Transcriptome profile analysis of Indian mustard (Brassica juncea L.) during seed germination reveals the drought stress-induced genes associated with energy, hormone, and phenylpropanoid pathways

Wei, Jinxing; Xu, Luzhou; Yu, Shuang; Cheng, Tianfang; Tan, Wesley Chee-Wah; Zhao, Yang; Li, Chunsheng; Yang, Xinyu; Ouyang, Lejun; Wei, Mingken; Wang, J Y; Lu, Guangyuan

doi:10.1016/j.plaphy.2023.107750

Cited by 14 publications

(12 citation statements)

References 130 publications

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“…The results of the regulatory interaction network of the c160675_g2 ( OLEO3 ) gene [ 42 ] showed ( Fig 7B ) that the functions of genes with potential interaction with this gene were mainly related to “calcium ion binding”, “electron transport chain”, “respiratory electron transport chain”, “lipid metabolism process”, “ATP metabolism process”, “stress response”, and other calcium ions and genes related to energy metabolism ( Table 7 ). In addition, similar to the CBF gene family, genes related to membrane structure and hormones, including “cytoplasmic part”, “membrane”, and “linoleic acid cyclooxygenase activity” were affected by the OLEO3 gene [ 43 ] ( Table 7 ).…”

Section: Resultsmentioning

confidence: 99%

Key anti-freeze genes and pathways of Lanzhou lily (Lilium davidii, var. unicolor) during the seedling stage

Tian,

Li,

Chen

2024

PLoS ONE

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Temperature is one of the most important environmental factors for plant growth, as low-temperature freezing damage seriously affects the yield and distribution of plants. The Lanzhou lily (Lilium davidii, var. unicolor) is a famous ornamental plant with high ornamental value. Using an Illumina HiSeq transcriptome sequencing platform, sequencing was conducted on Lanzhou lilies exposed to two different temperature conditions: a normal temperature treatment at 20°C (A) and a cold treatment at −4°C (C). After being treated for 24 hours, a total of 5848 differentially expressed genes (DEGs) were identified, including 3478 significantly up regulated genes and 2370 significantly down regulated genes, accounting for 10.27% of the total number of DEGs. Quantitative real-time PCR (QRT-PCR) analysis showed that the expression trends of 10 randomly selected DEGs coincided with the results of high-throughput sequencing. In addition, genes responding to low-temperature stress were analyzed using the interaction regulatory network method. The anti-freeze pathway of Lanzhou lily was found to involve the photosynthetic and metabolic pathways, and the key freezing resistance genes were the OLEO3 gene, 9 CBF family genes, and C2H2 transcription factor c117817_g1 (ZFP). This lays the foundation for revealing the underlying mechanism of the molecular anti-freeze mechanism in Lanzhou lily.

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Section: Resultsmentioning

confidence: 99%

Key anti-freeze genes and pathways of Lanzhou lily (Lilium davidii, var. unicolor) during the seedling stage

Tian,

Li,

Chen

2024

PLoS ONE

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“…Starch and sucrose metabolism stand as paramount physiological processes during seed germination, with soluble sugars like glucose and sucrose holding pivotal roles in plant life cycles. These sugars serve as vital regulators of plant growth, development, and gene expression [29]. Previous research has indicated that water deficit diminishes starch content while elevating sucrose levels, potentially enhancing drought tolerance in wheat [30].…”

Section: Discussionmentioning

confidence: 99%

Sorghum's Survival Strategy Against Drought During Early Growth Under PEG- Simulated Conditions Based on Transcriptome Analysis

Zhang,

Chang,

Chen

et al. 2024

Preprint

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Drought stress during sorghum emergence significantly impacts seedling establishment, with drought adversely affecting both emergence and population growth. This study aims to explore drought tolerance mechanisms in sorghum germination by analyzing physiological changes and transcriptomic data from two sorghum lines: W069 (drought-tolerant) and W040 (drought-sensitive). Under drought conditions, phenotypic analysis revealed that W069 exhibited longer shoot and root lengths compared to W040. Additionally, physiological data indicated higher osmotic substance content and lower MDA content in W069. Through Kyoto Encyclopedia of Genes and Genome (KEGG) analyses, three key pathways (starch and sucrose metabolism, phenylpropanoid biosynthesis, and phytohormone signaling) were identified as pivotal in drought response during seed germination in sorghum. Expression profiling revealed that most of the drought tolerance-related genes in the three key pathways were expressed at higher levels, in the drought-tolerant cultivar 'W069', which may be the reason for its greater stress tolerance. These findings enhance our comprehension of drought-responsive gene networks in sorghum seed germination, offering potential target genes and strategies for enhancing drought tolerance in this crop.

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“…Overexpression of watermelon ClIQD24 in tomato causes an elongated tomato fruit shape (Dou et al, 2022a). Overexpression of melon IQD/SUN genes (CmSUN23-24 or CmSUN25-26-27c) leads to an elongated fruit shape, while overexpression of GhIQD10 inhibits cotton fiber length (Ma et al, 2022b;Xu et al, 2023). CsSUN-expressed tomato shows elongated fruit shape with increased length and decreased diameter (Li et al, 2022).…”

Section: Developmental Aspects Of Shape Regulation and Common Genetic...mentioning

confidence: 99%

Trends and Perspectives for the Use of Crop Wild Relatives in Crop Breeding

2024

Frontiers Research Topics

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Frontiers is more than just an open access publisher of scholarly articles: it is a pioneering approach to the world of academia, radically improving the way scholarly research is managed. The grand vision of Frontiers is a world where all people have an equal opportunity to seek, share and generate knowledge. Frontiers provides immediate and permanent online open access to all its publications, but this alone is not enough to realize our grand goals. Frontiers journal seriesThe Frontiers journal series is a multi-tier and interdisciplinary set of openaccess, online journals, promising a paradigm shift from the current review, selection and dissemination processes in academic publishing. All Frontiers journals are driven by researchers for researchers; therefore, they constitute a service to the scholarly community. At the same time, the Frontiers journal series operates on a revolutionary invention, the tiered publishing system, initially addressing specific communities of scholars, and gradually climbing up to broader public understanding, thus serving the interests of the lay society, too. Dedication to qualityEach Frontiers article is a landmark of the highest quality, thanks to genuinely collaborative interactions between authors and review editors, who include some of the world's best academicians. Research must be certified by peers before entering a stream of knowledge that may eventually reach the public -and shape society; therefore, Frontiers only applies the most rigorous and unbiased reviews. Frontiers revolutionizes research publishing by freely delivering the most outstanding research, evaluated with no bias from both the academic and social point of view. By applying the most advanced information technologies, Frontiers is catapulting scholarly publishing into a new generation. What are Frontiers Research Topics?Frontiers Research Topics are very popular trademarks of the Frontiers journals series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area.

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Transcriptome profile analysis of Indian mustard (Brassica juncea L.) during seed germination reveals the drought stress-induced genes associated with energy, hormone, and phenylpropanoid pathways

Cited by 14 publications

References 130 publications

Key anti-freeze genes and pathways of Lanzhou lily (Lilium davidii, var. unicolor) during the seedling stage

Key anti-freeze genes and pathways of Lanzhou lily (Lilium davidii, var. unicolor) during the seedling stage

Sorghum's Survival Strategy Against Drought During Early Growth Under PEG- Simulated Conditions Based on Transcriptome Analysis

Trends and Perspectives for the Use of Crop Wild Relatives in Crop Breeding

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