an overview of recent developments in our knowledge of BRs' function in plant responses to cold stress and how they interact with other plant hormones in this review.
Collapse
Affiliation(s)
| | | | | | | | | | | | | | - Mintao Sun
- State Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (Z.H.); (M.Z.); (X.F.); (Q.D.); (D.M.); (X.Y.); (Y.Y.)
| | - Yansu Li
- State Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (Z.H.); (M.Z.); (X.F.); (Q.D.); (D.M.); (X.Y.); (Y.Y.)
| |
Collapse
|
15
|
Chen H, Liang X, Yang Z. Effects of Low-Temperature Stress on Physiological Characteristics and Microstructure of Stems and Leaves of Pinus massoniana L. PLANTS (BASEL, SWITZERLAND) 2024; 13:2229. [PMID: 39204665 PMCID: PMC11360594 DOI: 10.3390/plants13162229] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/29/2024] [Revised: 07/21/2024] [Accepted: 08/05/2024] [Indexed: 09/04/2024]
Abstract
Pinus massoniana L. is one of the most important conifer species in southern China and is the mainstay of the forest ecosystem and timber production, yet low temperatures limit its growth and geographical distribution. This study used 30-day-old seedlings from families of varying cold-tolerance to examine the morphological traits of needles and stems, chlorophyll fluorescence characteristics, protective enzymes, and changes in starch and lignin under different low-temperature stresses in an artificial climate chamber. The results showed that the seedlings of Pinus massoniana exhibited changes in phenotypic morphology and tissue structure under low-temperature stress. Physiological and biochemical indexes such as protective enzymes, osmoregulatory substances, starch, and lignin responded to low-temperature stress. The cold-tolerant family increased soluble sugars, starch grain, and lignin content as well as peroxidase activity, and decreased malondialdehyde content by increasing the levels of actual photochemical efficiency (ΦPSII), electron transport rate (ETR), and photochemical quenching (qP) to improve the cold tolerance ability. This study provides a reference for the selection and breeding of cold-tolerant genetic resources of Pinus massoniana and the mechanism of cold-tolerance, as well as the analysis of the mechanism of adaptation of Pinus massoniana in different climatic regions of China.
Collapse
Affiliation(s)
- Hu Chen
- Guangxi Key Laboratory of Superior Timber Trees Resource Cultivation, Guangxi Forestry Research Institute, Nanning 530002, China; (H.C.); (X.L.)
- Key Laboratory of Central South Fast-Growing Timber Cultivation of Forestry Ministry of China, Masson Pine Engineering Research Center of the State Forestry Administration, Nanning 530002, China
- Masson Pine Engineering Research Center of Guangxi, Nanning 530002, China
| | - Xingxing Liang
- Guangxi Key Laboratory of Superior Timber Trees Resource Cultivation, Guangxi Forestry Research Institute, Nanning 530002, China; (H.C.); (X.L.)
| | - Zhangqi Yang
- Guangxi Key Laboratory of Superior Timber Trees Resource Cultivation, Guangxi Forestry Research Institute, Nanning 530002, China; (H.C.); (X.L.)
- Key Laboratory of Central South Fast-Growing Timber Cultivation of Forestry Ministry of China, Masson Pine Engineering Research Center of the State Forestry Administration, Nanning 530002, China
- Masson Pine Engineering Research Center of Guangxi, Nanning 530002, China
| |
Collapse
|
16
|
Pu X, Fu Y, Xu C, Li X, Wang W, De K, Wei X, Yao X. Transcriptomic analyses provide molecular insight into the cold stress response of cold-tolerant alfalfa. BMC PLANT BIOLOGY 2024; 24:741. [PMID: 39095692 PMCID: PMC11297790 DOI: 10.1186/s12870-024-05136-y] [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: 03/22/2024] [Accepted: 05/13/2024] [Indexed: 08/04/2024]
Abstract
BACKGROUND Daye No.3 is a novel cultivar of alfalfa (Medicago sativa L.) that is well suited for cultivation in high-altitude regions such as the Qinghai‒Tibet Plateau owing to its high yield and notable cold resistance. However, the limited availability of transcriptomic information has hindered our investigation into the potential mechanisms of cold tolerance in this cultivar. Consequently, we conducted de novo transcriptome assembly to overcome this limitation. Subsequently, we compared the patterns of gene expression in Daye No. 3 during cold acclimatization and exposure to cold stress at various time points. RESULTS A total of 15 alfalfa samples were included in the transcriptome assembly, resulting in 141.97 Gb of clean bases. A total of 441 DEGs were induced by cold acclimation, while 4525, 5016, and 8056 DEGs were identified at 12 h, 24 h, and 36 h after prolonged cold stress at 4 °C, respectively. The consistency between the RT‒qPCR and transcriptome data confirmed the accuracy and reliability of the transcriptomic data. KEGG enrichment analysis revealed that many genes related to photosynthesis were enriched under cold stress. STEM analysis demonstrated that genes involved in nitrogen metabolism and the TCA cycle were consistently upregulated under cold stress, while genes associated with photosynthesis, particularly antenna protein genes, were downregulated. PPI network analysis revealed that ubiquitination-related ribosomal proteins act as hub genes in response to cold stress. Additionally, the plant hormone signaling pathway was activated under cold stress, suggesting its vital role in the cold stress response of alfalfa. CONCLUSIONS Ubiquitination-related ribosomal proteins induced by cold acclimation play a crucial role in early cold signal transduction. As hub genes, these ubiquitination-related ribosomal proteins regulate a multitude of downstream genes in response to cold stress. The upregulation of genes related to nitrogen metabolism and the TCA cycle and the activation of the plant hormone signaling pathway contribute to the enhanced cold tolerance of alfalfa.
Collapse
Affiliation(s)
- Xiaojian Pu
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China
| | - Yunjie Fu
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China
| | - Chengti Xu
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China.
| | - Xiuzhang Li
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China.
| | - Wei Wang
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China
| | - Kejia De
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China
| | - Xijie Wei
- Academy of Animal Husbandry and Veterinary Science, Qinghai University, No.1 Wei'er Road, Biopark, Chengbei District, Xining, Qinghai, 810016, China
| | - Xixi Yao
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, 810016, Qinghai Province, China
| |
Collapse
|
17
|
Zhang L, Wang S, Bai B, Chen Y, Xiang Z, Chen C, Kuang X, Yang Y, Fu J, Chen L, Mao D. OsKASI-2 is required for the regulation of unsaturation levels of membrane lipids and chilling tolerance in rice. PLANT BIOTECHNOLOGY JOURNAL 2024; 22:2157-2172. [PMID: 38506090 PMCID: PMC11258988 DOI: 10.1111/pbi.14336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 02/10/2024] [Accepted: 03/02/2024] [Indexed: 03/21/2024]
Abstract
Chilling stress has seriously limited the global production and geographical distribution of rice. However, the molecular mechanisms associated with plant responses to chilling stress are less known. In this study, we revealed a member of β-ketoacyl-ACP synthase I family (KASI), OsKASI-2 which confers chilling tolerance in rice. OsKASI-2 encodes a chloroplast-localized KASI enzyme mainly expressed in the leaves and anthers of rice and strongly induced by chilling stress. Disruption of OsKASI-2 led to decreased KAS enzymatic activity and the levels of unsaturated fatty acids, which impairs degree of unsaturation of membrane lipids, thus increased sensitivity to chilling stress in rice. However, the overexpression of OsKASI-2 significantly improved the chilling tolerance ability in rice. In addition, OsKASI-2 may regulate ROS metabolism in response to chilling stress. Natural variation of OsKASI-2 might result in difference in chilling tolerance between indica and japonica accessions, and Hap1 of OsKASI-2 confers chilling tolerance in rice. Taken together, we suggest OsKASI-2 is critical for regulating degree of unsaturation of membrane lipids and ROS accumulation for maintenance of membrane structural homeostasis under chilling stress, and provide a potential target gene for improving chilling tolerance of rice.
Collapse
Affiliation(s)
- Lin Zhang
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
- College of AgronomyHenan Agricultural UniversityZhengzhouChina
| | - Siyao Wang
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| | - Bin Bai
- State Key Laboratory of Hybrid RiceHunan Hybrid Rice Research CenterChangshaChina
| | - Yijun Chen
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| | - Zhipan Xiang
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| | - Chen Chen
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| | - Xuemei Kuang
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| | - Yuanzhu Yang
- Key Laboratory of Southern Rice Innovation and Improvement, Ministry of Agriculture and Rural Affairs, Hunan Engineering Laboratory of Disease and Pest Resistant Rice BreedingYuan Longping High‐Tech Agriculture Co., LtdChangshaChina
| | - Jun Fu
- Key Laboratory of Southern Rice Innovation and Improvement, Ministry of Agriculture and Rural Affairs, Hunan Engineering Laboratory of Disease and Pest Resistant Rice BreedingYuan Longping High‐Tech Agriculture Co., LtdChangshaChina
| | - Liangbi Chen
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| | - Dandan Mao
- Hunan Province Key Laboratory of Crop Sterile Germplasm Resource Innovation and Application, College of Life SciencesHunan Normal UniversityChangshaChina
| |
Collapse
|
18
|
Du SX, Wang LL, Yu WP, Xu SX, Chen L, Huang W. Appropriate induction of TOC1 ensures optimal MYB44 expression in ABA signaling and stress response in Arabidopsis. PLANT, CELL & ENVIRONMENT 2024; 47:3046-3062. [PMID: 38654596 DOI: 10.1111/pce.14922] [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: 12/25/2023] [Revised: 03/19/2024] [Accepted: 04/09/2024] [Indexed: 04/26/2024]
Abstract
Plants possess the remarkable ability to integrate the circadian clock with various signalling pathways, enabling them to quickly detect and react to both external and internal stress signals. However, the interplay between the circadian clock and biological processes in orchestrating responses to environmental stresses remains poorly understood. TOC1, a core component of the plant circadian clock, plays a vital role in maintaining circadian rhythmicity and participating in plant defences. Here, our study reveals a direct interaction between TOC1 and the promoter region of MYB44, a key gene involved in plant defence. TOC1 rhythmically represses MYB44 expression, thereby ensuring elevated MYB44 expression at dawn to help the plant in coping with lowest temperatures during diurnal cycles. Additionally, both TOC1 and MYB44 can be induced by cold stress in an Abscisic acid (ABA)-dependent and independent manner. TOC1 demonstrates a rapid induction in response to lower temperatures compared to ABA treatment, suggesting timely flexible regulation of TOC1-MYB44 regulatory module by the circadian clock in ensuring a proper response to diverse stresses and maintaining a balance between normal physiological processes and energy-consuming stress responses. Our study elucidates the role of TOC1 in effectively modulating expression of MYB44, providing insights into the regulatory network connecting the circadian clock, ABA signalling, and stress-responsive genes.
