Integrated analysis of transcriptome and metabolome reveals insights for low-temperature germination in hybrid rapeseeds (Brassica napus L.)

Song, Jiayu; Chen, Yutiao; Jiang, GenShui; Zhao, Jianyi; Wang, Wenjia; Hong, Xiaofu

doi:10.1016/j.jplph.2023.154120

Cited by 3 publications

(2 citation statements)

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“…According to KEGG enrichment analysis, the most DEGs-enriched KEGG pathways in our study included "plant hormone signal transduction", "MAPK signaling pathway-plant", "biosynthesis of amino acids", "carbon metabolism", "starch and sucrose metabolism", "glycolysis/gluconeogenesis", "phenylpropanoid biosynthesis", "steroid biosynthesis", "plant-pathogen interaction" and "amino sugar and nucleotide sugar metabolism" (Figure 4). Similar results were found in the cold-stress response of Brassica napus (Raza et al, 2021, Song et al, 2023. In this investigation, we found that biosynthesis of flavonoids-related genes encoding the fl a v o n o l s y n t h a s e F L S ( C O C N U _ 1 4 G 0 1 0 3 6 0 a n d COCNU_13G004330) were significantly down-regulated during cold stress in the low-temperature-sensitive coconut variety GD compared with the low-temperature-insensitive coconut variety HT (Table 1; Figure 5).…”

Section: Flavonol Metabolism Pathway Metabolites May Contribute To Co...supporting

confidence: 86%

“…Integrated transcriptomics and metabolomics approaches are gaining prevalence to uncover molecular dynamics of abiotic stress resilience in various crops owing to genetical, morphological, and physiological data (Maruyama et al, 2014;Jiang et al, 2023;Li Q. et al, 2023). In spite of this, there have been limited studies evaluating coconuts under cold stress by analyzing metabolomics and transcriptomics data.…”

Section: Introductionmentioning

confidence: 99%

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Integrated transcriptomic and metabolomic data reveal the cold stress responses molecular mechanisms of two coconut varieties

Li,

Wang,

Sayed

et al. 2024

Front. Plant Sci.

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Among tropical fruit trees, coconut holds significant edible and economic importance. The natural growth of coconuts faces a challenge in the form of low temperatures, which is a crucial factor among adverse environmental stresses impacting their geographical distribution. Hence, it is essential to enhance our comprehension of the molecular mechanisms through which cold stress influences various coconut varieties. We employed analyses of leaf growth morphology and physiological traits to examine how coconuts respond to low temperatures over 2-hour, 8-hour, 2-day, and 7-day intervals. Additionally, we performed transcriptome and metabolome analyses to identify the molecular and physiological shifts in two coconut varieties displaying distinct sensitivities to the cold stress. As the length of cold stress extended, there was a prominent escalation within the soluble protein (SP), proline (Pro) concentrations, the activity of peroxidase (POD) and superoxide dismutase (SOD) in the leaves. Contrariwise, the activity of glutathione peroxidase (GSH) underwent a substantial reduction during this period. The widespread analysis of metabolome and transcriptome disclosed a nexus of genes and metabolites intricately cold stress were chiefly involved in pathways centered around amino acid, flavonoid, carbohydrate and lipid metabolism. We perceived several stress-responsive metabolites, such as flavonoids, carbohydrates, lipids, and amino acids, which unveiled considerably, lower in the genotype subtle to cold stress. Furthermore, we uncovered pivotal genes in the amino acid biosynthesis, antioxidant system and flavonoid biosynthesis pathway that presented down-regulation in coconut varieties sensitive to cold stress. This study broadly enriches our contemporary perception of the molecular machinery that contributes to altering levels of cold stress tolerance amid coconut genotypes. It also unlocks several unique prospects for exploration in the areas of breeding or engineering, aiming to identifying tolerant and/or sensitive coconut varieties encompassing multi-omics layers in response to cold stress conditions.

