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DhQueRobu

ABSTRACT: Quercus robur (common oak)

PROVIDER: PRJEB45120 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
		Other
	ERR8097160_1.fastq.gz	Fastqsanger.gz
	ERR8097160_2.fastq.gz	Fastqsanger.gz
	ERR8097161_1.fastq.gz	Fastqsanger.gz
	ERR8097161_2.fastq.gz	Fastqsanger.gz

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RNA-seq, miRNA-seq, and degradome-seq analysis of taproots and lateral roots of Quercus robur seedlings under well-watered and drought stress conditions [miRNA-seq]

Project description:Identification of genes involved in the regulation of taproot and lateral root growth in Quercus robur seedlings under drought stress and well-watered conditions. Genes involved in the regulation of taproot and lateral root growth in Quercus robur seedlings were identified using RNA-seq, miRNA-seq, and degradome-seq. The analysis focused on the gene expression, miRNA regulation, and mRNA degradation profiles of taproots and lateral roots under both drought stress and well-watered conditions. Key genes and their regulatory miRNAs were identified, along with the role of mRNA degradation pathways in response to stress, providing insights into the molecular mechanisms controlling root growth and development in oak seedlings under varying water availability.

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RNA-seq, miRNA-seq, and degradome-seq analysis of taproots and lateral roots of Quercus robur seedlings under well-watered and drought stress conditions [degradome]

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RNA-seq, miRNA-seq, and degradome-seq analysis of taproots and lateral roots of Quercus robur seedlings under well-watered and drought stress conditions [RNA-seq]

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Project description:Quercus robur (common oak) genome assembly, dhQueRobu3

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Project description:Quercus robur (common oak), genomic and transcriptomic data

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Project description:Illumina HiSeq technology was used to generate mRNA profiles from mycorrhizal Quercus robur roots. Tuber melanosporum, T. aestivum and T.magnatum mycorrhizal root tips were harvested and used for RNA extraction. Paired-end reads of 100 bp were generated and aligned to Quercus robur CDS using CLC Genomics Workbench 9.

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Project description:Defense priming sensitises plant defenses to enable a faster and stronger response to subsequent stress. Various chemicals can trigger priming, however the response remains unexplored in oak. Following treatment with salicylic acid (SA), jasmonic acid (JA), or β-aminobutyric acid (BABA), oak (Quercus robur) seedlings were infected with oak powdery mildew (Erysiphe alphitoides, PM). Whilst JA increased susceptibility to PM, BABA and SA enhanced resistance by priming callose deposition and SA-dependent gene expression, respectively. All three treatments had no impact on growth. To characterise molecular markers of priming, untargeted transcriptome and metabolome analyses were performed using RNAseq and LC-MS/MS. Differential gene expression analysis revealed around 2900, 1600, and 900 genes uniquely primed by each treatment BABA, SA, and JA, respectively. A limited number of enriched GO terms differentiated the three treatments. Meanwhile, metabolome analysis found roughly 340, 220, and 40 accumulated masses uniquely primed by BABA, SA, and JA, respectively. Pathway enrichment analysis linked BABA priming to alkaloids biosynthesis, whereas no specific pathways were identified for SA and JA priming. Our results confirm the existence of chemical-induced priming in oak and putatively identify associated molecular markers.

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