Collapse
Affiliation(s)
- Shen-Xiu Du
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
| | - Lu-Lu Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
| | - Wei-Peng Yu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
| | - Shu-Xuan Xu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
| | - Liang Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, Guangdong, China
- Guangdong Provincial Key Laboratory of Protein Function and Regulation in Agricultural Organisms, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
| | - Wei Huang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, Guangdong, China
- Guangdong Provincial Key Laboratory of Protein Function and Regulation in Agricultural Organisms, College of Life Sciences, South China Agricultural University, Guangzhou, Guangdong, China
| |
Collapse
|
19
|
Tao X, Yang L, Zhang M, Li Y, Xiao H, Yu L, Jiang C, Long Z, Zhang Y. Shallow water seeding cultivation enhances cold tolerance in tobacco seedlings. BMC PLANT BIOLOGY 2024; 24:698. [PMID: 39044176 PMCID: PMC11267769 DOI: 10.1186/s12870-024-05422-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2024] [Accepted: 07/15/2024] [Indexed: 07/25/2024]
Abstract
Cold stress can impact plant biology at both the molecular and morphological levels. We cultivated two different types of tobacco seedlings using distinct seeding methods, observing significant differences in their cold tolerance at 4 °C. After 12 h cold stress, shallow water seeding cultivation treatment demonstrates a relatively good growth state with slight wilting of the leaves. Tobacco grown using the float system exhibited short, thick roots, while those cultivated through shallow water seeding had elongated roots with more tips and forks. After cold stress, the shallow water seeding cultivation treatment demonstrated higher antioxidant enzyme activity, and lower malondialdehyde (MDA) content.Transcriptome analysis was performed on the leaves of these tobacco seedlings at three stages of cold treatment (before cold stress, after cold stress, and after 3 days of recovery). Upon analyzing the raw data, we found that the shallow water seeding cultivation treatment was associated with significant functional enrichment of nicotinamide adenine dinucleotide (NAD) biosynthesis and NAD metabolism before cold stress, enrichment of functions related to the maintenance of cellular structure after cold stress, and substantial functional enrichment related to photosynthesis during the recovery period. Weighted gene co-expression network analysis (WGCNA) was conducted, identifying several hub genes that may contribute to the differences in cold tolerance between the two tobacco seedlings. Hub genes related to energy conversion were predominantly identified in shallow water seeding cultivation treatment during our analysis, surpassing findings in other areas. These include the AS gene, which controls the synthesis of NAD precursors, the PED1 gene, closely associated with fatty acid β-oxidation, and the RROP1 gene, related to ATP production.Overall, our study provides a valuable theoretical basis for exploring improved methods of cultivating tobacco seedlings. Through transcriptome sequencing technology, we have elucidated the differences in gene expression in different tobacco seedlings at three time points, identifying key genes affecting cold tolerance in tobacco and providing possibilities for future gene editing.
Collapse
Affiliation(s)
- Xuan Tao
- College of Agronomy, Hunan Agricultural University, Changsha, China
| | - Lei Yang
- College of Agronomy, Hunan Agricultural University, Changsha, China
| | - Mingfa Zhang
- Xiangxi Branch of Hunan Provincial Tobacco Corporation, Xiangxi, China
| | - Yangyang Li
- Hunan Research Institute of Tobacco Science, Changsha, China
- Hunan Provincial Tobacco Corporation, Changsha, China
| | - Hanqian Xiao
- Hunan Research Institute of Tobacco Science, Changsha, China
- Hunan Provincial Tobacco Corporation, Changsha, China
| | - Lingyi Yu
- College of Agronomy, Hunan Agricultural University, Changsha, China
| | - Chaowei Jiang
- College of Agronomy, Hunan Agricultural University, Changsha, China
| | - Zeyu Long
- College of Agronomy, Hunan Agricultural University, Changsha, China
| | - Yiyang Zhang
- College of Agronomy, Hunan Agricultural University, Changsha, China.
| |
Collapse
|
20
|
Li Z, Wang W, Yu X, Zhao P, Li W, Zhang X, Peng M, Li S, Ruan M. Integrated analysis of DNA methylome and transcriptome revealing epigenetic regulation of CRIR1-promoted cold tolerance. BMC PLANT BIOLOGY 2024; 24:631. [PMID: 38965467 PMCID: PMC11225538 DOI: 10.1186/s12870-024-05285-0] [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: 03/07/2024] [Accepted: 06/10/2024] [Indexed: 07/06/2024]
Abstract
BACKGROUND DNA methylation contributes to the epigenetic regulation of nuclear gene expression, and is associated with plant growth, development, and stress responses. Compelling evidence has emerged that long non-coding RNA (lncRNA) regulates DNA methylation. Previous genetic and physiological evidence indicates that lncRNA-CRIR1 plays a positive role in the responses of cassava plants to cold stress. However, it is unclear whether global DNA methylation changes with CRIR1-promoted cold tolerance. RESULTS In this study, a comprehensive comparative analysis of DNA methylation and transcriptome profiles was performed to reveal the gene expression and epigenetic dynamics after CRIR1 overexpression. Compared with the wild-type plants, CRIR1-overexpressing plants present gained DNA methylation in over 37,000 genomic regions and lost DNA methylation in about 16,000 genomic regions, indicating a global decrease in DNA methylation after CRIR1 overexpression. Declining DNA methylation is not correlated with decreased/increased expression of the DNA methylase/demethylase genes, but is associated with increased transcripts of a few transcription factors, chlorophyll metabolism and photosynthesis-related genes, which could contribute to the CRIR1-promoted cold tolerance. CONCLUSIONS In summary, a first set of transcriptome and epigenome data was integrated in this study to reveal the gene expression and epigenetic dynamics after CRIR1 overexpression, with the identification of several TFs, chlorophyll metabolism and photosynthesis-related genes that may be involved in CRIR1-promoted cold tolerance. Therefore, our study has provided valuable data for the systematic study of molecular insights for plant cold stress response.
Collapse
Affiliation(s)
- Zhibo Li
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
| | - Wenjuan Wang
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
- College of Tropical Crops, Hainan University, Haikou, 570228, P.R. China
| | - Xiaoling Yu
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
| | - Pingjuan Zhao
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
| | - Wenbin Li
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
| | - Xiuchun Zhang
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
| | - Ming Peng
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China
| | - Shuxia Li
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China.
| | - Mengbin Ruan
- National Key Laboratory for Tropical Crop Breeding, Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Sanya Research Institute of Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, P.R. China.
| |
Collapse
|
21
|
Gou H, Lu S, Guo L, Che L, Li M, Zeng B, Yang J, Chen B, Mao J. Evolution of PIN gene family between monocotyledons and dicotyledons and VvPIN1 negatively regulates freezing tolerance in transgenic Arabidopsis. PHYSIOLOGIA PLANTARUM 2024; 176:e14464. [PMID: 39157882 DOI: 10.1111/ppl.14464] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2024] [Revised: 06/07/2024] [Accepted: 07/18/2024] [Indexed: 08/20/2024]
Abstract
The PIN-FORMED (PIN) proteins mediate the auxin flow throughout the plant and have been identified in many species. However, evolution differences in the PIN gene families have not been systematically analyzed, and their functions under abiotic stresses in grape are largely unexplored. In this study, 373 PIN genes were identified from 25 species and divided into 3 subgroups. Physicochemical properties analysis indicated that most of the PIN proteins were unstable alkaline hydrophobic proteins in nature. The synteny analysis showed that the PINs contained strong gene duplication. Motif composition revealed that PIN gene sequence differences between monocotyledons and dicotyledons were due to evolutionary-induced base loss, and the loss was more common in dicotyledonous. Meanwhile, the codon usage bias showed that the PINs showed stronger codon preference in monocotyledons, monocotyledons biased towards C3s and G3s, and dicotyledons biased towards A3s and T3s. In addition, the VvPIN1 can interact with VvCSN5. Significantly, under freezing treatment, the ion leakage,O 2 · - $$ \left({O}_2^{\cdotp -}\right) $$ , H2O2, and malondialdehyde (MDA) were obviously increased, while the proline (Pro) content, peroxidase (POD) activity, and glutathione (GSH) content were decreased in VvPIN1-overexpressing Arabidopsis compared to the wild type (WT). And quantitative real-time PCR (qRT-PCR) showed that AtICE1, AtICE2, AtCBF1, AtCBF2, and AtCBF3 were down-regulated in overexpression lines. These results demonstrated that VvPIN1 negatively regulated the freezing tolerance in transgenic Arabidopsis. Collectively, this study provides a novel insight into the evolution and a basis for further studies on the biological functions of PIN genes in monocotyledons and dicotyledons.
Collapse
Affiliation(s)
- Huimin Gou
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Shixiong Lu
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Lili Guo
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Lili Che
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Min Li
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Baozhen Zeng
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Juanbo Yang
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Baihong Chen
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| | - Juan Mao
- College of Horticulture, Gansu Agricultural University, Lanzhou, Gansu Province, People's Republic of China
| |
Collapse
|
22
|
Zheng L, Li B, Zhang G, Zhou Y, Gao F. Jasmonate enhances cold acclimation in jojoba by promoting flavonol synthesis. HORTICULTURE RESEARCH 2024; 11:uhae125. [PMID: 38966867 PMCID: PMC11220180 DOI: 10.1093/hr/uhae125] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Accepted: 04/22/2024] [Indexed: 07/06/2024]
Abstract
Jojoba is an industrial oil crop planted in tropical arid areas, and its low-temperature sensitivity prevents its introduction into temperate areas. Studying the molecular mechanisms associated with cold acclimation in jojoba is advantageous for developing breeds with enhanced cold tolerance. In this study, metabolomic analysis revealed that various flavonols accumulate in jojoba during cold acclimation. Time-course transcriptomic analysis and weighted correlation network analysis (WGCNA) demonstrated that flavonol biosynthesis and jasmonates (JAs) signaling pathways played crucial roles in cold acclimation. Combining the biochemical and genetic analyses showed that ScMYB12 directly activated flavonol synthase gene (ScFLS). The interaction between ScMYB12 and transparent testa 8 (ScTT8) promoted the expression of ScFLS, but the negative regulator ScJAZ13 in the JA signaling pathway interacted with ScTT8 to attenuate the transcriptional activity of the ScTT8 and ScMYB12 complex, leading to the downregulation of ScFLS. Cold acclimation stimulated the production of JA in jojoba leaves, promoted the degradation of ScJAZ13, and activated the transcriptional activity of ScTT8 and ScMYB12 complexes, leading to the accumulation of flavonols. Our findings reveal the molecular mechanism of JA-mediated flavonol biosynthesis during cold acclimation in jojoba and highlight the JA pathway as a promising means for enhancing cold tolerance in breeding efforts.
