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Drought-induced molecular changes in crown of various barley phytohormone mutants

ABSTRACT: Drought-induced molecular changes in crown of various barley phytohormone mutants

PROVIDER: PRJEB66271 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR12070900_1.fastq.gz	Fastqsanger.gz
	ERR12070900_2.fastq.gz	Fastqsanger.gz
	ERR12071000_1.fastq.gz	Fastqsanger.gz
	ERR12071000_2.fastq.gz	Fastqsanger.gz
	ERR12070901_1.fastq.gz	Fastqsanger.gz

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Drought-induced molecular changes in crown of various barley phytohormone mutants

Project description:The aim of the study was the elucidation of drought-induced molecular events related to plant hormones occurring in crown tissue of barley, the key organ for cereal survival. Experiments involving large-scale measurements of gene expression at transcript and protein level, hormone abundance, and phenotypic variability in a set of selected barley mutants were carried out to uncover how disturbance of GAs, BRs and SLs homeostasis may affect the barley multivariate response to drought. The characterization included early stages of plant development and continued to the later stages, with observation of effects on the whole-plant architecture and yield formation. The integration of all data allowed to enrich the knowledge of regulatory networks in barley exposed to drought.

2023-10-10 | E-MTAB-13358 | biostudies-arrayexpress

Disorders in brassinosteroids signal transduction triggers the profound molecular alternations in the crown tissue of barley under drought

Project description:The aim of the study was the elucidation of drought-induced molecular events occurred in crown tissue of barley. Independent research methods allowed to identify genes (RNA-seq) and corresponding proteins (LC/MS), whose direction of regulation was the same under water deficit conditions. They may represent a promising set of genes in breeding of new varieties with increased drought tolerance. A set of genes with contrasting regulation between the genotypes with different BRs signal transduction efficiency was determined, often of fundamental role in plant development. On the other hand, several genes encoding dehydrins were expressed independently from genotype, thus being suggested as housekeeping genes. Some candidate genes on coordination of phytohormones crosstalk have been also proposed. The multidisciplinary results provided new insights into the significant relationships between gene expression, protein and phytohormone content of crown tissue under abiotic stress.

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Project description:We employed the mRNA-seq method to acquire transcriptome-wide characterization of the crown tissue and provide new insights into the expression profiles of heat- and gibberellin-related genes. The study accompanied application of ATAC-seq strategy to identify open chromatin regions (OCRs) and to characterize their distributions and organizations in crown tissues of three barley (Horedeum vulgare) genotypes carrying different allelic forms of the sdw1 gene encoding Gibberellin 20-oxidase (GA20ox) subjected to high temperature. ATAC-seq and RNA-seq data integration provided results concerning relationships between chromatin openness and gene expression changes.

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Transcriptomic changes in the crown (stem base) of barley (Hordeum vulgare L. cv. Golden Promise) during crown-root initiation and development

Project description:Purpose: The goal of this study was to investigate the mechanisms involved in the initiation and development of crown-roots (CRs) in barley and to estimate the role of cytokinins (CKs) in this process. Method: stranded libraries were obtained from RNA extracted from the stem base of 1 day-after-germination (DAG) and 10DAG-seedlings of wild-type (WT) and AtCKX-overexpressing barley lines (OE-CKX). OE-CKX lines have a reduced content of endogenous CKs and are characterized by a higher number of CRs. Libraries were deep sequenced on Illumina HighSeq platform. Each sample was investigated in three independent biological replicates. Results: Using a data analysis workflow optimized for barley, we identified more than 4000 transcripts differentially expressed in the stem base of 1DAG and 10DAG-seedlings. Expression as determined by RNA-seq was validated by real-time PCR. Our data were compared to the transcriptomic profiling obtained from rice and we were able to identify genes potentially involved in the initiation/development of CRs in barley. Also the use of the transgenic line with altered endogenous CK content allowed us to conclude about the role of CKs in the process. Conclusions: Our study represents the first analysis aiming to understand the initiation and development of CRs in barley.

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Project description:This study’s objective was to elucidate plant modifications and crown-specific transcriptome re-modeling that takes place in gibberellin-deficient barley sdw1 NILs exposed to increased temperatures. Experiments were designed to determine whether the phenotypic expression of sdw1 mutants is influenced by the allele-specific expression of the HvGA20ox2 gene or by wider genetic background variance and environmental cues. To achieve this goal, plants were examined considering phenotypic properties, physiological responses, and genomic constitution using high-throughput genotyping and sdw1 gene sequencing. We also employed the mRNA-seq method to acquire transcriptome-wide characterization of the crown tissue and provide new insights into the expression profiles of heat- and gibberellin-related genes.

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RNA-seq data from crown tissue of cultivated two-row European spring barley genotypes

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Expression data from barley under salinity stress and JA treatment

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