GEO DataSets

(Submitter supplied) RKNs are economically most damaging, obligate sedentary endoparasites that form giant cells within host roots to obtain nutrition and complete their life cycle. We report genome-wide identification of miRNAs from both host and RKN using RKN-infected susceptible tomato roots through high-throughput sequencing. Eleven small RNA libraries were made from five disease development stages, their five corresponding uninfected development stages and uninfected development stage 0. more...

Organism:

Solanum lycopersicum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16345

11 Samples

Download data: TXT

(Submitter supplied) Purpose: To understand the molecular mechanisms involved in disease development during plant-nematode interactions. Methods: We have taken a comprehensive transcriptomic approach to investigate the expression of both tomato and RKN genes in tomato roots at five infection time points from susceptible plants (PR: Pusa Ruby) and two infection time points from resistant plants (M36: Transgenic MM line), grown under soil conditions. more...

Organism:

Meloidogyne incognita; Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22563

34 Samples

Download data: BW, TAB

(Submitter supplied) By sequencing small RNAs from uninfected Arabidopsis roots and from galls seven and 14 days post infection with Meloidogyne incognita, we sequenced by SOLiD technology the RNA fraction below 50nt. We identified 24 miRNAs differentially expressed in gall as putative regulators of gall development.

Organism:

Arabidopsis thaliana; Meloidogyne incognita

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL23626 GPL16033 GPL23625

15 Samples

Download data: TXT

(Submitter supplied) Root-knot nematodes (RKN; Meloidogyne spp.) are sedentary parasites that affect a high variety of plants with a negative impact in the production of crops such as tomato. The infective RKN induces in the roots 4-7 highly specialized feeding cells (giant cells, GCs) developed into a hypertrophy cellular tissue or visible root swelling called “gall”. During GCs differentiation drastic alterations in genes expression occurs. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL13739

20 Samples

Download data: GPR

(Submitter supplied) Purpose: MicroRNAs (miRNAs) are ubiquitous components of endogenous plant transcriptome. miRNAs are small, single-stranded and ~21 nt long RNAs which regulate gene expression at the post-transcriptional level and are known to play essential roles in various aspects of plant development and growth. Previously, a number of miRNAs have been identified in potato through in silico analysis and deep sequencing approach. more...

Organism:

Solanum tuberosum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL15787

7 Samples

Download data: TXT

(Submitter supplied) The biocontrol agent Pythium oligandrum, which is a member of phylum Oomycota, can control diseases caused by a taxonomically wide range of plant pathogens, including fungi, bacteria, and oomycetes. However, whether P. oligandrum could control diseases caused by plant root-knot nematodes (RKNs) was unknown. We investigated a recently isolated P. oligandrum strain GAQ1, and the P. oligandrum CBS530.74 strain, for the control of RKN Meloidogyne incognita infection of tomato (Solanum lycopersicum L.). more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27957

6 Samples

Download data: TXT

(Submitter supplied) The RNA-seq was used to identify differentially regulated miRNAs between a male sterile and wild type tomato during anther development.

Organism:

Solanum lycopersicum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16345

2 Samples

Download data: CSV

(Submitter supplied) We mainly descibed expression of genes of Meloidogyne incognita second stage juveniles under starvation stress

Organism:

Meloidogyne incognita

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29804

6 Samples

Download data: TXT

(Submitter supplied) Cyclophilin A/DIAGEOTROPICA (DGT) has been linked to auxin-regulated development in tomato and appears to affect multiple developmental pathways. Loss of DGT function results in a pleiotropic phenotype that is strongest in the roots, including shortened roots with no lateral branching. Here, we present an RNA-Seq dataset comparing the gene expression profiles of wildtype (Ailsa Craig variety) and dgt tissues from three spatially separated developmental stages of the root tip (differentiation zone, elongation zone, and meristem), with three replicates for each tissue and genotype.

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16345

18 Samples

Download data: TXT