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Section: Flavonol Metabolism Pathway Metabolites May Contribute To Co...supporting

confidence: 86%

Section: Introductionmentioning

confidence: 99%

Integrated transcriptomic and metabolomic data reveal the cold stress responses molecular mechanisms of two coconut varieties

Li,

Wang,

Sayed

et al. 2024

Front. Plant Sci.

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Seed Dressing Containing Gibberellic Acid, Indole-3-Acetic Acid, and Brassinolide Improves Maize Seed Germination and Seedling Growth Under Cold Stress

Cui,

Zhang,

et al. 2024

Agronomy

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Chemical products, such as seed dressings, are often used to regulate crop growth and development and improve yields. In this study, we investigated a seed dressing containing 0.136% gibberellic acid (GA), indole-3-acetic acid (IAA)-, and brassinolide (BL) as a wettable powder (WP), hereafter referred to as GA-IAA-BL WP. This product is a new plant growth regulator of plant origin that can improve crop stress resistance and yield. However, its effect on maize seed germination and seedling growth under low-temperature stress is unclear. In this study, GA-IAA-BL WP was applied to maize ‘Liukexing 99’ seeds at 50, 100, 150, or 200 mg mL−1, and seeds were germinated in an artificial climatic chamber at 10, 15, or 25 °C for 14 d. Application at 100 mg mL−1 significantly increased the germination rate as well as seedling shoot and root length and dry and fresh weight at all three temperatures. This application rate also increased the contents of proline, malondialdehyde, soluble sugars, and soluble proteins; the activities of catalase, superoxide dismutase, and peroxidase; and root vigor. Our results demonstrate that GA-IAA-BL WP can reduce the negative impacts of low-temperature stress on seed germination and seedling growth.

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Comparative Phenotypic and Transcriptomic Analyses Provide Novel Insights into the Molecular Mechanism of Seed Germination in Response to Low Temperature Stress in Alfalfa

Zhang,

Lv,

Sun

et al. 2024

IJMS

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Low temperature is the most common abiotic factor that usually occurs during the seed germination of alfalfa (Medicago sativa L.). However, the potential regulatory mechanisms involved in alfalfa seed germination under low temperature stress are still ambiguous. Therefore, to determine the relevant key genes and pathways, the phenotypic and transcriptomic analyses of low-temperature sensitive (Instict) and low-temperature tolerant (Sardi10) alfalfa were conducted at 6 and 15 h of seed germination under normal (20 °C) and low (10 °C) temperature conditions. Germination phenotypic results showed that Sardi10 had the strongest germination ability under low temperatures, which was manifested by the higher germination-related indicators. Further transcriptome analysis indicated that differentially expressed genes were mainly enriched in galactose metabolism and carbon metabolism pathways, which were the most commonly enriched in two alfalfa genotypes. Additionally, fatty acid metabolism and glutathione metabolism pathways were preferably enriched in Sardi10 alfalfa. The Weighted Gene Co-Expression Network Analysis (WGCNA) suggested that genes were closely related to galactose metabolism, fatty acid metabolism, and glutathione metabolism in Sardi10 alfalfa at the module with the highest correlation (6 h of germination under low temperature). Finally, qRT-PCR analysis further validated the related genes involved in the above pathways, which might play crucial roles in regulating seed germination of alfalfa under low temperature conditions. These findings provide new insights into the molecular mechanisms of seed germination underlying the low temperature stress in alfalfa.

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Integrated analysis of transcriptome and metabolome reveals insights for low-temperature germination in hybrid rapeseeds (Brassica napus L.)

Cited by 3 publications

References 50 publications

Integrated transcriptomic and metabolomic data reveal the cold stress responses molecular mechanisms of two coconut varieties

Integrated transcriptomic and metabolomic data reveal the cold stress responses molecular mechanisms of two coconut varieties

Seed Dressing Containing Gibberellic Acid, Indole-3-Acetic Acid, and Brassinolide Improves Maize Seed Germination and Seedling Growth Under Cold Stress

Comparative Phenotypic and Transcriptomic Analyses Provide Novel Insights into the Molecular Mechanism of Seed Germination in Response to Low Temperature Stress in Alfalfa

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