The Transcriptomic Analysis of the Response of Pinus massoniana to Drought Stress and a Functional Study on the ERF1 Transcription Factor

Zhang, Jinfeng; Wang, Dengbao; Chen, Peizhen; Zhang, Chi; Yao, Sheng; Qi, Hao; Agassin, Romaric Hippolyte; Ji, Kongshu

doi:10.3390/ijms241311103

Cited by 9 publications

(1 citation statement)

References 31 publications

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“…We acquired the Hidden Markov Model (HMM) profile of the WOX domain (PF00046) from the Pfam database (http://pfam.xfam.org/, accessed on 1 March 2023). The HMM profile was used to search the WOX proteins from four P. massoniana transcriptomes: CO2 stress transcriptome (PRJNA561037) [43], drought stress transcriptome (PRJNA595650) [44], young shoots transcriptome (PRJNA655997), and P. massoniana inoculated with the pine wood nematode transcriptome (SRA accession: PRJNA660087). A BLASTP search was performed against four transcriptomes using the Hidden Markov Model (HMM) profile.…”

Section: Identification and Cloning Of Wox Genes In P Massonianamentioning

confidence: 99%

Identification and Expression Patterns of WOX Transcription Factors under Abiotic Stresses in Pinus massoniana

Wang,

Qiu,

et al. 2024

IJMS

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WUSCHEL-related homeobox (WOX) transcription factors (TFs) play a crucial role in regulating plant development and responding to various abiotic stresses. However, the members and functions of WOX proteins in Pinus massoniana remain unclear. In this study, a total of 11 WOX genes were identified, and bioinformatics methods were used for preliminary identification and analysis. The phylogenetic tree revealed that most PmWOXs were distributed in ancient and WUS clades, with only one member found in the intermediate clade. We selected four highly conserved WOX genes within plants for further expression analysis. These genes exhibited expressions across almost all tissues, while PmWOX2, PmWOX3, and PmWOX4 showed high expression levels in the callus, suggesting their potential involvement in specific functions during callus development. Expression patterns under different abiotic stresses indicated that PmWOXs could participate in resisting multiple stresses in P. massoniana. The identification and preliminary analysis of PmWOXs lay the foundation for further research on analyzing the resistance molecular mechanism of P. massoniana to abiotic stresses.

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Section: Identification and Cloning Of Wox Genes In P Massonianamentioning

confidence: 99%

Identification and Expression Patterns of WOX Transcription Factors under Abiotic Stresses in Pinus massoniana

Wang,

Qiu,

et al. 2024

IJMS

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De novo transcriptome assembly and discovery of drought-responsive genes in white spruce (Picea glauca)

Ribeyre,

Depardieu,

Prunier

et al. 2025

PLoS ONE

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Forests face an escalating threat from the increasing frequency of extreme drought events driven by climate change. To address this challenge, it is crucial to understand how widely distributed species of economic or ecological importance may respond to drought stress. In this study, we examined the transcriptome of white spruce (Picea glauca (Moench) Voss) to identify key genes and metabolic pathways involved in the species’ response to water stress. We assembled a de novo transcriptome, performed differential gene expression analyses at four time points over 22 days during a controlled drought stress experiment involving 2-year-old plants and three genetically distinct clones, and conducted gene enrichment analyses. The transcriptome assembly and gene expression analysis identified a total of 33,287 transcripts corresponding to 18,934 annotated unique genes, including 4,425 genes that are uniquely responsive to drought. Many transcripts that had predicted functions associated with photosynthesis, cell wall organization, and water transport were down-regulated under drought conditions, while transcripts linked to abscisic acid response and defense response were up-regulated. Our study highlights a previously uncharacterized effect of drought stress on lipid metabolism genes in conifers and significant changes in the expression of several transcription factors, suggesting a regulatory response potentially linked to drought response or acclimation. Our research represents a fundamental step in unraveling the molecular mechanisms underlying short-term drought responses in white spruce seedlings. In addition, it provides a valuable source of new genetic data that could contribute to genetic selection strategies aimed at enhancing the drought resistance and resilience of white spruce to changing climates.

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De novo transcriptome assembly and discovery of drought-responsive genes in eastern white spruce (Picea glauca)

Ribeyre,

Depardieu,

Prunier

et al. 2024

Preprint

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Background Forests face an escalating threat from the increasing frequency of extreme drought events driven by climate change. To address this challenge, it is crucial to understand how widely distributed species of economic or ecological importance may respond to drought stress. Here, we used RNA-sequencing to investigate transcriptome responses at increasing levels of water stress in white spruce (Picea glauca (Moench) Voss), distributed across North America. We began by generating a transcriptome assembly emphasizing short-term drought stress at different developmental stages. We also analyzed differential gene expression at four time points over 22 days in a controlled drought stress experiment involving 2-year-old plants and three genetically unrelated clones. Results De novo transcriptome assembly and gene expression analysis revealed a total of 33,287 transcripts (18,934 annotated unique genes), with 4,425 unique drought-responsive genes. Many transcripts that had predicted functions associated with photosynthesis, cell wall organization, and water transport were down-regulated under drought conditions, while transcripts linked to abscisic acid response and defense response were up-regulated. Our study highlights a previously uncharacterized effect of drought stress on lipid metabolism genes in conifers and significant changes in the expression of several transcription factors, suggesting a regulatory response potentially linked to drought response or acclimation. Conclusion Our research represents a fundamental step in unraveling the molecular mechanisms underlying short-term drought responses in white spruce seedlings. In addition, it provides a valuable source of new genetic data that could contribute to genetic selection strategies aimed at enhancing the drought resistance and resilience of white spruce to changing climates.

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The Transcriptomic Analysis of the Response of Pinus massoniana to Drought Stress and a Functional Study on the ERF1 Transcription Factor

Cited by 9 publications

References 31 publications

Identification and Expression Patterns of WOX Transcription Factors under Abiotic Stresses in Pinus massoniana

Identification and Expression Patterns of WOX Transcription Factors under Abiotic Stresses in Pinus massoniana

De novo transcriptome assembly and discovery of drought-responsive genes in white spruce (Picea glauca)

De novo transcriptome assembly and discovery of drought-responsive genes in eastern white spruce (Picea glauca)

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