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Tuo D, Wu J, Zou J, Dong G, Zeng W, Li J, Du D. Analysis of Hormone Regulation on Seed Germination of Coix Based on Muli-Omics Analysis. PLANTS (BASEL, SWITZERLAND) 2023; 12:2700. [PMID: 37514314 PMCID: PMC10385750 DOI: 10.3390/plants12142700] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Revised: 07/01/2023] [Accepted: 07/09/2023] [Indexed: 07/30/2023]
Abstract
Seed germination is an important stage of growth and reproduction and plays an important role in the life cycle of spermatophyte. It is co-determined by both genetic and environmental factors, and plant hormone regulation may be a highly conservative mechanism. Coix lachryrma-jobi (coix) is a grain with balanced nutrition for medicine and food and has substantial production value. It is an important part of agricultural production, and the efficiency of seed germination after sowing is a key link. In this study, coix species "small white shell Xingren" was used as the experimental material, and changes in gene expression levels and metabolite enrichment in seeds were identified by transcriptome and metabonomic analysis before and after seed germination. A total of 599 metabolites, including those from amino acid metabolism, sugar metabolism, and fatty acid metabolism, were significantly increased in germinating coix. Simultaneously, 10,929 differentially expressed genes (DEGs) were identified, and functional clusters of genes were also significantly clustered in hormone-signaling and glucose and fatty acid metabolism. In addition, this study found that a considerable number of hormone-signaling genes were significantly up-regulated during seed germination, activating multiple metabolic processes. The results of our conjoint analysis of multi omics showed that glucose and fatty acid metabolism played an important role in seed germination under hormone regulation.
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Affiliation(s)
- Donghao Tuo
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Jiawen Wu
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Juan Zou
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Guoqing Dong
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Wanyong Zeng
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Jinhua Li
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
| | - Dengxiang Du
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China
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2
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Castro-Camba R, Sánchez C, Vidal N, Vielba JM. Plant Development and Crop Yield: The Role of Gibberellins. PLANTS (BASEL, SWITZERLAND) 2022; 11:2650. [PMID: 36235516 PMCID: PMC9571322 DOI: 10.3390/plants11192650] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2022] [Revised: 09/29/2022] [Accepted: 10/03/2022] [Indexed: 06/12/2023]
Abstract
Gibberellins have been classically related to a few key developmental processes, thus being essential for the accurate unfolding of plant genetic programs. After more than a century of research, over one hundred different gibberellins have been described. There is a continuously increasing interest in gibberellins research because of their relevant role in the so-called "Green Revolution", as well as their current and possible applications in crop improvement. The functions attributed to gibberellins have been traditionally restricted to the regulation of plant stature, seed germination, and flowering. Nonetheless, research in the last years has shown that these functions extend to many other relevant processes. In this review, the current knowledge on gibberellins homeostasis and mode of action is briefly outlined, while specific attention is focused on the many different responses in which gibberellins take part. Thus, those genes and proteins identified as being involved in the regulation of gibberellin responses in model and non-model species are highlighted. The present review aims to provide a comprehensive picture of the state-of-the-art perception of gibberellins molecular biology and its effects on plant development. This picture might be helpful to enhance our current understanding of gibberellins biology and provide the know-how for the development of more accurate research and breeding programs.
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Affiliation(s)
| | | | | | - Jesús Mª Vielba
- Misión Biológica de Galicia, Consejo Superior de Investigaciones Científicas, 15780 Santiago de Compostela, Spain
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3
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Jin Y, Wang B, Tian L, Zhao L, Guo S, Zhang H, Xu L, Han Z. Identification of miRNAs and their target genes associated with improved maize seed vigor induced by gibberellin. FRONTIERS IN PLANT SCIENCE 2022; 13:1008872. [PMID: 36176685 PMCID: PMC9514094 DOI: 10.3389/fpls.2022.1008872] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Accepted: 08/18/2022] [Indexed: 06/16/2023]
Abstract
High seed vigor is crucial for agricultural production owing to its potential in high quality and yield of crops and a better understanding of the molecular mechanism associated with maize seed vigor is highly necessary. To better understand the involvement and regulatory mechanism of miRNAs correlated with maize seed vigor, small RNAs and degradome sequencing of two inbred lines Yu537A and Yu82 were performed. A total of 791 mature miRNAs were obtained with different expressions, among of which 505 miRNAs were newly identified and the rest miRNAs have been reported before by comparing the miRNAs with the sequences in miRbase database. Analysis of miRNA families showed maize seeds contain fewer miRNA families and larger miRNA families compared with animals, indicating that functions of miRNAs in maize seeds were more synergistic than animals. Degradome sequencing was used to identify the targets of miRNAs and the results showed a total of 6,196 targets were obtained. Function analysis of differentially expressed miRNAs and targets showed Glycan degradation and galactose metabolism were closely correlated with improved maize seed vigor. These findings provide valuable information to understand the involvement of miRNAs with maize seed vigor and these putative genes will be valuable resources for improving the seed vigor in future maize breeding.