Collapse
Affiliation(s)
- Lamei Zheng
- Key Laboratory of Mass Spectrometry Imaging and Metabolomics (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
- Key Laboratory of Ecology and Environment in Minority Areas (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100081, China
| | - Bojing Li
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100081, China
| | - Genfa Zhang
- College of Life Sciences, Beijing Normal University, Beijing 100875, China
| | - Yijun Zhou
- Key Laboratory of Mass Spectrometry Imaging and Metabolomics (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
- Key Laboratory of Ecology and Environment in Minority Areas (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100081, China
| | - Fei Gao
- Key Laboratory of Mass Spectrometry Imaging and Metabolomics (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
- Key Laboratory of Ecology and Environment in Minority Areas (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100081, China
| |
Collapse
|
23
|
Yu G, Zhang B, Chen Q, Huang Z, Zhang B, Wang K, Han J. Dynamic DNA methylation modifications in the cold stress response of cassava. Genomics 2024; 116:110871. [PMID: 38806102 DOI: 10.1016/j.ygeno.2024.110871] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2024] [Revised: 05/21/2024] [Accepted: 05/25/2024] [Indexed: 05/30/2024]
Abstract
Cassava, a crucial tropical crop, faces challenges from cold stress, necessitating an exploration of its molecular response. Here, we investigated the role of DNA methylation in moderating the response to moderate cold stress (10 °C) in cassava. Using whole-genome bisulfite sequencing, we examined DNA methylation patterns in leaf blades and petioles under control conditions, 5 h, and 48 h of cold stress. Tissue-specific responses were observed, with leaf blades exhibiting subtle changes, while petioles displayed a pronounced decrease in methylation levels under cold stress. We identified cold stress-induced differentially methylated regions (DMRs) that demonstrated both tissue and treatment specificity. Importantly, these DMRs were enriched in genes with altered expression, implying functional relevance. The cold-response transcription factor ERF105 associated with DMRs emerged as a significant and conserved regulator across tissues and treatments. Furthermore, we investigated DNA methylation dynamics in transposable elements, emphasizing the sensitivity of MITEs with bHLH binding motifs to cold stress. These findings provide insights into the epigenetic regulation of response to cold stress in cassava, contributing to an understanding of the molecular mechanisms underlying stress adaptation in this tropical plant.
Collapse
Affiliation(s)
- Guangrun Yu
- School of Life Sciences, Nantong University, Nantong 226019, China; Xinglin College, Nantong University, Qidong 226236, China
| | - Baowang Zhang
- Qingdao Smart Rural Development Service Center, Qingdao 266000, China
| | - Qi Chen
- School of Life Sciences, Nantong University, Nantong 226019, China; Xinglin College, Nantong University, Qidong 226236, China
| | - Zequan Huang
- Xinglin College, Nantong University, Qidong 226236, China
| | - Baohong Zhang
- Department of Biology, East Carolina University, Greenville, NC 27858, USA
| | - Kai Wang
- School of Life Sciences, Nantong University, Nantong 226019, China.
| | - Jinlei Han
- School of Life Sciences, Nantong University, Nantong 226019, China.
| |
Collapse
|
24
|
Zhu X, Ma X, Hu W, Xing Y, Huang S, Chen Z, Fang L. Genome-wide identification of TBL gene family and functional analysis of GhTBL84 under cold stress in cotton. FRONTIERS IN PLANT SCIENCE 2024; 15:1431835. [PMID: 38957598 PMCID: PMC11217346 DOI: 10.3389/fpls.2024.1431835] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/13/2024] [Accepted: 06/03/2024] [Indexed: 07/04/2024]
Abstract
Cotton fiber, the mainstay of the world's textile industry, is formed by the differentiation of epidermal cells on the outer peridium of the ovule. The TBL gene family is involved in the regulation of epidermal hair development as well as response to abiotic stress. However, the function of TBL genes in cotton has not been systematically studied yet. Here, we identified 131 and 130 TBL genes in TM-1 (Gossypium hirsutum) and Hai7124 (Gossypium barbadense), respectively. Phylogenetic, gene structure, expression pattern and cis-element of promoter analysis were performed and compared. Single gene association analysis indicated that more TBL genes related to fiber quality traits were found in G. barbadense, whereas more genes associated with yield traits were found in G. hirsutum. One gene, GhTBL84 (GH_D04G0930), was induced by treatment at 4°C for 12 and 24 h in G. hirsutum and silencing of the GhTBL84 gene by VIGS technology in TM-1 can significantly improve the resistance of cotton seedlings to low temperature stress. In sum, our study conducted a genome-wide identification and comparative analysis of TBL family genes in G. hirsutum and G. barbadense and demonstrated a group of TBL genes significantly associated with fiber quality and excavated cold stress responsive gene, such as GhTBL84, providing a theoretical basis for further improving cotton agronomic traits.
Collapse
Affiliation(s)
- Xiaoqing Zhu
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Xiaowei Ma
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Wanying Hu
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Yulin Xing
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Shengcai Huang
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Zequan Chen
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
- Hainan Institute of Zhejiang University, Sanya, China
| | - Lei Fang
- Zhejiang Provincial Key Laboratory of Crop Genetic Resources, Institute of Crop Science, Plant Precision Breeding Academy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
- Hainan Institute of Zhejiang University, Sanya, China
| |
Collapse
|
25
|
Xu C. The Oryza sativa transcriptome responds spatiotemporally to polystyrene nanoplastic stress. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 928:172449. [PMID: 38615784 DOI: 10.1016/j.scitotenv.2024.172449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2024] [Revised: 03/20/2024] [Accepted: 04/10/2024] [Indexed: 04/16/2024]
Abstract
Nanoplastic represents an emerging abiotic stress facing modern agriculture, impacting global crop production. However, the molecular response of crop plants to this stress remains poorly understood at a spatiotemporal resolution. We therefore used RNA sequencing to profile the transcriptome expressed in rice (Oryza sativa) root and leaf organs at 1, 2, 4, and 8 d post exposure with nanoplastic. We revealed a striking similarity between the rice biomass dynamics in aboveground parts to that in belowground parts during nanoplastic stress, but transcriptome did not. At the global transcriptomic level, a total of 2332 differentially expressed genes were identified, with the majority being spatiotemporal specific, reflecting that nanoplastics predominantly regulate three processes in rice seedlings: (1) down-regulation of chlorophyll biosynthesis, photosynthesis, and starch, sucrose and nitrogen metabolism, (2) activation of defense responses such as brassinosteroid biosynthesis and phenylpropanoid biosynthesis, and (3) modulation of jasmonic acid and cytokinin signaling pathways by transcription factors. Notably, the genes involved in plant-pathogen interaction were shown to be successively modulated by both root and leaf organs, particularly plant disease defense genes (OsWRKY24, OsWRKY53, Os4CL3, OsPAL4, and MPK5), possibly indicating that nanoplastics affect rice growth indirectly through other biota. Finally, we associated biomass phenotypes with the temporal reprogramming of rice transcriptome by weighted gene co-expression network analysis, noting a significantly correlation with photosynthesis, carbon metabolism, and phenylpropanoid biosynthesis that may reflect the mechanisms of biomass reduction. Functional analysis further identified PsbY, MYB, cytochrome P450, and AP2/ERF as hub genes governing these pathways. Overall, our work provides the understanding of molecular mechanisms of rice in response to nanoplastics, which in turn suggests how rice might behave in a nanoplastic pollution scenario.
Collapse
Affiliation(s)
- Chanchan Xu
- Research Center for Eco-Environmental Engineering, Dongguan University of Technology, Dongguan 523808, China; Institute of Environmental Research at Greater Bay Area, Guangzhou University, Guangzhou 510006, China.
| |
Collapse
|
26
|
Wang J, Zhang Y, Wang J, Khan A, Kang Z, Ma Y, Zhang J, Dang H, Li T, Hu X. SlGAD2 is the target of SlTHM27, positively regulates cold tolerance by mediating anthocyanin biosynthesis in tomato. HORTICULTURE RESEARCH 2024; 11:uhae096. [PMID: 38855415 PMCID: PMC11161262 DOI: 10.1093/hr/uhae096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/06/2023] [Accepted: 03/25/2024] [Indexed: 06/11/2024]
Abstract
Cold stress significantly limits the yield and quality of tomato. Deciphering the key genes related to cold tolerance is important for selecting and breeding superior cold-tolerant varieties. γ-aminobutyric acid (GABA) responds to various types of stress by rapidly accumulating in plant. In this study, glutamic acid decarboxylase (GAD2) was a positive regulator to enhance cold stress tolerance of tomato. Overexpression of SlGAD2 decreased the extent of cytoplasmic membrane damage and increased the endogenous GABA content, antioxidant enzyme activities, and reactive oxygen species (ROS) scavenging capacity in response to cold stress, whereas Slgad2 mutant plants showed the opposite trend. In addition, SlGAD2 induced anthocyanin biosynthesis in response to cold stress by increasing the content of endogenous GABA. Further study revealed that SlGAD2 expression was negatively regulated by the transcription factor SlTHM27. However, the transcript levels of SlTHM27 were repressed under cold stress. Antioxidant enzyme activities, SlGAD2 transcript levels, GABA and anthocyanin contents were significantly increased in Slthm27 mutant plants. Further, our study demonstrated that SlTHM27 decreases SlGAD2-promoted cold resistance in tomato by repressing SlGAD2 transcription. Overall, our results showed that the SlTHM27-SlGAD2 model regulates the cold tolerance in tomato by regulating GABA and anthocyanin.
Collapse
Affiliation(s)
- Jingrong Wang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Yong Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Junzheng Wang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Abid Khan
- Department of Horticulture, The University of Haripur, Haripur 22620, Pakistan
| | - Zheng Kang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Yongbo Ma
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Jiarui Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Haoran Dang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| | - Tianlai Li
- College of Horticulture, Shenyang Agricultural University, Shenyang, Liaoning 110866, China
| | - Xiaohui Hu
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, China
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of Agriculture and Rural Affairs, Yangling, Shaanxi, 712100, China
- Shaanxi Protected Agriculture Engineering Technology Research Centre, Yangling, Shaanxi, 712100, China
| |
Collapse
|
27
|
Wu J, Liu H, Zhang Y, Zhang Y, Li D, Liu S, Lu S, Wei L, Hua J, Zou B. A major gene for chilling tolerance variation in Indica rice codes for a kinase OsCTK1 that phosphorylates multiple substrates under cold. THE NEW PHYTOLOGIST 2024; 242:2077-2092. [PMID: 38494697 DOI: 10.1111/nph.19696] [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: 11/20/2023] [Accepted: 02/28/2024] [Indexed: 03/19/2024]
Abstract
Rice is susceptible to chilling stress. Identifying chilling tolerance genes and their mechanisms are key to improve rice performance. Here, we performed a genome-wide association study to identify regulatory genes for chilling tolerance in rice. One major gene for chilling tolerance variation in Indica rice was identified as a casein kinase gene OsCTK1. Its function and natural variation are investigated at the physiological and molecular level by its mutants and transgenic plants. Potential substrates of OsCTK1 were identified by phosphoproteomic analysis, protein-protein interaction assay, in vitro kinase assay, and mutant characterization. OsCTK1 positively regulates rice chilling tolerance. Three of its putative substrates, acidic ribosomal protein OsP3B, cyclic nucleotide-gated ion channel OsCNGC9, and dual-specific mitogen-activated protein kinase phosphatase OsMKP1, are each involved in chilling tolerance. In addition, a natural OsCTK1 chilling-tolerant (CT) variant exhibited a higher kinase activity and conferred greater chilling tolerance compared with a chilling-sensitive (CS) variant. The CT variant is more prevalent in CT accessions and is distributed more frequently in higher latitude compared with the CS variant. This study thus enables a better understanding of chilling tolerance mechanisms and provides gene variants for genetic improvement of chilling tolerance in rice.
