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Solanum torvum transcriptional responses to nematodes

ABSTRACT: Solanum torvum Sw is worldwide employed as rootstock for eggplant cultivation because of its vigour and resistance/tolerance to the most serious soil-borne diseasesas bacterial, fungal wilts and root-knot nematodes. A 30,0000 features custom combimatrix chip was designed and microarray hybridizations were conducted for both control and 14 dpi (day post inoculation) with Meloidogyne incognita-infected roots samples. We also tested the chip with samples from the phylogenetically-related nematode-susceptible eggplant species Solanum melongena.The genes identified from S. torvum catalogue, bearing high homology to knownnematode resistance genes, were further investigated in view of their potential role in the nematode resistance mechanism.

ORGANISM(S): Solanum virginianum Solanum torvum

PROVIDER: GSE47008 | GEO | 2013/11/01

SECONDARY ACCESSION(S): PRJNA203270

REPOSITORIES: GEO

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Solanum torvum transcriptional responses to nematodes

Project description:Solanum torvum Sw is worldwide employed as rootstock for eggplant cultivation because of its vigour and resistance/tolerance to the most serious soil-borne diseasesas bacterial, fungal wilts and root-knot nematodes. A 30,0000 features custom combimatrix chip was designed and microarray hybridizations were conducted for both control and 14 dpi (day post inoculation) with Meloidogyne incognita-infected roots samples. We also tested the chip with samples from the phylogenetically-related nematode-susceptible eggplant species Solanum melongena.The genes identified from S. torvum catalogue, bearing high homology to knownnematode resistance genes, were further investigated in view of their potential role in the nematode resistance mechanism. total RNA was extracted from control and 14 days post-infection (infection with root-knot nematode Meloidogyne incognita) from roots of Solanum torvum and Solanum melongena. Three biological replicates were used for each condition and genotype for a total of 12 samples.

2013-11-01 | E-GEOD-47008 | biostudies-arrayexpress

MELOHOSTRACE: Whole genome polymorphism across Meloidogyne incognita isolates showing different biological traits

Project description:High-coverage whole genome sequencing of 11 Brazilian isolates of the root-knot nematode Meloidogyne incognita, presenting different host plant preferences and different geographical origins. Four M. incognita host races had been proposed in the past, based on host (in)compatibility on four different plant strains. The objective was to assess whether genomic variations (SNP) correlate with host range compatibility, geographical origin and host plant of origin.

2019-07-10 | GSE116847 | GEO

RNA-seq of Arabidopsis thaliana Col-0 and opr2-1 mutants over four timepoints and (mock)infection with Meloidogyne incognita

Project description:We compared the gene expression of wild-type Col-0 and a T-DNA mutant SALK_116381C (opr2-1). We either infected or mock-infected the plants with the root knot nematode Meloidogyne incognita and measured the root transcriptome after 0, 1, 4, and 7 days post infection using RNA-seq. The aim of the experiment was to determine whether opr2-1 affected gene expression patterns induced by nematode infection.

2022-12-24 | E-MTAB-11583 | biostudies-arrayexpress

Identification of Novel and Conserved MicroRNAs of Root-knot Nematode Using a Deep-sequencing Approach

Project description:111,556,278 high-quality reads were obtained by a deep-sequencing approach that show an exact match to the genome of Meloidogyne incognita from the library of J2 juveniles of M. incognita (Mi). Based on these Solexa reads, 89 M. incognita microRNA genes were identified, which grouped into 67 non-redundant miRNAs with mature sequences. All of these candidate miRNAs were confirmed by qRT-PCR, and 26 of them could be detected in the library of the galls of cucumber root infected by M. incognita (GC). MiR-100 was found in a cluster with let-7, which is similar with B. malayi, a human parasitic nematode. Based on the results of deep sequencing, the expression of miR-100 was much more abundant than that of let-7, which indicated that they may not be co-expressed. The ortholog of let-7, a key regulator that controls the nematode from L4 to adult in C. elegans, could be frequently sequenced in the GC library, the later stages of development of M. incognita, while it had a relative low expression level in J2, which indicated that let-7 may have a similar role in the development regulation in plant parasitic nematodes. Frequently sequenced microRNAs, including miR-71, miR-100 and miR-124, should play an important role in the growth and proliferation of M. incognita. Identifying microRNAs of M. incognita based on deep-sequencing of the small RNAs of an Mi library, the J2 juveniles, and comparing their expression levels with those in a GC library, the gall of cucumber root infected with M. incognita.

2011-07-21 | E-GEOD-24833 | biostudies-arrayexpress

Identification of Novel and Conserved MicroRNAs of Root-knot Nematode Using a Deep-sequencing Approach

2011-07-21 | GSE24833 | GEO

Identification of Novel and Conserved MicroRNAs of Root-knot Nematode Using a Deep-sequencing Approach

2011-07-21 | GSE24833 | GEO

Project description:Temporal dynamics in Meloidogyne incognita infected eggplant roots

| PRJNA614519 | ENA

Meloidogyne incognita RNA-seq

Project description:We mainly descibed expression of genes of Meloidogyne incognita second stage juveniles under starvation stress

2022-03-02 | GSE168150 | GEO

Profile of Animal Cell Death Gene Expressing Nicotiana tabacum

Project description:Transgenic tobacco (Nicotiana tabacum) expressing Caenorhabditis elegans cell death genes, Ced4 and Ced3, show evidence suggesting such expressions protect the plants from infestation by the plant parasitic nematode Meloidogyne incognita. Although positive results have been correlated with the gene expressions (data in preparation for publication; a draft of the publication can be provided upon request), the mechanism by which the nematode protection is manifested is not clearly understood. One possibility is that the C. elegans cell death proteins produced by the transgenic plants are being ingested and incorporated into the nematode’s own cell death pathway, leading to their demise. Alternatively, it is also possible that expression of the C. elegans cell death genes promotes the endogenous resistance genes of the plant, leading to nematode resistance. We want to test the later hypothesis by conducting a reference design microarray experiment to establish the expression profile of Ced3, and Ced4 homozygous plants and Ced3xCed4 double heterozygous plants in comparison with wild-type tobacco plants. If the hypothesis is correct, we expect to detect increased expression of pathogenicity-related genes in the transgenic plants. Furthermore, characterization of the expression profiles in these transgenic plants will provide us directionality for our future research on the elucidation of this resistance mechanism. Keywords: Reference design 27 hybs total

2007-09-01 | E-GEOD-8277 | biostudies-arrayexpress

Profile of Animal Cell Death Gene Expressing Nicotiana tabacum

2007-09-01 | GSE8277 | GEO

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