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Affiliation(s)
- Yunqian Jin
- College of Agronomy, Henan University of Science and Technology, Luoyang, China
- State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural Sciences / School of Agricultural Sciences, Zhengzhou University, Henan, Zhengzhou, China / Key Laboratory for Cotton Genetic Improvement, MOA, Anyang, Henan, China
| | - Bin Wang
- College of Agronomy, Henan University of Science and Technology, Luoyang, China
| | - Lei Tian
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Linxi Zhao
- College of Agronomy, Henan University of Science and Technology, Luoyang, China
| | - Shulei Guo
- Cereal Institute, Henan Academy of Agricultural Science/Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Hengchao Zhang
- College of Agronomy, Henan University of Science and Technology, Luoyang, China
| | - Lengrui Xu
- College of Agronomy, Henan University of Science and Technology, Luoyang, China
| | - Zanping Han
- College of Agronomy, Henan University of Science and Technology, Luoyang, China
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Li Z, Chen Q, Gao F, Meng Q, Li M, Zhang Y, Zhang P, Zhang M, Liu Z. Controlled-release urea combined with fulvic acid enhanced carbon/nitrogen metabolic processes and maize growth. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:3644-3654. [PMID: 34888887 DOI: 10.1002/jsfa.11711] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 12/04/2021] [Accepted: 12/07/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Controlled-release urea (CRU) or fulvic acid (FA), when applied, have been shown to increase nitrogen (N) use efficiency (NUE) or to stimulate plant growth, yet their interactive effects are not well explored. The objective of this study was to investigate the synergistic mechanisms of CRU combined with FA (CRU + FA) on maize (Zea mays L.) growth. Through the experimental design with five treatments, the N metabolism through the transcriptomic analysis of maize leaf, endogenous hormones, photosynthesis enzymes in maize leaf and root, and maize yield and NUE were evaluated. RESULTS Compared with CRU treatment, CRU + FA treatment significantly increased auxin, nitrate reductase, and glutamate dehydrogenase in leaf by 35.4%, 43.9%, 40.8% and 19.5%, respectively, as well as, the relative content of the leaf chlorophyll and photosynthetic rate by 14.8% and 45.6%, respectively, at 12-leaf collar stage; the carbon/nitrogen (C/N) metabolic process was significantly enriched in CRU + FA treatment by 312 and 418 genes, according to transcriptome profiles of C/N metabolic in leaves from various fertilizer treated maize; maize yield and NUE of CRU + FA treatment were increased by 6.3% and 38.4%, respectively. CONCLUSIONS These results demonstrated that CRU + FA is a viable fertilization scheme that can enhance maize growth, yield and NUE through their synergies in improving N uptake, promoting photosynthesis, increasing C/N metabolic processes, and enhancing enzyme activities. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Zeli Li
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
| | - Qi Chen
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
| | - Feng Gao
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
| | - Qingmin Meng
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
| | - Mingyang Li
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
| | - Yan Zhang
- Shandong Pengbo Biotechnology Co., Ltd, Taian, China
| | - Peng Zhang
- Shandong Wanhao Fertilizer Co. Ltd, Jinan, China
| | - Min Zhang
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
| | - Zhiguang Liu
- National Engineering Laboratory for Efficient Use of Soil and Fertilizer Resources, College of Resources and the Environment, Shandong Agricultural University, Taian, China
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Zhang H, Zang J, Huo Y, Zhang Z, Chen H, Chen X, Liu J. Identification of the Potential Genes Regulating Seed Germination Speed in Maize. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11040556. [PMID: 35214886 PMCID: PMC8879924 DOI: 10.3390/plants11040556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2022] [Revised: 02/09/2022] [Accepted: 02/10/2022] [Indexed: 05/02/2023]
Abstract
Seed germination is the crucial stage in plant life cycle. Rapid and uniform germination plays an essential role in plant development and grain yield improvement. However, the molecular mechanism underlying seed germination speed is largely unknown due to the complexity of the dynamic process and the difficulty in phenotyping. Here, we conducted a time-series comparative transcriptome study of two elite maize inbred lines, 72-3 and F9721, with striking difference in seed germination speed, and identified a major locus underlying maize germination speed through genome-wide association analysis (GWAS) of an F2 segregation population. Comparative transcriptome study identified 12 h after imbibition (HAI) as the critical stage responsible for the variation in germination speed. The differentially expressed genes (DEGs) between 72-3 and F9721 were mainly enriched in metabolic pathways, biosynthesis of secondary metabolites, oxidoreductase activity pathways, hormone signal transduction, and amino acid transporter activity pathways. GWAS revealed that germination speed was controlled by a major locus on chromosome 1 with the leading SNP as AX-91332814, explaining 10.63% of phenotypic variation. A total of 87 proposed protein-coding genes surrounding the locus were integrated with DEGs. Combined with evidence from the gene expression database and gene synteny with other model species, we finally anchored three genes as the likely candidates regulating germination speed in maize. This study provides clues for the further exploration of genes controlling the maize seed germination speed, thus facilitating breeding of rapid germinated elite lines through marker assistant selection.