Collapse
Affiliation(s)
- Jiawen Wu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Huimin Liu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, 410125, China
| | - Yan Zhang
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
- China National Rice Research Institute, 359 Tiyuchang Road, Hangzhou, 310006, China
| | - Yingdong Zhang
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Dongling Li
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Shiyan Liu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Shan Lu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Lihui Wei
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China
| | - Jian Hua
- Plant Biology Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Baohong Zou
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Jiangsu Collaborative Innovation Center for Modern Crop Production, Cyrus Tang Innovation Center for Crop Seed Industry, Jiangsu Province Engineering Research Center of Seed Industry Science and Technology, College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| |
Collapse
|
28
|
de Leone MJ, Yanovsky MJ. The circadian clock and thermal regulation in plants: novel insights into the role of positive circadian clock regulators in temperature responses. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:2809-2818. [PMID: 38373194 DOI: 10.1093/jxb/erae045] [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: 10/11/2023] [Accepted: 02/19/2024] [Indexed: 02/21/2024]
Abstract
The impact of rising global temperatures on crop yields is a serious concern, and the development of heat-resistant crop varieties is crucial for mitigating the effects of climate change on agriculture. To achieve this, a better understanding of the molecular basis of the thermal responses of plants is necessary. The circadian clock plays a central role in modulating plant biology in synchrony with environmental changes, including temperature fluctuations. Recent studies have uncovered the role of transcriptional activators of the core circadian network in plant temperature responses. This expert view highlights key novel findings regarding the role of the RVE and LNK gene families in controlling gene expression patterns and plant growth under different temperature conditions, ranging from regular diurnal oscillations to extreme stress temperatures. These findings reinforce the essential role of the circadian clock in plant adaptation to changing temperatures and provide a basis for future studies on crop improvement.
Collapse
Affiliation(s)
- María José de Leone
- Fundación Instituto Leloir-IIBBA/CONICET, Av. Patricias Argentinas 435, Ciudad Autónoma de Buenos Aires, Argentina
| | - Marcelo Javier Yanovsky
- Fundación Instituto Leloir-IIBBA/CONICET, Av. Patricias Argentinas 435, Ciudad Autónoma de Buenos Aires, Argentina
| |
Collapse
|
29
|
Li Y, Zhu J, Xu J, Zhang X, Xie Z, Li Z. Effect of cold stress on photosynthetic physiological characteristics and molecular mechanism analysis in cold-resistant cotton (ZM36) seedlings. FRONTIERS IN PLANT SCIENCE 2024; 15:1396666. [PMID: 38803600 PMCID: PMC11128660 DOI: 10.3389/fpls.2024.1396666] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/06/2024] [Accepted: 04/16/2024] [Indexed: 05/29/2024]
Abstract
Low temperature and cold damage seriously hinder the growth, development, and morphogenesis of cotton seedlings. However, the response mechanism of cotton seedlings under cold stress still lacks research. In this study, transcriptome sequencing, gas exchange parameters, and rapid chlorophyll fluorescence parameters were analyzed in leaves of cold-tolerant upland cotton variety "ZM36" under different temperature stress [25°C (T25, CK), 15°C (T15), 10°C (T10), and 4°C (T4)]. The results showed that the net photosynthetic rate (Pn), stomatal conductance (Gs), transpiration rate (Tr), PSII potential maximum photochemical efficiency (Fv/Fm), and performance index (PIabs) of cotton leaves significantly decreased, and the intercellular CO2 concentration (Ci) and Fo/Fm significantly increased under cold stress. The transcriptome sequencing analysis showed that a total of 13,183 DEGs were involved in the response of cotton seedlings at each temperature point (T25, T15, T10, and T4), mainly involving five metabolic pathways-the phosphatidylinositol signaling system, photosynthesis, photosynthesis antenna protein, carbon fixation in photosynthetic organisms, and carotenoid synthesis. The 1,119 transcription factors were discovered among all the DEGs. These transcription factors involve 59 families, of which 15.8% of genes in the NAC family are upregulated. Through network regulatory analysis, the five candidate genes GhUVR8 (GH_A05G3668), GhPLATZ (GH_A09G2161), GhFAD4-1 (GH_A01G0758), GhNFYA1 (GH_A02G1336), and GhFAD4-2 (GH_D01G0766) were identified in response to cold stress. Furthermore, suppressing the expression level of GhPLATZ by virus-induced gene silencing led to the reduction of low temperature resistance, implying GhPLATZ as a positive regulator of low temperature tolerance. The findings of the study revealed a piece of the complex response mechanism of the cold-tolerant variety "ZM36" to different cold stresses and excavated key candidate genes for low temperature response, which provided support for accelerating the selection and breeding of cotton varieties with low temperature tolerance.
Collapse
Affiliation(s)
- Youzhong Li
- College of Agriculture, Shihezi University, Shihezi, Xinjiang, China
- Cotton Research Institute, Xinjiang Academy of Agricultural and Reclamation Science/Xinjiang Production and Construction Group Key Laboratory of Crop Germplasm Enhancement and Gene Resources Utilization, Shihezi, Xinjiang, China
| | - Jincheng Zhu
- College of Agriculture, Shihezi University, Shihezi, Xinjiang, China
- Xinjiang Production and Construction Group Key Laboratory of Crop Germplasm Enhancement and Gene Resources Utilization, Biotechnology Research Institute, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi, Xinjiang, China
| | - Jianwei Xu
- College of Agriculture, Shihezi University, Shihezi, Xinjiang, China
| | - Xianliang Zhang
- Western Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Changji, China
| | - Zongming Xie
- Cotton Research Institute, Xinjiang Academy of Agricultural and Reclamation Science/Xinjiang Production and Construction Group Key Laboratory of Crop Germplasm Enhancement and Gene Resources Utilization, Shihezi, Xinjiang, China
| | - Zhibo Li
- College of Agriculture, Shihezi University, Shihezi, Xinjiang, China
| |
Collapse
|
30
|
Li P, Zheng T, Domingues DS, Liu Y, Ahmad S. Editorial: Low-temperature stress in plants: molecular responses, tolerance mechanisms, plant biodesign and breeding applications. FRONTIERS IN PLANT SCIENCE 2024; 15:1411636. [PMID: 38774222 PMCID: PMC11107426 DOI: 10.3389/fpls.2024.1411636] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2024] [Accepted: 04/30/2024] [Indexed: 05/24/2024]
Affiliation(s)
- Ping Li
- College of Forestry and College of Landscape and Tourism, Agricultural University of Hebei, Baoding, China
| | - Tangchun Zheng
- School of Landscape Architecture, Beijing Forestry University, Beijing, China
| | - Douglas S. Domingues
- Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Yang Liu
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, United States
| | - Sagheer Ahmad
- Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou, China
| |
Collapse
|
31
|
Deng D, Guo Y, Guo L, Li C, Nie Y, Wang S, Wu W. Functional Divergence in Orthologous Transcription Factors: Insights from AtCBF2/3/1 and OsDREB1C. Mol Biol Evol 2024; 41:msae089. [PMID: 38723179 PMCID: PMC11119335 DOI: 10.1093/molbev/msae089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2024] [Revised: 04/19/2024] [Accepted: 05/06/2024] [Indexed: 05/25/2024] Open
Abstract
Despite traditional beliefs of orthologous genes maintaining similar functions across species, growing evidence points to their potential for functional divergence. C-repeat binding factors/dehydration-responsive element binding protein 1s (CBFs/DREB1s) are critical in cold acclimation, with their overexpression enhancing stress tolerance but often constraining plant growth. In contrast, a recent study unveiled a distinctive role of rice OsDREB1C in elevating nitrogen use efficiency (NUE), photosynthesis, and grain yield, implying functional divergence within the CBF/DREB1 orthologs across species. Here, we delve into divergent molecular mechanisms of OsDREB1C and AtCBF2/3/1 by exploring their evolutionary trajectories across rice and Arabidopsis genomes, regulatomes, and transcriptomes. Evolutionary scrutiny shows discrete clades for OsDREB1C and AtCBF2/3/1, with the Poaceae-specific DREB1C clade mediated by a transposon event. Genome-wide binding profiles highlight OsDREB1C's preference for GCCGAC compared to AtCBF2/3/1's preference for A/GCCGAC, a distinction determined by R12 in the OsDREB1C AP2/ERF domain. Cross-species multiomic analyses reveal shared gene orthogroups (OGs) and underscore numerous specific OGs uniquely bound and regulated by OsDREB1C, implicated in NUE, photosynthesis, and early flowering, or by AtCBF2/3/1, engaged in hormone and stress responses. This divergence arises from gene gains/losses (∼16.7% to 25.6%) and expression reprogramming (∼62.3% to 66.2%) of OsDREB1C- and AtCBF2/3/1-regulated OGs during the extensive evolution following the rice-Arabidopsis split. Our findings illustrate the regulatory evolution of OsDREB1C and AtCBF2/3/1 at a genomic scale, providing insights on the functional divergence of orthologous transcription factors following gene duplications across species.
Collapse
Affiliation(s)
- Deyin Deng
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
| | - Yixin Guo
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
| | - Liangyu Guo
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
| | - Chengyang Li
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
| | - Yuqi Nie
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
| | - Shuo Wang
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
| | - Wenwu Wu
- State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology, Zhejiang A&F University, Hangzhou 311300, China
- Zhejiang International Science and Technology Cooperation Base for Plant Germplasm Resources Conservation and Utilization, Zhejiang A&F University, Hangzhou 311300, China
| |
Collapse
|
32
|
Shu L, Li L, Jiang YQ, Yan J. Advances in membrane-tethered NAC transcription factors in plants. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2024; 342:112034. [PMID: 38365003 DOI: 10.1016/j.plantsci.2024.112034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Revised: 02/08/2024] [Accepted: 02/11/2024] [Indexed: 02/18/2024]
Abstract
Transcription factors are central components in cell signal transduction networks and are critical regulators for gene expression. It is estimated that approximately 10% of all transcription factors are membrane-tethered. MTFs (membrane-bound transcription factors) are latent transcription factors that are inherently anchored in the cellular membrane in a dormant form. When plants encounter environmental stimuli, they will be released from the membrane by intramembrane proteases or by the ubiquitin proteasome pathway and then were translocated to the nucleus. The capacity to instantly activate dormant transcription factors is a critical strategy for modulating diverse cellular functions in response to external or internal signals, which provides an important transcriptional regulatory network in response to sudden stimulus and improves plant survival. NTLs (NTM1-like) are a small subset of NAC (NAM, ATAF1/2, CUC2) transcription factors, which contain a conserved NAC domain at the N-terminus and a transmembrane domain at the C-terminus. In the past two decades, several NTLs have been identified from several species, and most of them are involved in both development and stress response. In this review, we review the reports and findings on NTLs in plants and highlight the mechanism of their nuclear import as well as their functions in regulating plant growth and stress response.
