Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Translation initiation landscape of tomato-infecting virus

ABSTRACT: Translation initiation landscape of tomato-infecting virus

PROVIDER: PRJNA674822 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12992424.fastq.gz	Fastqsanger.gz
	SRR12992425.fastq.gz	Fastqsanger.gz
	SRR12992426.fastq.gz	Fastqsanger.gz
	SRR12992427.fastq.gz	Fastqsanger.gz
	SRR12992428.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Translation initiation landscape of tomato-infecting virus

Project description:We report the global profile of ribosome profilig to reveal the in vivo translation initiation sites of tomato-infecting virus.

2022-05-04 | GSE160907 | GEO

The landscape of mRNA translation in tomato roots

Project description:The landscape of mRNA translation in tomato roots

| PRJNA514710 | ENA

The landscape of mRNA translation in tomato roots

Project description:We used Ribo-seq (Ribosome profiling) combining with RNA-seq to explore the translational landscape of tomato roots. We generated three biological replicates of RNA-seq and Ribo-seq data for tomato roots. We next used the RNA-seq result for de novo transcriptome assembly and Ribo-seq to identify novel translated open reading frames (ORFs). Our data revealed more than three hundreds of novel translated ORFs on previously unannotated transcripts. Most of the newly identified ORFs are small and difficult to detect with in silico methods. We also identified over thirteen hundreds of upstream ORFs on annotated genes. This data could facilitate gene annotation. Besides, this data also demonstrated that uORFs, miRNAs and antisense RNAs are regulating the expression of associated genes. This study uncovered mechanisms of translational regulation and gene annotation in tomato.

2019-07-05 | GSE124962 | GEO

Synonymous codon usage regulates translation initiation

Project description:Synonymous codon usage regulates translation initiation

| PRJNA837608 | ENA

Deep sequencing reveals mRNA recruitment in translation initiation

Project description:We studied the initiation signals located in the translational initiation region (TIR) and identified the role for recognition of the initiation signals in each individual stage during formation of the initiation complexes. Sequencing the randomized mRNA libraries captured by translation initiation complexes

2016-07-27 | E-GEOD-69782 | biostudies-arrayexpress

Programmable mRNA translation initiation by trans-RNA

Project description:Programmable mRNA translation initiation by trans-RNA

| PRJNA1163724 | ENA

Synonymous codon usage regulates translation initiation

Project description:Ribo-seq with firefly luciferase optimality reporters to determine whether incomplete translation and/or inhibited translation initiation is responsible for the reduced ribosome occupancy on nonoptimal transcripts.

2022-05-16 | GSE202900 | GEO

Glucose depletion inhibits translation initiation in yeast - transcription profiling

Project description:This is a transcription profiling study on yeast undergoing glucose depletion. It reveals that glucose depletion inhibits translation initiation in a mechanism involving eIF4A loss and 48S pre-initiation complex accumulation, while the pentose phosphate pathway is co-ordinately up-regulated

2011-11-11 | E-MEXP-3037 | biostudies-arrayexpress

Constitutive activation of the receptor-like kinase NIK impairs translation and confers tolerance to begomovirus infection

Project description:To generate an efficient defense against begomovirus, we modulated the activity of the immune defense receptor NIK (NSP-Interacting Kinase) in tomato plants; NIK is a virulence target of the begomovirus NSP during infection. Replacing threonine-474 with aspartate (T474D) within the kinase activation loop promoted the constitutive activation of NIK-mediated defenses. This activation resulted in the down-regulation of translation-related genes and the suppression of global translation in T474D-overexpressing tomato lines. We also found that T474D-induced defense-related transcripts were associated with polysomes and immune proteins, which accumulated to detectable levels in T474D leaves. Consistent with these findings, T474D transgenic lines were tolerant to the tomato-infecting begomoviruses ToYSV and ToSRV. We propose that NIK mediates an anti-viral response via translation suppression and immune system induction. Global variation on gene expression induced by NIK expression and virus infection using total RNA from mock-inoculated and ToYSV-infected tomato wild-type plants, mock-inoculated and infected 35S::NIK1-4 overexpressing lines and mock-inoculated and infected 35S::T474D overexpressing lines. File map_itag23.csv correlates the ITAG 2.3 cDNA ID with the 21 bp reads in file Profiles_with_differential_expressions.csv.

2013-12-17 | E-GEOD-38028 | biostudies-arrayexpress

Constitutive activation of the receptor-like kinase NIK impairs translation and confers tolerance to begomovirus infection

2013-12-17 | GSE38028 | GEO