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Affiliation(s)
- Huairen Zhang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Innovative Academy of Seed Design, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; (H.Z.); (J.Z.); (Y.H.); (Z.Z.); (H.C.)
| | - Jie Zang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Innovative Academy of Seed Design, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; (H.Z.); (J.Z.); (Y.H.); (Z.Z.); (H.C.)
| | - Yanqing Huo
- State Key Laboratory of Plant Cell and Chromosome Engineering, Innovative Academy of Seed Design, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; (H.Z.); (J.Z.); (Y.H.); (Z.Z.); (H.C.)
| | - Zhaogui Zhang
- State Key Laboratory of Plant Cell and Chromosome Engineering, Innovative Academy of Seed Design, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; (H.Z.); (J.Z.); (Y.H.); (Z.Z.); (H.C.)
| | - Huabang Chen
- State Key Laboratory of Plant Cell and Chromosome Engineering, Innovative Academy of Seed Design, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; (H.Z.); (J.Z.); (Y.H.); (Z.Z.); (H.C.)
| | - Xunji Chen
- Institute of Biotech & Nuclear, Xinjiang Academy of Agricultural Sciences, Urumqi 830091, China
- Correspondence: (X.C.); (J.L.); Tel.: +86-991-4527003 (X.C.); +86-010-64801561 (J.L.)
| | - Juan Liu
- State Key Laboratory of Plant Cell and Chromosome Engineering, Innovative Academy of Seed Design, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China; (H.Z.); (J.Z.); (Y.H.); (Z.Z.); (H.C.)
- Correspondence: (X.C.); (J.L.); Tel.: +86-991-4527003 (X.C.); +86-010-64801561 (J.L.)
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6
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Wang C, Hao N, Xia Y, Du Y, Huang K, Wu T. CsKDO is a candidate gene regulating seed germination lethality in cucumber. BREEDING SCIENCE 2021; 71:417-425. [PMID: 34912168 PMCID: PMC8661486 DOI: 10.1270/jsbbs.20149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Accepted: 04/18/2021] [Indexed: 06/14/2023]
Abstract
Seed germination plays an important role in the initial stage of plant growth. However, few related studies focused on lethality after seed germination in plants. In this study, we identified an Ethyl methanesulfonate (EMS) mutagenesis mutant Csleth with abnormal seed germination in cucumber (Cucumis sativus L.). The radicle of the Csleth mutant grew slowly and detached from the cotyledon until 14 d after sowing. Genetic analysis showed that the mutant phenotype of Csleth was controlled by a single recessive gene. MutMap+ and Kompetitive Allele Specific PCR (KASP) genotyping results demonstrated that Csa3G104930 encoding 3-deoxy-manno-octulosonate cytidylyltransferase (CsKDO) was the candidate gene of the Csleth mutant. The transition mutation of aspartate occurred in Csa3G104930 co-segregated with the phenotyping data. CsKDO was highly expressed in male flowers in wild type cucumbers. Subcellular localization results showed that CsKDO was located in the nucleus. Overall, these results suggest CsKDO regulates lethality during seed germination in cucumber.