Collapse
Affiliation(s)
- Lin Shu
- College of Plant Protection, Henan Agricultural University, Zhengzhou, Henan province 450002, China
| | - Longhui Li
- College of Plant Protection, Henan Agricultural University, Zhengzhou, Henan province 450002, China
| | - Yuan-Qing Jiang
- State Key Laboratory of Crop Stress Biology for Arid Areas and, College of Life Sciences, Northwest A & F University, Yangling, Shaanxi province 712100, China
| | - Jingli Yan
- College of Plant Protection, Henan Agricultural University, Zhengzhou, Henan province 450002, China.
| |
Collapse
|
33
|
Guo L, Wang S, Jiao X, Ye X, Deng D, Liu H, Li Y, Van de Peer Y, Wu W. Convergent and/or parallel evolution of RNA-binding proteins in angiosperms after polyploidization. THE NEW PHYTOLOGIST 2024; 242:1377-1393. [PMID: 38436132 DOI: 10.1111/nph.19656] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2023] [Accepted: 02/20/2024] [Indexed: 03/05/2024]
Abstract
Increasing studies suggest that the biased retention of stress-related transcription factors (TFs) after whole-genome duplications (WGDs) could rewire gene transcriptional networks, facilitating plant adaptation to challenging environments. However, the role of posttranscriptional factors (e.g. RNA-binding proteins, RBPs) following WGDs has been largely ignored. Uncovering thousands of RBPs in 21 representative angiosperm species, we integrate genomic, transcriptomic, regulatomic, and paleotemperature datasets to unravel their evolutionary trajectories and roles in adapting to challenging environments. We reveal functional enrichments of RBP genes in stress responses and identify their convergent retention across diverse angiosperms from independent WGDs, coinciding with global cooling periods. Numerous RBP duplicates derived from WGDs are then identified as cold-induced. A significant overlap of 29 orthogroups between WGD-derived and cold-induced RBP genes across diverse angiosperms highlights a correlation between WGD and cold stress. Notably, we unveil an orthogroup (Glycine-rich RNA-binding Proteins 7/8, GRP7/8) and relevant TF duplicates (CCA1/LHY, RVE4/8, CBF2/4, etc.), co-retained in different angiosperms post-WGDs. Finally, we illustrate their roles in rewiring circadian and cold-regulatory networks at both transcriptional and posttranscriptional levels during global cooling. Altogether, we underline the adaptive evolution of RBPs in angiosperms after WGDs during global cooling, improving our understanding of plants surviving periods of environmental turmoil.
Collapse
Affiliation(s)
- Liangyu Guo
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| | - Shuo Wang
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| | - Xi Jiao
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| | - Xiaoxue Ye
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, China
| | - Deyin Deng
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| | - Hua Liu
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| | - Yan Li
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| | - Yves Van de Peer
- Department of Plant Biotechnology and Bioinformatics, VIB - UGent Center for Plant Systems Biology, Ghent University, B-9052, Ghent, Belgium
- College of Horticulture, Academy for Advanced Interdisciplinary Studies, Nanjing Agricultural University, Nanjing, 210095, China
- Department of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, 0028, South Africa
| | - Wenwu Wu
- State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang A&F University, Lin'an, Hangzhou, 311300, China
| |
Collapse
|
34
|
Fu J, Zhao Y, Zhou Y, Wang Y, Fei Z, Wang W, Wu J, Zhang F, Zhao Y, Li J, Hao J, Niu Y. MrERF039 transcription factor plays an active role in the cold response of Medicago ruthenica as a sugar molecular switch. PLANT, CELL & ENVIRONMENT 2024; 47:1834-1851. [PMID: 38318779 DOI: 10.1111/pce.14845] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Revised: 01/21/2024] [Accepted: 01/23/2024] [Indexed: 02/07/2024]
Abstract
Cold stress severely restricts plant development, causing significant agricultural losses. We found a critical transcription factor network in Medicago ruthenica was involved in plant adaptation to low-temperature. APETALA2/ethylene responsive factor (AP2/ERF) transcription factor MrERF039 was transcriptionally induced by cold stress in M. ruthenica. Overexpression of MrERF039 significantly increased the glucose and maltose content, thereby improving the tolerance of M. ruthenica. MrERF039 could bind to the DRE cis-acting element in the MrCAS15A promoter. Additionally, the methyl group of the 14th amino acid in MrERF039 was required for binding. Transcriptome analysis showed that MrERF039 acted as a sugar molecular switch, regulating numerous sugar transporters and sugar metabolism-related genes. In addition, we found that MrERF039 could directly regulate β-amylase gene, UDP glycosyltransferase gene, and C2H2 zinc finger protein gene expression. In conclusion, these findings suggest that high expression of MrERF039 can significantly improve the cold tolerance of M. ruthenica root tissues during cold acclimation. Our results provide a new theoretical basis and candidate genes for breeding new legume forage varieties with high resistance.
Collapse
Affiliation(s)
- Jiabin Fu
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Yanyun Zhao
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Yan Zhou
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Yu Wang
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Zhimin Fei
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Waner Wang
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Jiaming Wu
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Feng Zhang
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Yan Zhao
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Jiayu Li
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Jinfeng Hao
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
| | - Yiding Niu
- Key Laboratory of Forage and Endemic Crop Biology, Ministry of Education, College of Life Sciences, Inner Mongolia University, Hohhot, China
- Inner Mongolia Academy of Science and Technology, Hohhot, China
| |
Collapse
|
35
|
Ma X, Gong C, An R, Li Y, Cheng N, Chen S, Liu H, Wang S. Characterisation of the MLP genes in peach postharvest cold storage and the regulatory role of PpMLP10 in the chilling stress response. Int J Biol Macromol 2024; 266:131293. [PMID: 38565368 DOI: 10.1016/j.ijbiomac.2024.131293] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Revised: 03/29/2024] [Accepted: 03/30/2024] [Indexed: 04/04/2024]
Abstract
The major latex proteins/ripening-related proteins are a subfamily of the Bet v 1 protein superfamily and are commonly involved in plant development and responses to various stresses. However, the functions of MLPs in the postharvest cold storage of fruits remain uninvestigated. Herein, we identified 30 MLP genes in the peach (Prunus persica) genome that were clustered into three subgroups. Chromosomal location analysis revealed that the PpMLP genes were unevenly distributed on five of the eight peach chromosomes. Synteny analysis of the MLP genes between peach and seven other plant species (five dicotyledons and two monocotyledons) explored their evolutionary characteristics. Furthermore, the PpMLP promoters contained cis-elements for multiple hormones and stress responses. Gene expression analysis revealed that PpMLPs participated in chilling stress responses. Ectopic expression of PpMLP10 in Arabidopsis improved chilling stress tolerance by decreasing membrane damage and maintaining membrane stability. Additional research confirmed that PpWRKY2 participates in PpMLP10-mediated chilling stress by binding to its promoter. Collectively, these results suggest the role of PpMLP10 in enhancing chilling stress tolerance, which is significant for decreasing chilling injury during the postharvest cold storage of peaches.
Collapse
Affiliation(s)
- Xiaocen Ma
- College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China
| | - Chen Gong
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China
| | - Ruimin An
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China
| | - Yang Li
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China
| | - Nini Cheng
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China
| | - Siyu Chen
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China
| | - Heng Liu
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China.
| | - Shucai Wang
- Laboratory of Plant Molecular Genetics and Crop Gene Editing, School of Life Sciences, Linyi University, Linyi 276000, China.
| |
Collapse
|
36
|
Li J, Song Y. Plant thermosensors. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2024; 342:112025. [PMID: 38354752 DOI: 10.1016/j.plantsci.2024.112025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2023] [Revised: 01/02/2024] [Accepted: 02/06/2024] [Indexed: 02/16/2024]
Abstract
Plants dynamically regulate their genes expression and physiological outputs to adapt to changing temperatures. The underlying molecular mechanisms have been extensively studied in diverse plants and in multiple dimensions. However, the question of exactly how temperature is detected at molecular level to transform the physical information into recognizable intracellular signals remains continues to be one of the undetermined occurrences in plant science. Recent studies have provided the physical and biochemical mechanistic breakthrough of how temperature changes can influence molecular thermodynamically stability, thus changing molecular structures, activities, interaction and signaling transduction. In this review, we focus on the thermosensing mechanisms of recognized and potential plant thermosensors, to describe the multi-level thermal input system in plants. We also consider the attributes of a thermosensor on the basis of thermal-triggered changes in function, structure, and physical parameters. This study thus provides a reference for discovering more plant thermosensors and elucidating plant thermal adaptive mechanisms.
Collapse
Affiliation(s)
- Jihong Li
- Key Laboratory of Cell Activities and Stress Adaptations, Ministry of Education, School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Yuan Song
- Key Laboratory of Cell Activities and Stress Adaptations, Ministry of Education, School of Life Sciences, Lanzhou University, Lanzhou, China; Gansu Province Key Laboratory of Gene Editing for Breeding, Lanzhou, China.
| |
Collapse
|
37
|
Kim JS, Kidokoro S, Yamaguchi-Shinozaki K, Shinozaki K. Regulatory networks in plant responses to drought and cold stress. PLANT PHYSIOLOGY 2024; 195:170-189. [PMID: 38514098 PMCID: PMC11060690 DOI: 10.1093/plphys/kiae105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Accepted: 02/15/2024] [Indexed: 03/23/2024]
Abstract
Drought and cold represent distinct types of abiotic stress, each initiating unique primary signaling pathways in response to dehydration and temperature changes, respectively. However, a convergence at the gene regulatory level is observed where a common set of stress-responsive genes is activated to mitigate the impacts of both stresses. In this review, we explore these intricate regulatory networks, illustrating how plants coordinate distinct stress signals into a collective transcriptional strategy. We delve into the molecular mechanisms of stress perception, stress signaling, and the activation of gene regulatory pathways, with a focus on insights gained from model species. By elucidating both the shared and distinct aspects of plant responses to drought and cold, we provide insight into the adaptive strategies of plants, paving the way for the engineering of stress-resilient crop varieties that can withstand a changing climate.
Collapse
Affiliation(s)
- June-Sik Kim
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, 230-0045Japan
- Institute of Plant Science and Resources, Okayama University, 2-20-1 Chuo, Kurashiki, 710-0046Japan
| | - Satoshi Kidokoro
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, 226-8502Japan
| | - Kazuko Yamaguchi-Shinozaki
- Research Institute for Agriculture and Life Sciences, Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, Tokyo, 156-8502Japan
- Graduate School of Agriculture and Life Science, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-0032Japan
| | - Kazuo Shinozaki
- RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, 230-0045Japan
- Institute for Advanced Research, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 464-8601Japan
| |
Collapse
|
38
|
Zhang Y, Wang Z, Zhang F, Wang X, Li Y, Long R, Li M, Li X, Wang Q, Yang Q, Kang J. Overexpression of MsDREB1C Modulates Growth and Improves Forage Quality in Tetraploid Alfalfa ( Medicago sativa L.). PLANTS (BASEL, SWITZERLAND) 2024; 13:1237. [PMID: 38732451 PMCID: PMC11085332 DOI: 10.3390/plants13091237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2024] [Revised: 04/18/2024] [Accepted: 04/26/2024] [Indexed: 05/13/2024]
Abstract
DREB has been reported to be involved in plant growth and response to environmental factors. However, the function of DREB in growth and development has not been elucidated in alfalfa (Medicago sativa L.), a perennial tetraploid forage cultivated worldwide. In this study, an ortholog of MtDREB1C was characterized from alfalfa and named MsDREB1C accordingly. MsDREB1C was significantly induced by abiotic stress. The transcription factor MsDREB1C resided in the nucleus and had self-transactivation activity. The MsDREB1C overexpression (OE) alfalfa displayed growth retardation under both long-day and short-day conditions, which was supported by decreased MsGA20ox and upregulated MsGA2ox in the OE lines. Consistently, a decrease in active gibberellin (GA) was detected, suggesting a negative effect of MsDREB1C on GA accumulation in alfalfa. Interestingly, the forage quality of the OE lines was better than that of WT lines, with higher crude protein and lower lignin content, which was supported by an increase in the leaf-stem ratio (LSR) and repression of several lignin-synthesis genes (MsNST, MsPAL1, MsC4H, and Ms4CL). Therefore, this study revealed the effects of MsDREB1C overexpression on growth and forage quality via modifying GA accumulation and lignin synthesis, respectively. Our findings provide a valuable candidate for improving the critical agronomic traits of alfalfa, such as overwintering and feeding value of the forage.
