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Li J, Lou S, Gong J, Liang J, Zhang J, Zhou X, Li J, Wang L, Zhai M, Duan L, Lei B. Coronatine-treated seedlings increase the tolerance of cotton to low-temperature stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 213:108832. [PMID: 38896915 DOI: 10.1016/j.plaphy.2024.108832] [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: 02/20/2024] [Revised: 06/04/2024] [Accepted: 06/11/2024] [Indexed: 06/21/2024]
Abstract
Coronatine, an analog of Jasmonic acid (JA), has been shown to enhance crop tolerance to abiotic stresses, including chilling stress. However, the underlying molecular mechanism remains largely unknown. In this study, we investigated the effect of Coronatine on cotton seedlings under low temperature using transcriptomic and metabolomics analysis. Twelve cDNA libraries from cotton seedlings were constructed, and pairwise comparisons revealed a total of 48,322 differentially expressed genes (DEGs). Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis identified the involvement of these unigenes in various metabolic pathways, including Starch and sucrose metabolism, Sesquiterpenoid and triterpenoid biosynthesis, Phenylpropanoid biosynthesis, alpha-Linolenic acid metabolism, ABC transporters, and Plant hormone signal transduction. Additionally, substantial accumulations of jasmonates (JAs), abscisic acid and major cell wall metabolites were observed. Transcriptome analysis revealed differential expression of regulatory genes, and qRT-PCR analysis confirmed the expression patterns of 9 selected genes. Co-expression analysis showed that the JA-responsive genes might form a network module with ABA biosynthesis genes or cell wall biosynthesis genes, suggesting the existence of a COR-JA-cellulose and COR-JA-ABA-cellulose regulatory pathway in cotton seedlings. Collectively, our findings uncover new insights into the molecular basis of coronatine--associated cold tolerance in cotton seedlings.
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Affiliation(s)
- Jin Li
- Research Institute of Nuclear Technology and Biotechnology, Xinjiang Academy of Agricultural Sciences/Key Laboratory of Crop Ecophysiology and Farming System in Desert Oasis Ministry of Agriculture, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; The State Key Laboratory of Genetic Improvement and Germplasm Innovation of Crop Resistance in Arid Desert Regions (Preparation), Xinjiang Key Laboratory of Crop Biotechnology, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China
| | - Shanwei Lou
- Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; State Key Laboratory of Plant Physiology & Biochemistry, Engineering Research Center of PGR, Ministry of Education & College of Agronomy and Biotechnology, and China Agricultural University, Beijing, 100193, China
| | - Jingyun Gong
- Research Institute of Nuclear Technology and Biotechnology, Xinjiang Academy of Agricultural Sciences/Key Laboratory of Crop Ecophysiology and Farming System in Desert Oasis Ministry of Agriculture, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; The State Key Laboratory of Genetic Improvement and Germplasm Innovation of Crop Resistance in Arid Desert Regions (Preparation), Xinjiang Key Laboratory of Crop Biotechnology, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China
| | - Jing Liang
- Research Institute of Nuclear Technology and Biotechnology, Xinjiang Academy of Agricultural Sciences/Key Laboratory of Crop Ecophysiology and Farming System in Desert Oasis Ministry of Agriculture, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; The State Key Laboratory of Genetic Improvement and Germplasm Innovation of Crop Resistance in Arid Desert Regions (Preparation), Xinjiang Key Laboratory of Crop Biotechnology, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China
| | - Jungao Zhang
- Research Institute of Nuclear Technology and Biotechnology, Xinjiang Academy of Agricultural Sciences/Key Laboratory of Crop Ecophysiology and Farming System in Desert Oasis Ministry of Agriculture, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; The State Key Laboratory of Genetic Improvement and Germplasm Innovation of Crop Resistance in Arid Desert Regions (Preparation), Xinjiang Key Laboratory of Crop Biotechnology, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China
| | - Xiaoyun Zhou
- Research Institute of Nuclear Technology and Biotechnology, Xinjiang Academy of Agricultural Sciences/Key Laboratory of Crop Ecophysiology and Farming System in Desert Oasis Ministry of Agriculture, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; The State Key Laboratory of Genetic Improvement and Germplasm Innovation of Crop Resistance in Arid Desert Regions (Preparation), Xinjiang Key Laboratory of Crop Biotechnology, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China
| | - Jie Li
- Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China
| | - Li Wang
- College of Agricultural, Xinjiang Agricultural University, Urumqi, 830091, China
| | - Menghua Zhai
- College of Agricultural, Xinjiang Agricultural University, Urumqi, 830091, China
| | - Liusheng Duan
- State Key Laboratory of Plant Physiology & Biochemistry, Engineering Research Center of PGR, Ministry of Education & College of Agronomy and Biotechnology, and China Agricultural University, Beijing, 100193, China.
| | - Bin Lei
- Research Institute of Nuclear Technology and Biotechnology, Xinjiang Academy of Agricultural Sciences/Key Laboratory of Crop Ecophysiology and Farming System in Desert Oasis Ministry of Agriculture, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; Xinjiang Crop Chemical Regulation Engineering Technology Research Center and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China; The State Key Laboratory of Genetic Improvement and Germplasm Innovation of Crop Resistance in Arid Desert Regions (Preparation), Xinjiang Key Laboratory of Crop Biotechnology, and Xinjiang Uygur Autonomous Region, Urumqi, 830091, China.
