Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Elm stem transcriptome data

PROVIDER: PRJNA785411 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17089961_1.fastq.gz	Fastqsanger.gz
	SRR17089961_2.fastq.gz	Fastqsanger.gz
	SRR17089962_1.fastq.gz	Fastqsanger.gz
	SRR17089962_2.fastq.gz	Fastqsanger.gz
	SRR17089963_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Project description:Transcriptome data of elm leaves

| PRJNA785482 | ENA

Transcriptomic basis for reinforcement of elm anti-herbivore defense mediated by insect egg deposition

Project description:In this study we applied RNA-sequencing to a set of larvae-challenged elm trees that had either been untreated before or been exposed to prior egg deposition by elm leaf beetles. This dataset allowed us to characterize the global transcriptional response of egg-primed and non-primed elm trees at different time points after the priming stimulus itself and after the onset of larval feeding.

2018-10-04 | GSE77985 | GEO

Molecular response of Atinian elm during vessel invasion by vascular pathogen Ophiostoma novo-ulmi

Project description:6-year-old ramets of U. minor (Atinian elm clone) were inoculated with O. novo-ulmi in order to evaluate molecular responses activated during plant colonization. To elucidate the different genes involved in the U. minor immune system and the molecular changes suffered after inoculation, oligomicroarrays were constructed using the data from the transcriptome available in the Dryad database (Perdiguero et al., 2015; http://dx.doi.org/10.5061/dryad.ps837), and hybridized with cDNA obtained from the ramets over a time course following inoculation. Three biological replicates for control and inoculated plants for each sampling point (1, 3, 7, 14 and 21 days post-inoculation) were hybridised using two colors (inoculated vs control).

2017-12-31 | E-MTAB-5654 | biostudies-arrayexpress

Cicer arietinum

Project description:Transcriptome analysis of elm mutant

| PRJNA961966 | ENA

Equilibrium between anatomical structures and molecular responses underlie differential strategies to face Ophiostoma novo-ulmi in two tolerant Iberian elm genotypes

Project description:Five years old Ulmus minor plants from three different genotypes, two tolerant and one sensitive to Dutch Elm disease, were inoculated with an aggressive local strain of Ophiostoma novo-ulmi (Z-BU1) while the other half were inoculated with sterile and distilled water as control treatment. following the procedure described by Solla et al. (2005). A healthy 3-year-old branch located around 2 meters tall, from both inoculated and control plants, were collected at 1, 3, 7, 14 and 21 days after inoculation. The stem from the branch was individualized and RNA isolated to hybridize two colors microarrays.

2023-06-29 | E-MTAB-9165 | biostudies-arrayexpress

ilCarFugi

Project description:Carpatolechia fugitivella (elm groundling), genomic and transcriptomic data

| PRJEB61342 | ENA

ilAclKoch

Project description:Acleris kochiella (elm button), genomic and transcriptomic data

| PRJEB71293 | ENA

drUlmGlab

Project description:Ulmus glabra (Wych elm), genomic and transcriptomic data

| PRJEB73638 | ENA

drUlmMino

Project description:Ulmus minor (field elm), genomic and transcriptomic data

| PRJEB81849 | ENA

ELM-seq - A reporter system coupled with high-throughput sequencing unveils key bacterial transcription and translation determinants

Project description:Quantitative analysis of the sequence determinants of transcription and translation regulation is of special relevance for systems and synthetic biology applications. Here, we developed a novel generic approach for the fast and efficient analysis of these determinants in vivo. ELM-seq (expression level monitoring by DNA methylation) uses Dam coupled to high-throughput sequencing) as a reporter that can be detected by DNA-seq. We used the genome-reduced bacterium Mycoplasma pneumoniae to show that it is a quantitative reporter. We showed that the methylase activity correlates with protein expression, does not affect cell viability, and has a large dynamic range (~10,000-fold). We applied ELM-seq to randomized libraries of promoters or 5’ untranslated regions. We found that transcription is greatly influenced by the bases around the +1 of the transcript and the Pribnow box, and we also identified several epistatic interactions (including the +1 and the “extended Pribnow”). Regarding translation initiation, we confirmed that the Shine-Dalgarno motif is not relevant, but instead, that RNA secondary structure is the main governing factor. With this in hand, we developed a predictor to help tailor gene expression in M. pneumoniae. The simple ELM-seq methodology will allow identifying and optimizing key sequence determinants for promoter strength and translation. The ELM-seq methodology allows both researchers and companies to identify and optimize in an easy and comprehensive manner, key sequence determinants for promoter strength and translation.

2017-08-29 | PXD005606 | Pride

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