Collapse
Affiliation(s)
- Yangyang Zhang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
- College of Grassland Agriculture, Northwest A&F University, Yangling 712100, China
| | - Zhen Wang
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE 68583, USA;
| | - Fan Zhang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Xue Wang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Yajing Li
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Ruicai Long
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Mingna Li
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Xianyang Li
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Quanzhen Wang
- College of Grassland Agriculture, Northwest A&F University, Yangling 712100, China
| | - Qingchuan Yang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| | - Junmei Kang
- Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China; (Y.Z.); (F.Z.); (X.W.); (Y.L.); (R.L.); (M.L.); (X.L.)
| |
Collapse
|
39
|
Che L, Lu S, Gou H, Li M, Guo L, Yang J, Mao J. VvJAZ13 Positively Regulates Cold Tolerance in Arabidopsis and Grape. Int J Mol Sci 2024; 25:4458. [PMID: 38674041 PMCID: PMC11049880 DOI: 10.3390/ijms25084458] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2024] [Revised: 04/14/2024] [Accepted: 04/17/2024] [Indexed: 04/28/2024] Open
Abstract
Cold stress adversely impacts grape growth, development, and yield. Therefore, improving the cold tolerance of grape is an urgent task of grape breeding. The Jasmonic acid (JA) pathway responsive gene JAZ plays a key role in plant response to cold stress. However, the role of JAZ in response to low temperatures in grape is unclear. In this study, VvJAZ13 was cloned from the 'Pinot Noir' (Vitis vinefera cv. 'Pinot Noir') grape, and the potential interacting protein of VvJAZ13 was screened by yeast two-hybrid (Y2H). The function of VvJAZ13 under low temperature stress was verified by genetic transformation. Subcellular localization showed that the gene was mainly expressed in cytoplasm and the nucleus. Y2H indicated that VvF-box, VvTIFY5A, VvTIFY9, Vvbch1, and VvAGD13 may be potential interacting proteins of VvJAZ13. The results of transient transformation of grape leaves showed that VvJAZ13 improved photosynthetic capacity and reduced cell damage by increasing maximum photosynthetic efficiency of photosystem II (Fv/Fm), reducing relative electrolyte leakage (REL) and malondialdehyde (MDA), and increasing proline content in overexpressed lines (OEs), which played an active role in cold resistance. Through the overexpression of VvJAZ13 in Arabidopsis thaliana and grape calli, the results showed that compared with wild type (WT), transgenic lines had higher antioxidant enzyme activity and proline content, lower REL, MDA, and hydrogen peroxide (H2O2) content, and an improved ability of scavenging reactive oxygen species. In addition, the expression levels of CBF1-2 and ICE1 genes related to cold response were up-regulated in transgenic lines. To sum up, VvJAZ13 is actively involved in the cold tolerance of Arabidopsis and grape, and has the potential to be a candidate gene for improving plant cold tolerance.
Collapse
Affiliation(s)
- Lili Che
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Shixiong Lu
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Huimin Gou
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Min Li
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Lili Guo
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Juanbo Yang
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Juan Mao
- College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| |
Collapse
|
40
|
Zhang Y, Dong Q, Wang Z, Liu Q, Yu H, Sun W, Cheema J, You Q, Ding L, Cao X, He C, Ding Y, Zhang H. A fine-scale Arabidopsis chromatin landscape reveals chromatin conformation-associated transcriptional dynamics. Nat Commun 2024; 15:3253. [PMID: 38627396 PMCID: PMC11021422 DOI: 10.1038/s41467-024-47678-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2023] [Accepted: 04/08/2024] [Indexed: 04/19/2024] Open
Abstract
Plants, as sessile organisms, deploy transcriptional dynamics for adapting to extreme growth conditions such as cold stress. Emerging evidence suggests that chromatin architecture contributes to transcriptional regulation. However, the relationship between chromatin architectural dynamics and transcriptional reprogramming in response to cold stress remains unclear. Here, we apply a chemical-crosslinking assisted proximity capture (CAP-C) method to elucidate the fine-scale chromatin landscape, revealing chromatin interactions within gene bodies closely associated with RNA polymerase II (Pol II) densities across initiation, pausing, and termination sites. We observe dynamic changes in chromatin interactions alongside Pol II activity alterations during cold stress, suggesting local chromatin dynamics may regulate Pol II activity. Notably, cold stress does not affect large-scale chromatin conformations. We further identify a comprehensive promoter-promoter interaction (PPI) network across the genome, potentially facilitating co-regulation of gene expression in response to cold stress. Our study deepens the understanding of chromatin conformation-associated gene regulation in plant response to cold.
Collapse
Affiliation(s)
- Yueying Zhang
- Key Laboratory of Molecular Epigenetics of Ministry of Education, Northeast Normal University, Changchun, 130024, China
- Department of Cell and Developmental Biology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Qianli Dong
- Key Laboratory of Molecular Epigenetics of Ministry of Education, Northeast Normal University, Changchun, 130024, China
| | - Zhen Wang
- Department of Cell and Developmental Biology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
- Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Qinzhe Liu
- Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, 60637, USA
- Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, 60637, USA
| | - Haopeng Yu
- Department of Cell and Developmental Biology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Wenqing Sun
- Key Laboratory of Molecular Epigenetics of Ministry of Education, Northeast Normal University, Changchun, 130024, China
| | - Jitender Cheema
- Department of Cell and Developmental Biology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Qiancheng You
- Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, 60637, USA
- Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, 60637, USA
| | - Ling Ding
- Key Laboratory of Molecular Epigenetics of Ministry of Education, Northeast Normal University, Changchun, 130024, China
| | - Xiaofeng Cao
- Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 100101, Beijing, China
| | - Chuan He
- Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, 60637, USA
- Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, 60637, USA
| | - Yiliang Ding
- Department of Cell and Developmental Biology, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK.
| | - Huakun Zhang
- Key Laboratory of Molecular Epigenetics of Ministry of Education, Northeast Normal University, Changchun, 130024, China.
| |
Collapse
|
41
|
Li R, Song Y, Wang X, Zheng C, Liu B, Zhang H, Ke J, Wu X, Wu L, Yang R, Jiang M. OsNAC5 orchestrates OsABI5 to fine-tune cold tolerance in rice. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2024; 66:660-682. [PMID: 37968901 DOI: 10.1111/jipb.13585] [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: 08/31/2023] [Accepted: 11/14/2023] [Indexed: 11/17/2023]
Abstract
Due to its tropical origins, rice (Oryza sativa) is susceptible to cold stress, which poses severe threats to production. OsNAC5, a NAC-type transcription factor, participates in the cold stress response of rice, but the detailed mechanisms remain poorly understood. Here, we demonstrate that OsNAC5 positively regulates cold tolerance at germination and in seedlings by directly activating the expression of ABSCISIC ACID INSENSITIVE 5 (OsABI5). Haplotype analysis indicated that single nucleotide polymorphisms in a NAC-binding site in the OsABI5 promoter are strongly associated with cold tolerance. OsNAC5 also enhanced OsABI5 stability, thus regulating the expression of cold-responsive (COR) genes, enabling fine-tuned control of OsABI5 action for rapid, precise plant responses to cold stress. DNA affinity purification sequencing coupled with transcriptome deep sequencing identified several OsABI5 target genes involved in COR expression, including DEHYDRATION-RESPONSIVE ELEMENT BINDING FACTOR 1A (OsDREB1A), OsMYB20, and PEROXIDASE 70 (OsPRX70). In vivo and in vitro analyses suggested that OsABI5 positively regulates COR gene transcription, with marked COR upregulation in OsNAC5-overexpressing lines and downregulation in osnac5 and/or osabi5 knockout mutants. This study extends our understanding of cold tolerance regulation via OsNAC5 through the OsABI5-CORs transcription module, which may be used to ameliorate cold tolerance in rice via advanced breeding.
Collapse
Affiliation(s)
- Ruiqing Li
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
| | - Yue Song
- Hainan Institute, Yazhou Bay Sci-Tech City, Zhejiang University, Sanya, 572025, China
- National Key Laboratory of Rice Biology, Advanced Seed Institute, Zhejiang University, Hangzhou, 311225, China
| | - Xueqiang Wang
- Hainan Institute, Yazhou Bay Sci-Tech City, Zhejiang University, Sanya, 572025, China
- National Key Laboratory of Rice Biology, Advanced Seed Institute, Zhejiang University, Hangzhou, 311225, China
| | - Chenfan Zheng
- Hainan Institute, Yazhou Bay Sci-Tech City, Zhejiang University, Sanya, 572025, China
- National Key Laboratory of Rice Biology, Advanced Seed Institute, Zhejiang University, Hangzhou, 311225, China
| | - Bo Liu
- Hainan Institute, Yazhou Bay Sci-Tech City, Zhejiang University, Sanya, 572025, China
- National Key Laboratory of Rice Biology, Advanced Seed Institute, Zhejiang University, Hangzhou, 311225, China
| | - Huali Zhang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou, 311401, China
| | - Jian Ke
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
| | - Xuejing Wu
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
| | - Liquan Wu
- College of Agronomy, Anhui Agricultural University, Hefei, 230036, China
| | - Ruifang Yang
- Key Laboratory of Germplasm Innovation and Genetic Improvement of Grain and Oil Crops (Co-Construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Crop Breeding and Cultivation Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, 201106, China
| | - Meng Jiang
- Hainan Institute, Yazhou Bay Sci-Tech City, Zhejiang University, Sanya, 572025, China
- National Key Laboratory of Rice Biology, Advanced Seed Institute, Zhejiang University, Hangzhou, 311225, China
| |
Collapse
|
42
|
Cai P, Lan Y, Gong F, Li C, Xia F, Li Y, Fang C. Identification and Molecular Characterization of the CAMTA Gene Family in Solanaceae with a Focus on the Expression Analysis of Eggplant Genes under Cold Stress. Int J Mol Sci 2024; 25:2064. [PMID: 38396743 PMCID: PMC10888690 DOI: 10.3390/ijms25042064] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Revised: 02/03/2024] [Accepted: 02/06/2024] [Indexed: 02/25/2024] Open
Abstract
Calmodulin-binding transcription activator (CAMTA) is an important calmodulin-binding protein with a conserved structure in eukaryotes which is widely involved in plant stress response, growth and development, hormone signal transduction, and other biological processes. Although CAMTA genes have been identified and characterized in many plant species, a systematic and comprehensive analysis of CAMTA genes in the Solanaceae genome is performed for the first time in this study. A total of 28 CAMTA genes were identified using bioinformatics tools, and the biochemical/physicochemical properties of these proteins were investigated. CAMTA genes were categorized into three major groups according to phylogenetic analysis. Tissue-expression profiles indicated divergent spatiotemporal expression patterns of SmCAMTAs. Furthermore, transcriptome analysis of SmCAMTA genes showed that exposure to cold induced differential expression of many eggplant CAMTA genes. Yeast two-hybrid and bimolecular fluorescent complementary assays suggested an interaction between SmCAMTA2 and SmERF1, promoting the transcription of the cold key factor SmCBF2, which may be an important mechanism for plant cold resistance. In summary, our results provide essential information for further functional research on Solanaceae family genes, and possibly other plant families, in the determination of the development of plants.