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Peng C, Xu H, Xie S, Zhong X, Chen L, He Y, Li Z, Zhou Y, Duan L. Unveiling the Regulatory Role of miRNAs in Internode Elongation: Integrated Analysis of MicroRNA and mRNA Expression Profiles across Diverse Dwarfing Treatments in Maize ( Zea mays L.). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2024; 72:7533-7545. [PMID: 38527761 DOI: 10.1021/acs.jafc.3c09507] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/27/2024]
Abstract
MicroRNAs are crucial regulators of gene expression in maize. However, the mechanisms through which miRNAs control internode elongation remain poorly understood. This study engineered varying levels of internode elongation inhibition, revealing that dwarfing treatments diminished gibberellin levels, curtailed cell longitudinal growth, and slowed the rate of internode elongation. Comprehensive transcriptome and miRNA profiling of the internode elongation zone showed gene expression changes that paralleled the extent of the internode length reduction. We identified 543 genes and 29 miRNAs with significant correlations to internode length, predominantly within families, including miR164 and miR396. By incorporating target gene expression levels, we pinpointed nine miRNA-mRNA pairs that are significantly associated with the regulation of the internode elongation. The inhibitory effects of these miRNAs on their target genes were confirmed through dual-luciferase reporter assays. Overexpression of miR164h in maize resulted in increased internode and cell length, suggesting a novel genetic avenue for manipulating plant stature. These miRNAs may also serve as precise spatiotemporal regulators for in vitro plant development.
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Affiliation(s)
- Chuanxi Peng
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Haidong Xu
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Shipeng Xie
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Xingyu Zhong
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Limei Chen
- Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, Beijing 100193, China
| | - Yan He
- National Maize Improvement Center of China, College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Zhaohu Li
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Yuyi Zhou
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
| | - Liusheng Duan
- State Key Laboratory of Plant Environmental Resilience, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, Beijing 100193, China
- College of Plant Science and Technology, Beijing University of Agriculture, Beijing 102206, China
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Ren Z, Liu Y, Li L, Wang X, Zhou Y, Zhang M, Li Z, Yi F, Duan L. Deciphering transcriptional mechanisms of maize internodal elongation by regulatory network analysis. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:4503-4519. [PMID: 37170764 DOI: 10.1093/jxb/erad178] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Accepted: 05/10/2023] [Indexed: 05/13/2023]
Abstract
The lengths of the basal internodes is an important factor for lodging resistance of maize (Zea mays). In this study, foliar application of coronatine (COR) to 10 cultivars at the V8 growth stage had different suppression effects on the length of the eighth internode, with three being categorized as strong-inhibition cultivars (SC), five as moderate (MC), and two as weak (WC). RNA-sequencing of the eighth internode of the cultivars revealed a total of 7895 internode elongation-regulating genes, including 777 transcription factors (TFs). Genes related to the hormones cytokinin, gibberellin, auxin, and ethylene in the SC group were significantly down-regulated compared to WC, and more cell-cycle regulatory factors and cell wall-related genes showed significant changes, which severely inhibited internode elongation. In addition, we used EMSAs to explore the direct regulatory relationship between two important TFs, ZmABI7 and ZmMYB117, which regulate the cell cycle and cell wall modification by directly binding to the promoters of their target genes ZmCYC1, ZmCYC3, ZmCYC7, and ZmCPP1. The transcriptome reported in this study will provide a useful resource for studying maize internode development, with potential use for targeted genetic control of internode length to improve the lodging resistance of maize.
