GEO DataSets

(Submitter supplied) We reported the small RNA profiles of disease free and SLCMV infected leaves of susceptible and tolerant genotypes of cassava. The sRNA data generated through high throughput small RNA sequencing revealed critical regulatory role of host and pathogen derived small RNAs during SLCMV infection.

Organism:

Manihot esculenta

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL21982

3 Samples

Download data: FA

(Submitter supplied) Small RNA (sRNA)-guided RNA silencing is a critical antiviral defense mechanism employed by a variety of eukaryotic organisms. Although the induction of RNA silencing by bipartite and monopartite begomoviruses has been described in plants, the nature of begomovirus/betasatellite complexes remains undefined. We profiled Tomato yellow leaf curl China virus (TYLCCNV) and its associated betasatellite (TYLCCNB)-derived small RNAs (V-sRNAs and S-sRNAs) using Solexa-based deep sequencing to evaluate the role of betasatellites in V-sRNA modulation. more...

Organism:

Tomato yellow leaf curl China virus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL11369

5 Samples

Download data: TXT

(Submitter supplied) Small RNA libraries of 4 different mycovirus-infected and -free isogenic lines of A. fumigatus were constructed using Scriptminer adapters. sRNAomes were analysed and putative virus-derived small RNAs were identified.

Organism:

Aspergillus fumigatus

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18295

16 Samples

Download data: CSV

(Submitter supplied) Small RNA libraries of three different mycovirus-infected A. fumigatus isolates were constructed by using Illumina high definition adapters. sRNAomes were analysed and putative virus-derived small RNAs were identified.

Organism:

Aspergillus fumigatus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18295

3 Samples

Download data: CSV

(Submitter supplied) Cassava mosaic disease caused by cassava begomoviruses is the most serious disease of cassava in Africa. However, the molecular mechanisms leading to symptom development of infected cassava plants are poorly understood. Here a high throughput digital gene expression profiling (DGE) based on Illumina Solexa sequencing technology was used to investigate the global transcriptional response of cassava to the African cassava mosaic virus infection. more...

Organism:

Manihot esculenta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17194

2 Samples

Download data: TXT

(Submitter supplied) The tissues of male flowers, female flowers and hermaphrodite are collected and stored in liquid nitrigen immediately. Total RNA was isolated from male, hermaphrodite, and female flowers using the Trizol reagent (Invitrogen USA). Low molecular weight RNA was enriched from the total RNA by precipitating with 0.4M NaCl and polyethylene glycol (PEG). The enriched low molecular weight RNA was then separated on a denaturing 15% polyacrylamide gel. more...

Organism:

Carica papaya

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL13438

6 Samples

Download data: TXT

(Submitter supplied) In response to infection, viral genomes are processed by Dicer-like (DCL) ribonuclease proteins into viral small RNAs (vsRNAs) of discrete sizes. vsRNAs are then used as guides for silencing the viral genome. The profile of vsRNAs produced during the infection process has been extensively studied for some group of viruses. However, nothing is known for members of the economically important family Luteoviridae, a group of phloem-restricted viruses. more...

Organism:

Gossypium hirsutum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL14001

3 Samples

Download data: TXT

(Submitter supplied) microRNAs can play a crucial role in stress response in plants, including biotic stress. Some miRNAs are known to respond to bacterial infection. This work has addressed the role of miRNAs in Manihot esculenta (cassava)-Xanthomonas axonopodis pv. manihotis (Xam) interaction. Illumina sequencing was used for analyzing small RNA libraries from cassava tissue infected and non-infected with Xam. Cassava variety MBRA685 (resistant to Xam-CIO151) Six-week-old plants were inoculated with 36h-old cultures of the aggressive Xanthomonas axonopodis pv. more...

Organism:

Manihot esculenta

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL13617

2 Samples

Download data: FASTA

(Submitter supplied) We have investigated short and small RNAs (sRNAs) that were bound to a biologically active hexahistidine-tagged Potato virus Y (PVY) HCPro suppressor of silencing, expressed from a heterologous virus vector in Nicotiana benthamiana plants, and purified under non-denaturing conditions. We found that RNAs in purified preparations were differentially enriched in sRNAs of 21 and to a much lesser extent of 22 nucleotides (nt) in length and of viral sequence (vsRNAs) when compared to those found in a control plant protein background bound to the nickel resin in the absence of HCPro, or in a purified alanine substitution HCPro mutant (HCPro mutB) control that lacked suppressor of silencing activity. more...

Organism:

Nicotiana benthamiana

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17448

6 Samples

Download data: TXT

(Submitter supplied) The sRNA profiles of the leaf and the root of 20-day-old plants were sequenced and the impacts of high energy status on sRNA expression were analyzed

Organism:

Arabidopsis thaliana

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL13222

8 Samples

Download data: FA

(Submitter supplied) The powdery mildew fungus, Blumeria graminis, is an obligate biotrophic pathogen of cereals and has significant impact on food security (Dean et al., 2012. Molecular Plant Pathology 13 (4): 414-430. DOI: 10.1111/j.1364-3703.2011.00783.x). Blumeria graminis f. sp. hordei (Bgh) is the causal agent of powdery mildew on barley (Hordeum vulgare L.). We sought to identify small RNA-derived transcript cleavage sites from both barley and Bgh that regulate gene expression at the post-transcriptional level both within species and cross-kingdom.

Organism:

Hordeum vulgare; Blumeria hordei

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL23699

5 Samples

Download data: CSV, PDF

(Submitter supplied) Purpose: The powdery mildew fungus, Blumeria graminis, is an obligate biotrophic pathogen of cereals and has significant impact on food security (Dean et al., 2012. Molecular Plant Pathology 13 (4): 414-430. DOI: 10.1111/j.1364-3703.2011.00783.x). Blumeria graminis f. sp. hordei (Bgh) is the causal agent of powdery mildew on barley (Hordeum vulgare L.). We sought to identify small RNAs (sRNAs) from both barley and Bgh that regulate gene expression both within species and cross-kingdom.

Organism:

Blumeria hordei; Hordeum vulgare

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL23699

90 Samples

Download data: CSV, PDF

(Submitter supplied) Purpose: The powdery mildew fungus, Blumeria graminis, is an obligate biotrophic pathogen of cereals and has significant impact on food security (Dean et al., 2012). B. graminis f. sp. hordei (Bgh) is the causal agent of powdery mildew on barley (Hordeum vulgare L.). We sought to address the temporal regulation of membrane trafficking associated gene expression in barley-powdery mildew interactions. more...

Organism:

Hordeum vulgare; Blumeria hordei

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23699

90 Samples

Download data: CSV, PDF

(Submitter supplied) Comparative Genomic and Transcriptomic Characterization of Colistin-Resistant Acinetobacter baumannii

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19442

8 Samples

Download data: XLSX