Collapse
Affiliation(s)
- Peng Cai
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| | - Yanhong Lan
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| | - Fangyi Gong
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| | - Chun Li
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| | - Feng Xia
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| | - Yifan Li
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| | - Chao Fang
- Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu 610066, China
- Vegetable Germplasm Innovation and Variety Improvement Key Laboratory of Sichuan Province, Chengdu 610066, China
| |
Collapse
|
43
|
Ameen M, Zafar A, Mahmood A, Zia MA, Kamran K, Javaid MM, Yasin M, Khan BA. Melatonin as a master regulatory hormone for genetic responses to biotic and abiotic stresses in model plant Arabidopsis thaliana: a comprehensive review. FUNCTIONAL PLANT BIOLOGY : FPB 2024; 51:FP23248. [PMID: 38310885 DOI: 10.1071/fp23248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Accepted: 01/09/2024] [Indexed: 02/06/2024]
Abstract
Melatonin is a naturally occurring biologically active amine produced by plants, animals and microbes. This review explores the biosynthesis of melatonin in plants, with a particular focus on its diverse roles in Arabidopsis thaliana , a model species. Melatonin affects abiotic and biotic stress resistance in A. thaliana . Exogenous and endogenous melatonin is addressed in association with various conditions, including cold stress, high light stress, intense heat and infection with Botrytis cinerea or Pseudomonas , as well as in seed germination and lateral root formation. Furthermore, melatonin confers stress resistance in Arabidopsis by initiating the antioxidant system, remedying photosynthesis suppression, regulating transcription factors involved with stress resistance (CBF, DREB, ZAT, CAMTA, WRKY33, MYC2, TGA) and other stress-related hormones (abscisic acid, auxin, ethylene, jasmonic acid and salicylic acid). This article additionally addresses other precursors, metabolic components, expression of genes (COR , CBF , SNAT , ASMT , PIN , PR1 , PDF1.2 and HSFA ) and proteins (JAZ, NPR1) associated with melatonin and reducing both biological and environmental stressors. Furthermore, the future perspective of melatonin rich agri-crops is explored to enhance plant tolerance to abiotic and biotic stresses, maximise crop productivity and enhance nutritional worth, which may help improve food security.
Collapse
Affiliation(s)
- Muaz Ameen
- Department of Botany, University of Agriculture Faisalabad, Faisalabad, 38000, Pakistan
| | - Asma Zafar
- Department of Botany, University of Agriculture Faisalabad, Faisalabad, 38000, Pakistan
| | - Athar Mahmood
- Department of Agronomy, University of Agriculture Faisalabad, Faisalabad, 38000, Pakistan
| | - Muhammad Anjum Zia
- Department of Biochemistry, University of Agriculture Faisalabad, Faisalabad, 38000, Pakistan
| | - Kashif Kamran
- Department of Physics, University of Agriculture Faisalabad, Faisalabad, 38000, Pakistan
| | - Muhammad Mansoor Javaid
- Department of Agronomy, College of Agriculture, University of Sargodha, Sargodha 40100, Pakistan
| | - Muhammad Yasin
- Department of Agronomy, College of Agriculture, University of Sargodha, Sargodha 40100, Pakistan
| | - Bilal Ahmad Khan
- Department of Agronomy, College of Agriculture, University of Sargodha, Sargodha 40100, Pakistan
| |
Collapse
|
44
|
Bawa G, Liu Z, Yu X, Tran LSP, Sun X. Introducing single cell stereo-sequencing technology to transform the plant transcriptome landscape. TRENDS IN PLANT SCIENCE 2024; 29:249-265. [PMID: 37914553 DOI: 10.1016/j.tplants.2023.10.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2022] [Revised: 10/01/2023] [Accepted: 10/02/2023] [Indexed: 11/03/2023]
Abstract
Single cell RNA-sequencing (scRNA-seq) advancements have helped detect transcriptional heterogeneities in biological samples. However, scRNA-seq cannot currently provide high-resolution spatial transcriptome information or identify subcellular organs in biological samples. These limitations have led to the development of spatially enhanced-resolution omics-sequencing (Stereo-seq), which combines spatial information with single cell transcriptomics to address the challenges of scRNA-seq alone. In this review, we discuss the advantages of Stereo-seq technology. We anticipate that the application of such an integrated approach in plant research will advance our understanding of biological process in the plant transcriptomics era. We conclude with an outlook of how such integration will enhance crop improvement.
Collapse
Affiliation(s)
- George Bawa
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, 85 Minglun Street, Kaifeng 475001, PR China
| | - Zhixin Liu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, 85 Minglun Street, Kaifeng 475001, PR China
| | - Xiaole Yu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, 85 Minglun Street, Kaifeng 475001, PR China
| | - Lam-Son Phan Tran
- Institute of Genomics for Crop Abiotic Stress Tolerance, Department of Plant and Soil Science, Texas Tech University, Lubbock, TX 79409, USA.
| | - Xuwu Sun
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, 85 Minglun Street, Kaifeng 475001, PR China.
| |
Collapse
|
45
|
Wang L, Chen H, Chen G, Luo G, Shen X, Ouyang B, Bie Z. Transcription factor SlWRKY50 enhances cold tolerance in tomato by activating the jasmonic acid signaling. PLANT PHYSIOLOGY 2024; 194:1075-1090. [PMID: 37935624 DOI: 10.1093/plphys/kiad578] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2023] [Revised: 09/26/2023] [Accepted: 10/02/2023] [Indexed: 11/09/2023]
Abstract
Tomato (Solanum lycopersicum) is a cold-sensitive crop but frequently experiences low-temperature stimuli. However, tomato responses to cold stress are still poorly understood. Our previous studies have shown that using wild tomato (Solanum habrochaites) as rootstock can significantly enhance the cold resistance of grafted seedlings, in which a high concentration of jasmonic acids (JAs) in scions exerts an important role, but the mechanism of JA accumulation remains unclear. Herein, we discovered that tomato SlWRKY50, a Group II WRKY transcription factor that is cold inducible, responds to cold stimuli and plays a key role in JA biosynthesis. SlWRKY50 directly bound to the promoter of tomato allene oxide synthase gene (SlAOS), and overexpressing SlWRKY50 improved tomato chilling resistance, which led to higher levels of Fv/Fm, antioxidative enzymes, SlAOS expression, and JA accumulation. SlWRKY50-silenced plants, however, exhibited an opposite trend. Moreover, diethyldithiocarbamate acid (a JA biosynthesis inhibitor) foliar treatment drastically reduced the cold tolerance of SlWRKY50-overexpression plants to wild-type levels. Importantly, SlMYC2, the key regulator of the JA signaling pathway, can control SlWRKY50 expression. Overall, our research indicates that SlWRKY50 promotes cold tolerance by controlling JA biosynthesis and that JA signaling mediates SlWRKY50 expression via transcriptional activation by SlMYC2. Thus, this contributes to the genetic knowledge necessary for developing cold-resistant tomato varieties.
Collapse
Affiliation(s)
- Lihui Wang
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Hui Chen
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Guoyu Chen
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Guangbao Luo
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Xinyan Shen
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Bo Ouyang
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| | - Zhilong Bie
- National Key Laboratory for Germplasm Innovation and Utilization of Horticultural Crops, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, P.R. China
| |
Collapse
|
46
|
Zhong C, He Z, Liu Y, Li Z, Wang X, Jiang C, Kang S, Liu X, Zhao S, Wang J, Zhang H, Zhao X, Yu H. Genome-wide identification of TPS and TPP genes in cultivated peanut ( Arachis hypogaea) and functional characterization of AhTPS9 in response to cold stress. FRONTIERS IN PLANT SCIENCE 2024; 14:1343402. [PMID: 38312353 PMCID: PMC10834750 DOI: 10.3389/fpls.2023.1343402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Accepted: 12/29/2023] [Indexed: 02/06/2024]
Abstract
Introduction Trehalose is vital for plant metabolism, growth, and stress resilience, relying on Trehalose-6-phosphate synthase (TPS) and Trehalose-6-phosphate phosphatase (TPP) genes. Research on these genes in cultivated peanuts (Arachis hypogaea) is limited. Methods This study employed bioinformatics to identify and analyze AhTPS and AhTPP genes in cultivated peanuts, with subsequent experimental validation of AhTPS9's role in cold tolerance. Results In the cultivated peanut genome, a total of 16 AhTPS and 17 AhTPP genes were identified. AhTPS and AhTPP genes were observed in phylogenetic analysis, closely related to wild diploid peanuts, respectively. The evolutionary patterns of AhTPS and AhTPP genes were predominantly characterized by gene segmental duplication events and robust purifying selection. A variety of hormone-responsive and stress-related cis-elements were unveiled in our analysis of cis-regulatory elements. Distinct expression patterns of AhTPS and AhTPP genes across different peanut tissues, developmental stages, and treatments were revealed, suggesting potential roles in growth, development, and stress responses. Under low-temperature stress, qPCR results showcased upregulation in AhTPS genes (AhTPS2-5, AhTPS9-12, AhTPS14, AhTPS15) and AhTPP genes (AhTPP1, AhTPP6, AhTPP11, AhTPP13). Furthermore, AhTPS9, exhibiting the most significant expression difference under cold stress, was obviously induced by cold stress in cultivated peanut, and AhTPS9-overexpression improved the cold tolerance of Arabidopsis by protect the photosynthetic system of plants, and regulates sugar-related metabolites and genes. Discussion This comprehensive study lays the groundwork for understanding the roles of AhTPS and AhTPP gene families in trehalose regulation within cultivated peanuts and provides valuable insights into the mechanisms related to cold stress tolerance.
