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ABSTRACT: Transcriptomic analysis of winter Brassica rapa L. under drought stress

PROVIDER: PRJNA1150086 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR30310629_1.fastq.gz	Fastqsanger.gz
	SRR30310629_2.fastq.gz	Fastqsanger.gz
	SRR30310630_1.fastq.gz	Fastqsanger.gz
	SRR30310630_2.fastq.gz	Fastqsanger.gz
	SRR30310631_1.fastq.gz	Fastqsanger.gz

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Project description:Analysis of miRNAs in winter Brassica rapa under drought stress

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iTRAQ-based quantitative proteomic analysis reveals new metabolic pathways responding to cold stress in two Winter Turnip Rape (Brassica rapa L.), part 2

Project description:Winter turnip rape (Brassica rapa L.) is a valuable ecologically beneficial oil crop that is produced mainly for its ability of conserving soil and water in winter and spring and its high quality edible oil in northwestern China. However, coldness and extremely low temperature negatively affects the growth and development of winter turnip rape, resulting in failure to overwinter and production in northwestern China. ‘Longyou 7’(Brassica rapa L.) and ‘Tianyou 4’ (Brassica rapa L.) are closely related plant species, but their cold tolerances are different. ‘Longyou 7’ is a cold-tolerant cultivar, ‘Tianyou 4’is a cold-sensitive cultivar. In this study, we used iTRAQ-based proteomics to compare quantitative changes in the proteome of two winter turnip rape leaves and roots in response to cold stress to elucidate the possible molecular mechanism underlying the ability of ‘Longyou 7’ to adapt to cold stress.

2019-11-12 | PXD008195 | Pride

iTRAQ-based quantitative proteomic analysis reveals new metabolic pathways responding to cold stress in two Winter Turnip Rape (Brassica rapa L.), part 1

2019-11-12 | PXD008194 | Pride

Gene expression profiling of drought tolerant and sensitive Brassica rapa accessions under control and osmotic stress conditions

Project description:In this study genome-wide gene expression profiling was used to analyze mechanisms of drought tolerance in Brassica rapa. Using an Illumina Mi-Seq platform we sequenced RNA from shoot tissues of drought tolerant and drought sensitive B. rapa genotypes in control conditions and after application of osmotic stress. Differentially expressed genes between the different conditions and genotypes were used to identify drought relevant gene networks.

2017-08-31 | GSE73963 | GEO

Project description:Transcriptomic analysis of winter Brassica rapa L. under saline-alkali stress

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Project description:MeRIP-seq analysis of winter Brassica rapa under low temperature stress

| PRJNA1161432 | ENA

Expression profile of trace metal element responsive genes in Brassica rapa

Project description:Purpose: Zinc deficiency (ZnD) and iron deficiency (FeD), excess Zn (ZnE) and cadmium exposure (CdE) are major environmental problems for crop cultivation. Methods: Applying Tag-Seq technology to leaves of Brassica rapa grown under FeD, ZnD, ZnE or CdE conditions, with normal conditions as a control, we examined global gene expression changes and compared the expression patterns of multiple paralogs. Results: We identified 812, 543, 331 and 447 differentially expressed genes under FeD, ZnD, ZnE and CdE conditions, respectively, in B. rapa leaves.Further analysis revealed that genes associated with Zn, Fe and Cd responses tended to be over-retained in the B. rapa genome. Most of these multiple-copy genes showed the same direction of expression change under stress conditions. Conclusion: We conclude that the duplicated genes involved in trace element responses in B. rapa are functionally redundant, making the regulatory network more complex in B. rapa than in Arabidopsis thaliana.

2014-09-30 | GSE55264 | GEO

Turnip succinylation modification

Project description:Quantitative succinyl-proteome profiling of turnip (Brassica rapa var. rapa) in response to cadmium stress.

2022-08-11 | PXD028098 | Pride

Network analysis identifies temporal regulation of transcriptomic and physiological responses to early drought perception in Brassica rapa.

Project description:The temporal control of gene expression leads to time of day effects on metabolism and physiology. To identify early transcript level changes occurring in the Brassica rapa oil-type variety R500 during initial drought perception we performed an RNA-seq time course experiment. Leaf tissue was collected from well-watered and drought treated 18 day old plants grown under 14h light at 22°C/10h dark at 18°C every 4h over 2 days with 2 biological replicates at every time point. We collected physiology measurements at every time point and observed dynamic time of day changes in photosynthetic rate, stomatal conductance, non-structural carbohydrates and PSII efficiency. Using a co-expression network approach, phase dependent gene modules were correlated with the physiology data to reveal temporally regulated drought responses. This study provides insight into the transcriptome level responses occurring in the plant in the early stages of drought perception before visible signs of stress occur.

2017-08-19 | GSE90841 | GEO

Tracing the transcriptomic changes of synthetic trigenomic allohexaploid in Brassica by RNA-Seq approach

Project description:We explored the transcriptomic changes of synthetic Brassica allohexaploid by comparing to its parents using a high-throughput RNA-Seq method. A total of 35644409 sequence reads were generated, and 32642 genes were aligned from the data. There were 29260, 29060 and 29697 genes identified in Brassica rapa, Brassica carinata, and Brassica allohexaploid, respectively. We screened differentially expressed genes (DEGs) by a standard of two-fold or greater change in expression and false discovery rate (FDR) no more than 0.001. As a result, 7397 DEGs were detected between Brassica hexaploid and its parents. A large proportion of the 3184 DEGs between Brassica hexaploid and its paternal parent B. rapa was involved in biosynthesis of secondary metabolites, plant-pathogen interaction, photosynthesis, and circadian rhythm. Between Brassica hexaploid and its maternal parent B. carinata, 2233 DEGs were screened. A lot of them had functions of plant-pathogen interaction, plant hormone signal transduction, ribosome, limonene and pinene degradation, photosynthesis, and also biosynthesis of secondary metabolites. In addition, we found many transcription factor genes, methyltransferase and methylation genes that showed differential expression between Brassica hexaploid and its parents. Leaf mRNA profiles of Brassica rapa, Brassica carinata, and Brassica allohexaploid

2014-10-10 | E-GEOD-46299 | biostudies-arrayexpress

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