Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAseq of light quality responses in barley

ABSTRACT: RNAseq transcriptome assembly and expression profiling of 3 barley varieties (Price, WA1614-95 and Esterel) with different sensitivity to light quality conditions, grown under Metal halide and Fluorescent bulbs.

PROVIDER: PRJEB35759 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3763270_1.fastq.gz	Fastqsanger.gz
	ERR3763270_2.fastq.gz	Fastqsanger.gz
	ERR3763271_1.fastq.gz	Fastqsanger.gz
	ERR3763271_2.fastq.gz	Fastqsanger.gz
	ERR3763262_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 36

Similar Datasets

Transcriptional analysis in multiple barley varieties identifies signatures of waterlogging response

Project description:Waterlogging leads to major crop losses globally, particularly for waterlogging sensitive crops such as barley. Waterlogging reduces oxygen availability and results in additional stresses, leading to the activation of hypoxia and stress response pathways that promote plant survival. Although certain barley varieties have been shown to be more tolerant to waterlogging than others and some tolerance-related QTLs have been identified, the molecular mechanisms underlying this trait are mostly unknown. Transcriptomics approaches can provide very valuable information for our understanding of waterlogging tolerance. Here, we surveyed 21 barley varieties for the differential transcriptional activation of conserved hypoxia-response genes under waterlogging, and selected five varieties with different levels of induction of core hypoxia-response genes. We further characterized their phenotypic response to waterlogging in terms of shoot and root traits. RNA-sequencing to evaluate the genome-wide transcriptional responses to waterlogging of these selected varieties led to the identification of a set of 98 waterlogging-response genes common to the different datasets. Many of these genes are orthologs of the so-called ‘core hypoxia response genes’, thus highlighting the conservation of plant responses to waterlogging. Hierarchical clustering analysis also identified groups of genes with intrinsic differential expression between varieties prior to waterlogging stress. These genes could constitute interesting candidates to study ‘predisposition’ to waterlogging tolerance or sensitivity in barley.

2023-07-29 | GSE220532 | GEO

Transcriptome analysis of three barley varieties in response to barley yellow mosaic disease

Project description:We used a transcriptome sequencing approach to analyze different expression levels of three barley varieties under both infected and uninfected conditions

2023-05-24 | GSE225976 | GEO

Genome-Wide Analysis of the MADS-box Gene Family Involved in Salt and Waterlogging Tolerance in Barley (Hordeum Vulgare. L)

Project description:To investigate the salt and waterlogging mechanism of barley, we chose salt and waterlogging sensitive and tolerant varieties as subjects. We then performed gene expression profiling analysis using data obtained from RNA-seq of two varieties at two three points.

2023-05-31 | GSE230751 | GEO

Expression data from malting barley seeds

Project description:Malting is seed germination under strictly controlled environmental conditions. Malting quality is a complex phenotype that combines a large number of interrelated components, each of which shows complex inheritance. Currently, only a few genes involved in determining malting quality have been characterized. This study combined transcript profiling with phenotypic correlations to identify candidate genes for malting quality. We used the Barley1 GeneChip® array to identify differentially expressed genes in four malting stages relative to dry seed in the barley variety Morex, and to identify differentially expressed genes among four barley varieties. Keywords: time course and genotype differences

2009-03-05 | GSE11200 | GEO

Genome sequencing of 22 Pseudomonas isolates from the rhizosphere of the barley variety Chevallier and 20 Psuedomonas isolates from the rhizosphere of the barley variety Tipple.

Project description:Chevallier is a heritage english landrace of barley first planted in 1820 while Tipple is modern cultivar of barley released in 2004. Pseudomonas strains were isolated from the rhizospheres of the two varieties and 22 and 20 of the most phylogenetically distinct ones were sequenced to find out the difference in genotypes preferentially selected in the rhizospheres of the two cultivars.

2023-06-15 | E-MTAB-12917 | biostudies-arrayexpress

RNA-Seq of Pseudomonas fluorescens SBW25 isolated from axenic rhizospheres of the barley varieties Chevallier and Tipple one and five days post-inoculation.

Project description:Pseudomonas fluorescens SBW25 cultures were inoculated into the rhizospheres of barley seedlings of the Chevallier and Tipple varieties growing in axenic cultures. Bacterial cells were collected from the rhizosphere one and five days after inculation and RNA extracted from them. Culture used for inoculation (but not exposed to the rhizospheres) were used as control. The aim of the experiment was to determine the changes in gene expression of P. fluorescens SBW25 upon exposure to barley rhizosphere and also to determine if the rhizospehres of the two varieties of Barley had different effects on gene expression of P. fluorescens SBW25.

2023-05-15 | E-MTAB-12918 | biostudies-arrayexpress

Next generation sequencing reveals gene transcription activities and alternative splicing events in germinating barley embryos

Project description:Seed germination triggers a transition of growth and metabolic activities from quiescent to active statuses. Germinating seeds is a good system to study many biological and biochemical processes including hormone metabolic activities and cell wall biosynthesis. Next generation sequence technology is used to study these processes. We have examined gene transcription activities and alternative splicing events in germinating embryos We dissected barley embryos from four barley varieties at 2 time points 24 h and 48 h

2016-02-18 | E-GEOD-66024 | biostudies-arrayexpress

Effect of varying illumination

Project description:Rhodobacter sphaeroides 2.4.1 illuminated with either lumiline bulbs at 10W/m2 or tungsten bulbs at 100W/m2. Sparged with 95%N/5%CO2. Keywords: other

2003-04-21 | GSE139 | GEO

Transcriptome analysis of three barley varieties in response to barley yellow mosaic disease

Project description:Transcriptome analysis of three barley varieties in response to barley yellow mosaic disease

| PRJNA938131 | ENA

Microarray of barley genes in wheat-barley chromosome addition lines

Project description:Transcript levels of barley genes were examined in the wheat-barley chromosome addition lines having one of six barley chromomes, 2H, 3H, 4H, 5H, 6H and 7H. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Seungho Cho. The equivalent experiment is BB8 at PLEXdb.]

2011-11-22 | GSE33415 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data