Collapse
Affiliation(s)
- Chao Zhong
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Zehua He
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Yu Liu
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Zhao Li
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Xiaoguang Wang
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Chunji Jiang
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Shuli Kang
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Xibo Liu
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Shuli Zhao
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Jing Wang
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - He Zhang
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Xinhua Zhao
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
| | - Haiqiu Yu
- College of Agronomy, Shenyang Agricultural University, Shenyang, China
- Liaoning Agricultural Vocational and Technical College, Yingkou, China
| |
Collapse
|
47
|
Jang J, Lee S, Kim JI, Lee S, Kim JA. The Roles of Circadian Clock Genes in Plant Temperature Stress Responses. Int J Mol Sci 2024; 25:918. [PMID: 38255990 PMCID: PMC10815334 DOI: 10.3390/ijms25020918] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2023] [Revised: 12/17/2023] [Accepted: 01/04/2024] [Indexed: 01/24/2024] Open
Abstract
Plants monitor day length and memorize changes in temperature signals throughout the day, creating circadian rhythms that support the timely control of physiological and metabolic processes. The DEHYDRATION-RESPONSE ELEMENT-BINDING PROTEIN 1/C-REPEAT BINDING FACTOR (DREB1/CBF) transcription factors are known as master regulators for the acquisition of cold stress tolerance, whereas PHYTOCHROME INTERACTING FACTOR 4 (PIF4) is involved in plant adaptation to heat stress through thermomorphogenesis. Recent studies have shown that circadian clock genes control plant responses to temperature. Temperature-responsive transcriptomes show a diurnal cycle and peak expression levels at specific times of throughout the day. Circadian clock genes play essential roles in allowing plants to maintain homeostasis by accommodating temperature changes within the normal temperature range or by altering protein properties and morphogenesis at the cellular level for plant survival and growth under temperature stress conditions. Recent studies revealed that the central oscillator genes CIRCADIAN CLOCK ASSOCIATED 1/LATE ELONGATED HYPOCOTYL (CCA1/LHY) and PSEUDO-RESPONSE REGULATOR5/7/9 (PRR5/7/9), as well as the EVENING COMPLEX (EC) genes REVEILLE4/REVEILLE8 (REV4/REV8), were involved in the DREB1 pathway of the cold signaling transcription factor and regulated the thermomorphogenesis gene PIF4. Further studies showed that another central oscillator, TIMING OF CAB EXPRESSION 1 (TOC1), and the regulatory protein ZEITLUPE (ZTL) are also involved. These studies led to attempts to utilize circadian clock genes for the acquisition of temperature-stress resistance in crops. In this review, we highlight circadian rhythm regulation and the clock genes involved in plant responses to temperature changes, as well as strategies for plant survival in a rapidly changing global climate.
Collapse
Affiliation(s)
- Juna Jang
- Department of Agricultural Biotechnology, National Academy of Agricultural Science, Rural Development Administration, Jeonju 54874, Republic of Korea; (J.J.); (S.L.); (S.L.)
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju 61186, Republic of Korea;
| | - Sora Lee
- Department of Agricultural Biotechnology, National Academy of Agricultural Science, Rural Development Administration, Jeonju 54874, Republic of Korea; (J.J.); (S.L.); (S.L.)
| | - Jeong-Il Kim
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju 61186, Republic of Korea;
| | - Sichul Lee
- Department of Agricultural Biotechnology, National Academy of Agricultural Science, Rural Development Administration, Jeonju 54874, Republic of Korea; (J.J.); (S.L.); (S.L.)
| | - Jin A. Kim
- Department of Agricultural Biotechnology, National Academy of Agricultural Science, Rural Development Administration, Jeonju 54874, Republic of Korea; (J.J.); (S.L.); (S.L.)
| |
Collapse
|
48
|
Ma Z, Hu L, Jiang W. Understanding AP2/ERF Transcription Factor Responses and Tolerance to Various Abiotic Stresses in Plants: A Comprehensive Review. Int J Mol Sci 2024; 25:893. [PMID: 38255967 PMCID: PMC10815832 DOI: 10.3390/ijms25020893] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2023] [Revised: 01/04/2024] [Accepted: 01/09/2024] [Indexed: 01/24/2024] Open
Abstract
Abiotic stress is an adverse environmental factor that severely affects plant growth and development, and plants have developed complex regulatory mechanisms to adapt to these unfavourable conditions through long-term evolution. In recent years, many transcription factor families of genes have been identified to regulate the ability of plants to respond to abiotic stresses. Among them, the AP2/ERF (APETALA2/ethylene responsive factor) family is a large class of plant-specific proteins that regulate plant response to abiotic stresses and can also play a role in regulating plant growth and development. This paper reviews the structural features and classification of AP2/ERF transcription factors that are involved in transcriptional regulation, reciprocal proteins, downstream genes, and hormone-dependent signalling and hormone-independent signalling pathways in response to abiotic stress. The AP2/ERF transcription factors can synergise with hormone signalling to form cross-regulatory networks in response to and tolerance of abiotic stresses. Many of the AP2/ERF transcription factors activate the expression of abiotic stress-responsive genes that are dependent or independent of abscisic acid and ethylene in response to abscisic acid and ethylene. In addition, the AP2/ERF transcription factors are involved in gibberellin, auxin, brassinosteroid, and cytokinin-mediated abiotic stress responses. The study of AP2/ERF transcription factors and interacting proteins, as well as the identification of their downstream target genes, can provide us with a more comprehensive understanding of the mechanism of plant action in response to abiotic stress, which can improve plants' ability to tolerate abiotic stress and provide a more theoretical basis for increasing plant yield under abiotic stress.
Collapse
Affiliation(s)
- Ziming Ma
- Jilin Provincial Engineering Laboratory of Plant Genetic Improvement, College of Plant Science, Jilin University, Changchun 130062, China;
- Max-Planck-Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany
- Plant Genetics, TUM School of Life Sciences, Technical University of Munich (TUM), Emil Ramann Str. 4, 85354 Freising, Germany
| | - Lanjuan Hu
- Jilin Provincial Engineering Laboratory of Plant Genetic Improvement, College of Plant Science, Jilin University, Changchun 130062, China;
| | - Wenzhu Jiang
- Jilin Provincial Engineering Laboratory of Plant Genetic Improvement, College of Plant Science, Jilin University, Changchun 130062, China;
| |
Collapse
|
49
|
Kumari A, Sharma P, Rani M, Laxmi V, Sahil, Sahi C, Satturu V, Katiyar-Agarwal S, Agarwal M. Meta-QTL and ortho analysis unravels the genetic architecture and key candidate genes for cold tolerance at seedling stage in rice. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2024; 30:93-108. [PMID: 38435852 PMCID: PMC10902255 DOI: 10.1007/s12298-024-01412-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 12/13/2023] [Accepted: 01/10/2024] [Indexed: 03/05/2024]
Abstract
Rice, a critical cereal crop, grapples with productivity challenges due to its inherent sensitivity to low temperatures, primarily during the seedling and booting stages. Recognizing the polygenic complexity of cold stress signaling in rice, a meta-analysis was undertaken, focusing on 20 physiological traits integral to cold tolerance. This initiative allowed the consolidation of genetic data from 242 QTLs into 58 meta-QTLs, thereby significantly constricting the genetic and physical intervals, with 84% of meta-QTLs (MQTLs) being reduced to less than 2 Mb. The list of 10,505 genes within these MQTLs, was further refined utilizing expression datasets to pinpoint 46 pivotal genes exhibiting noteworthy differential regulation during cold stress. The study underscored the presence of several TFs such as WRKY, NAC, CBF/DREB, MYB, and bHLH, known for their roles in cold stress response. Further, ortho-analysis involving maize, barley, and Arabidopsis identified OsWRKY71, among others, as a prospective candidate for enhancing cold tolerance in diverse crop plants. In conclusion, our study delineates the intricate genetic architecture underpinning cold tolerance in rice and propounds significant candidate genes, offering crucial insights for further research and breeding strategies focused on fortifying crops against cold stress, thereby bolstering global food resilience. Supplementary Information The online version contains supplementary material available at 10.1007/s12298-024-01412-1.
Collapse
Affiliation(s)
- Anita Kumari
- Department of Botany, University of Delhi, Delhi, India
| | - Priya Sharma
- Department of Botany, University of Delhi, Delhi, India
| | - Mamta Rani
- Department of Botany, University of Delhi, Delhi, India
| | - Vijay Laxmi
- Department of Botany, University of Delhi, Delhi, India
| | - Sahil
- Department of Botany, University of Delhi, Delhi, India
| | - Chandan Sahi
- Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal, Madhya Pradesh 462066 India
| | - Vanisree Satturu
- Professor Jayashankar, Telangana State Agricultural University, Hyderabad, India
| | | | - Manu Agarwal
- Department of Botany, University of Delhi, Delhi, India
| |
Collapse
|
50
|
Guo M, Li Z, Wang L, Xu T, Huang H, Kanwar MK, Yang P, Zhou J. BAG8 positively regulates cold stress tolerance by modulating photosystem, antioxidant system and protein protection in Solanum lycopersicum. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 206:108267. [PMID: 38091937 DOI: 10.1016/j.plaphy.2023.108267] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 11/22/2023] [Accepted: 12/06/2023] [Indexed: 02/15/2024]
Abstract
The B-cell lymphoma 2 (Bcl-2)-associated athanogene (BAG) family is a relatively conserved and multifunctional co-chaperones in animals and plants, which can flexibly interact with a variety of proteins and regulate various processes from growth and development to stress response. However, compared with animals, the function of BAG family in plant remains largely unknown, especially in response to cold stress. In this study, we have found that the expression of BAG8 was significantly induced in tomato under cold stress. Results showed that bag8 mutants exhibit significantly reduced tolerance towards cold stress, while BAG8 overexpressing lines were relatively resistant as reflected by the phenotype and membrane peroxidation. Measuring of gas exchange parameters, photosystem I (PSI) and photosystem II (PSII) of tomato leaves under cold stress further revealed that BAG8 mitigated cold-induced damage in photosynthetic system. Additionally, bag8 mutants exhibited more cold-induced reactive oxygen species, which were substantially normalized in BAG8 overexpressing plants. Nevertheless, the activities of antioxidant enzymes which were compromised in bag8 mutants were improved in BAG8 overexpressing plants facing cold stress. Additionally, BAG8 interacted with heat shock protein Hsp70 and protein phosphatase PP2A both in vitro and in vivo. Our results demonstrate that BAG8 plays a positive role in cold tolerance in tomato probably by the improvement of photosystems and antioxidant systems, and by interacting with Hsp70 involved in photosynthesis and PP2A involved in stomatal development.
Collapse
Affiliation(s)
- Mingyue Guo
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China
| | - Zhichao Li
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China
| | - Leilei Wang
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China
| | - Tong Xu
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China; Hainan Institute, Zhejiang University, Sanya, China
| | - Huamin Huang
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China
| | - Mukesh Kumar Kanwar
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China; Department of Environmental Sciences, Dr Harisingh Gour Vishwavidyalaya, Sagar, Madhya Pradesh, India
| | - Ping Yang
- Agricultural Experiment Station, Zhejiang University, Hangzhou, 310058, China
| | - Jie Zhou
- Department of Horticulture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Yuhangtang Road 866, Hangzhou, 310058, China; Hainan Institute, Zhejiang University, Sanya, China; Key Laboratory of Horticultural Plants Growth, Development and Quality Improvement, Ministry of Agriculture and Rural Affairs of China, Yuhangtang Road 866, Hangzhou, 310058, China.
| |
Collapse
|