Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hordeum vulgare

ABSTRACT: The primary transcriptome of barley (Hordeum vulgare L.) chloroplasts

PROVIDER: PRJNA148387 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR384896.fastq.gz	Fastqsanger.gz
	SRR384897.fastq.gz	Fastqsanger.gz
	SRR384898.fastq.gz	Fastqsanger.gz
	SRR384899.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

The primary transcriptome of barley (Hordeum vulgare L.) chloroplasts

Project description:Gene expression in plastids of higher plants is dependent on two different transcription machineries, a plastid-encoded bacterial-type RNA polymerase (PEP) and a nuclear-encoded phage-type RNA polymerase (NEP), which recognize distinct types of promoters. The division of labor between PEP and NEP during plastid development and in mature chloroplasts is unclear due to a lack of comprehensive information on promoter usage. Here we present a thorough investigation into the distribution of PEP and NEP promoters within the plastid genome of barley (Hordeum vulgare L). Using a novel differential RNA sequencing approach, which discriminates between primary and processed transcripts, we obtained a genome-wide map of transcription start sites in plastids of mature first leaves. PEP-lacking plastids of the albostrians mutant allowed for the unambiguous identifications of NEP promoters. We observed that the chloroplast genome contains many more promoters than genes. According to our data, most genes (including genes coding for photosynthesis proteins) have both PEP and NEP promoters. We also detected numerous transcription start sites within operons indicating transcriptional uncoupling of genes in polycistronic gene clusters. Moreover, we mapped many transcription start sites in intergenic regions, as well as opposite to annotated genes demonstrating the existence of numerous non-coding RNA candidates.

2011-11-23 | GSE33773 | GEO

The primary transcriptome of barley (Hordeum vulgare L.) chloroplasts

2011-11-23 | E-GEOD-33773 | biostudies-arrayexpress

RNA-Seq data analysis of Hordeum vulgare cv. Morex transcriptome to study photomorphogenesis

Project description:Hordeum vulgare is one of the first domesticated grains in the world and it has been reported that variations in the light environment have a substantial effect on barley plant development and biological processes. High-throughput RNA-Seq study was performed to investigate the complex transcriptome network required for photomorphogenesis in barley. Seedlings were grown in dark and light conditions and three biological replicates were sampled from each condition. Six libraries from poly-A rich mRNA fraction were subjected to 51bp single-end RNA-seq sequencing.

2022-12-02 | E-MTAB-5721 | biostudies-arrayexpress

Transcription profiling time series of leaves from Hordeum vulgare Ingrid infected with Puccinia hordei and Puccinia triticana

Project description:Time course: Interaction of Puccinia hordei with Hordeum vulgare, Ingrid (leaf) and Puccinia triticana with Hordeum vulgare, Ingrid (leaf)

2009-04-01 | E-IPKG-6 | biostudies-arrayexpress

RNA sequencing of Hordeum vulgare near isogenic lines

Project description:NILs containing five parental lines, three wild barley genotypes ssp. spontaneum: HID 4 (A), Iraq; HID 64 (B), Turkey; and HID 369 (C), Israel, one ssp. agriocrithon: HID 382(D)) and cv. Morex (ssp. vulgare, USA). Purpose: Variant calling to identifie markers associated with a awn length QTL on the distal part of chromosome 7HL

2017-03-08 | GSE85338 | GEO

Transcription profiling by microarray of barley mutant (G132) and its wild type (Hordeum vulgare cv. Graphic) under high CO2 concentration

Project description:This experiment showed the microarray expression of a barley recessive mutant (G132) and its wild type (Hordeum vulgare cv. Graphic) under high CO2 concentration. The homozygous mutation has a strong pleiotropic nature affecting many aspects of plant. In order to identify target genes of this mutation, changes in gene expression of mutant and its responses to elevated CO2 were compared to wild type.

2017-02-07 | E-MTAB-4942 | biostudies-arrayexpress

Hordeum vulgare

Project description:Barley (Hordeum vulgare L.) RNA raw sequence reads

| PRJNA830613 | ENA

Transcription profiling time series of leaf epidermis from Hordeum vulgare Ingrid infected with Magnaporthe isolate TH6772 and Magnaporthe isolate CD180

Project description:Time course: Interaction of Magnaporthe isolate TH6772 (of the host plant rice) with Hordeum vulgare, Ingrid (leaf epidermis) and Magnaporthe isolate CD180 (of Pennisetum) with Hordeum vulgare, Ingrid (leaf epidermis)

2009-06-10 | E-IPKG-9 | biostudies-arrayexpress

Transcription profiling time series of leaves from Hordeum vulgare, Ingrid infected with Blumeria graminis f. sp. hordei or Blumeria graminis f. sp. tritici

Project description:Time course: Interaction of Blumeria graminis f. sp. hordei with Hordeum vulgare, Ingrid (leaf) and Blumeria graminis f. sp. tritici with Hordeum vulgare, Ingrid (leaf)

2009-06-10 | E-IPKG-7 | biostudies-arrayexpress

H3K27me3 ChIP-seq on 16 days after pollination endosperm of cultivated barley

Project description:To provide comprehensive spatiotemporal information about biological processes in developing grains of cultivated barley (Hordeum vulgare subsp. vulgare), we performed a chromatin immunoprecipitation of H3K27me3 followed by high-throughput sequencing (ChIP-seq) in barley endosperm at 16 days after pollination.

2023-07-26 | GSE238237 | 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