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Affiliation(s)
- Zhaobin Ren
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Yingru Liu
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
- North China Key Laboratory for Crop Germplasm Resources, Ministry of Education, State Key Laboratory of North China Crop Improvement and Regulation & College of Agronomy, Hebei Agricultural University, Baoding, Hebei 071001, China
| | - Lu Li
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Xing Wang
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Yuyi Zhou
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Mingcai Zhang
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Zhaohu Li
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Fei Yi
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
| | - Liusheng Duan
- State Key Laboratory of Plant Physiology and Biochemistry, Engineering Research Center of Plant Growth Regulator, Ministry of Education & College of Agronomy and Biotechnology, China Agricultural University, No.2 Yuanmingyuan West Road, Haidian, Beijing 100193, China
- College of Plant Science and Technology, Beijing University of Agriculture, Beijing, 102206, China
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Liu L, Liu S, Lu H, Tian Z, Zhao H, Wei D, Wang S, Huang Z. Integration of transcriptome and metabolome analyses reveals key lodging-resistance-related genes and metabolic pathways in maize. Front Genet 2022; 13:1001195. [PMID: 36299597 PMCID: PMC9588961 DOI: 10.3389/fgene.2022.1001195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2022] [Accepted: 09/20/2022] [Indexed: 11/28/2022] Open
Abstract
Stalk lodging, or breakage of the stalk at or below the ear, is one of the vital factors causing substantial yield losses in maize (Zea mays. L). Lodging affects maize plants’ physiological and molecular processes, eventually impacting plant growth and productivity. Despite this known fact, few researchers have investigated the genetic architecture underlying lodging in maize. Herein, through integrated transcriptome, metabolome, and phenotypic analyses of stalks of three diverse hybrid cultivars (highly resistant JNK738, mildly resistant JNK728, and lowly resistant XY335) at the tasseling (10 days to silking, 10 DTS) stage, we identified key genes and metabolic pathways modulating lodging resistance in maize. Based on the RNA-Seq analysis, a total of 10093 differentially expressed genes (DEGs) were identified from the comparison of the three varieties in pairs. Additionally, key lodging resistance–related metabolic pathways were obtained by KEGG enrichment analysis, and the DEGs were found predominantly enriched in phenylpropanoid and secondary metabolites biosynthesis pathways in the L_vs._H and M_vs._H comparison groups. Moreover, K-means analysis clustered the DEGs into clear and distinct expression profiles for each cultivar, with several functional and regulatory genes involved in the cell wall assembly, lignin biosynthetic process and hormone metabolic process being identified in the special clusters related to lodging resistance. Subsequently, integrating metabolome and transcriptome analyses revealed nine key lignin-associated metabolites that showed different expression trends in the three hybrid cultivars, among which L-phenylalanine and p-coumaric acid were regarded as differentially changed metabolites (DCMs). These two DCMs belonged to phenylalanine metabolism and biosynthesis pathways and were also supported by the RNA-Seq data. Furthermore, plant hormone signal transduction pathway–related genes encoding auxin, abscisic acid, jasmonates, and salicylic acid were differentially expressed in the three comparisons of lodging resistance, indicating these DEGs were valuable potential targets for improving maize lodging resistance. Finally, comparative physiological and qRT-PCR analyses results supported our transcriptome-based findings. Our research not only provides a preliminary theoretical basis and experimental ideas for an in-depth study of the regulatory networks involved in maize lodging resistance regulation but also opens up new avenues for molecular maize stalk lodging resistance breeding.
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Affiliation(s)
- Lei Liu
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
| | - Songtao Liu
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
| | - Haibo Lu
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
| | - Zaimin Tian
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
| | - Haichao Zhao
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
| | - Dong Wei
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
| | - Shuo Wang
- School of Medicine, Nankai University, Tianjin, China
| | - Zhihong Huang
- Hebei Key Laboratory of Quality and Safety Analysis-Testing for Agro-Products and Food, Hebei North University, Zhangjiakou, China
- *Correspondence: Zhihong Huang,
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Genome-Wide Identification of Gramineae Brassinosteroid-Related Genes and Their Roles in Plant Architecture and Salt Stress Adaptation. Int J Mol Sci 2022; 23:ijms23105551. [PMID: 35628372 PMCID: PMC9146025 DOI: 10.3390/ijms23105551] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2022] [Revised: 05/11/2022] [Accepted: 05/14/2022] [Indexed: 12/03/2022] Open
Abstract
Brassinosteroid-related genes are involved in regulating plant growth and stress responses. However, systematic analysis is limited to Gramineae species, and their roles in plant architecture and salt stress remain unclear. In this study, we identified brassinosteroid-related genes in wheat, barley, maize, and sorghum and investigated their evolutionary relationships, conserved domains, transmembrane topologies, promoter sequences, syntenic relationships, and gene/protein structures. Gene and genome duplications led to considerable differences in gene numbers. Specific domains were revealed in several genes (i.e., HvSPY, HvSMOS1, and ZmLIC), indicating diverse functions. Protein-protein interactions suggested their synergistic functions. Their expression profiles were investigated in wheat and maize, which indicated involvement in adaptation to stress and regulation of plant architecture. Several candidate genes for plant architecture (ZmBZR1 and TaGSK1/2/3/4-3D) and salinity resistance (TaMADS22/47/55-4B, TaGRAS19-4B, and TaBRD1-2A.1) were identified. This study is the first to comprehensively investigate brassinosteroid-related plant architecture genes in four Gramineae species and should help elucidate the biological roles of brassinosteroid-related genes in crops.
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