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Affiliation(s)
- Chen Wang
- College of Horticulture and Landscape, Hunan Agricultural
University, 1 Nongda Road, Changsha 410128,
China
- College of Horticulture and Landscape, Northeast Agricultural
University, 600 Changjiang Road, Harbin 150030,
China
- Engineering Research Center for Horticultural Crop Germplasm Creation and
New Variety Breeding, Ministry of Education, 1 Nongda Road,
Changsha 410128, China
- Key Labortory for Vegetable Biology of Hunan Province,
1 Nongda Road, Changsha 410128, China
| | - Ning Hao
- College of Horticulture and Landscape, Northeast Agricultural
University, 600 Changjiang Road, Harbin 150030,
China
| | - Yutong Xia
- College of Horticulture and Landscape, Hunan Agricultural
University, 1 Nongda Road, Changsha 410128,
China
- Engineering Research Center for Horticultural Crop Germplasm Creation and
New Variety Breeding, Ministry of Education, 1 Nongda Road,
Changsha 410128, China
- Key Labortory for Vegetable Biology of Hunan Province,
1 Nongda Road, Changsha 410128, China
| | - Yalin Du
- College of Horticulture and Landscape, Hunan Agricultural
University, 1 Nongda Road, Changsha 410128,
China
- Engineering Research Center for Horticultural Crop Germplasm Creation and
New Variety Breeding, Ministry of Education, 1 Nongda Road,
Changsha 410128, China
- Key Labortory for Vegetable Biology of Hunan Province,
1 Nongda Road, Changsha 410128, China
| | - Ke Huang
- College of Horticulture and Landscape, Hunan Agricultural
University, 1 Nongda Road, Changsha 410128,
China
- Engineering Research Center for Horticultural Crop Germplasm Creation and
New Variety Breeding, Ministry of Education, 1 Nongda Road,
Changsha 410128, China
- Key Labortory for Vegetable Biology of Hunan Province,
1 Nongda Road, Changsha 410128, China
| | - Tao Wu
- College of Horticulture and Landscape, Hunan Agricultural
University, 1 Nongda Road, Changsha 410128,
China
- College of Horticulture and Landscape, Northeast Agricultural
University, 600 Changjiang Road, Harbin 150030,
China
- Engineering Research Center for Horticultural Crop Germplasm Creation and
New Variety Breeding, Ministry of Education, 1 Nongda Road,
Changsha 410128, China
- Key Labortory for Vegetable Biology of Hunan Province,
1 Nongda Road, Changsha 410128, China
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7
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Huarte HR, Puglia GD, Prjibelski AD, Raccuia SA. Seed Transcriptome Annotation Reveals Enhanced Expression of Genes Related to ROS Homeostasis and Ethylene Metabolism at Alternating Temperatures in Wild Cardoon. PLANTS 2020; 9:plants9091225. [PMID: 32961840 PMCID: PMC7570316 DOI: 10.3390/plants9091225] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Revised: 09/09/2020] [Accepted: 09/13/2020] [Indexed: 12/20/2022]
Abstract
The association among environmental cues, ethylene response, ABA signaling, and reactive oxygen species (ROS) homeostasis in the process of seed dormancy release is nowadays well-established in many species. Alternating temperatures are recognized as one of the main environmental signals determining dormancy release, but their underlying mechanisms are scarcely known. Dry after-ripened wild cardoon achenes germinated poorly at a constant temperature of 20, 15, or 10 °C, whereas germination was stimulated by 80% at alternating temperatures of 20/10 °C. Using an RNA-Seq approach, we identified 23,640 and annotated 14,078 gene transcripts expressed in dry achenes and achenes exposed to constant or alternating temperatures. Transcriptional patterns identified in dry condition included seed reserve and response to dehydration stress genes (i.e., HSPs, peroxidases, and LEAs). At a constant temperature, we observed an upregulation of ABA biosynthesis genes (i.e., NCED9), ABA-responsive genes (i.e., ABI5 and TAP), as well as other genes previously related to physiological dormancy and inhibition of germination. However, the alternating temperatures were associated with the upregulation of ethylene metabolism (i.e., ACO1, 4, and ACS10) and signaling (i.e., EXPs) genes and ROS homeostasis regulators genes (i.e., RBOH and CAT). Accordingly, the ethylene production was twice as high at alternating than at constant temperatures. The presence in the germination medium of ethylene or ROS synthesis and signaling inhibitors reduced significantly, but not completely, germination at 20/10 °C. Conversely, the presence of methyl viologen and salicylhydroxamic acid (SHAM), a peroxidase inhibitor, partially increased germination at constant temperature. Taken together, the present study provides the first insights into the gene expression patterns and physiological response associated with dormancy release at alternating temperatures in wild cardoon (Cynara cardunculus var. sylvestris).
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Affiliation(s)
- Hector R. Huarte
- CONICET/Faculty of Agricultural Sciences, National University of Lomas de Zamora, 1836 Llavallol, Argentina;
| | - Giuseppe. D. Puglia
- Institute for Agricultural and Forestry Systems in the Mediterranean (ISAFoM), Department of Biology, Agriculture and Food Science (DiSBA), National Research Council (CNR), Via Empedocle, 58, 95128 Catania, Italy;
- Correspondence: ; Tel.: +39-0956139914
| | - Andrey D. Prjibelski
- Center for Algorithmic Biotechnology, Institute of Translational Biomedicine, St. Petersburg State University, 199004 St. Petersburg, Russia;
| | - Salvatore A. Raccuia
- Institute for Agricultural and Forestry Systems in the Mediterranean (ISAFoM), Department of Biology, Agriculture and Food Science (DiSBA), National Research Council (CNR), Via Empedocle, 58, 95128 Catania, Italy;
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