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Solanaceae comparative gene expression profiling

ABSTRACT: Solanaceae comparative gene expression profiling

OTHER RELATED OMICS DATASETS IN: GSE3380

PROVIDER: PRJNA93511 | ENA |

REPOSITORIES: ENA

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Solanaceae comparative gene expression profiling

Project description:Solanaceae comparative gene expression profiling

| PRJNA101167 | ENA

Solanaceae comparative gene expression profiling

Project description:Six different Solanaceae species, Potato (Solanum tubersosum), Tomato (Lycopersicum esculentum), Pepper (Capsicum annuum), Tobacco (Nicotiana tabaccum), Petunia and Nicotiana benthiamana were grown at 25C, 16h light and 8h darkness. Mature leaves were harvested after 4-6 weeks. RNA was isolated using Qiagen RNeasy. Tomato, pepper, petunia, tobacco and N. benthamiana samples were hybridized against potato samples. Keywords: Solanaceae comparative gene expression profiling

2005-10-03 | GSE3380 | GEO

Genome-wide comparative analysis in Solanaceae plants reveals evolution of novel miRNAs targeting defense genes in Capsicum spp.

Project description:Background: MicroRNAs (miRNAs) play roles in various biological processes including growth, development, and defense in plants. Recent studies revealed that some plant miRNAs could produce secondary small interfering RNAs (siRNAs) such as phased, secondary siRNAs (phasiRNAs) and they regulate cascade of gene expression. Results: We performed genome-wide comparative analysis of miRNAs and their targets in Solanaceae plants in an evolutionary perspective. miRNAs were mapped onto 12 chromosomes and microsynteny analysis, based on miRNAs and their flanking genes, revealed about 86% of conserved miRNAs in pepper maintained synteny with those of tomato or potato. Degradome analysis revealed that many of genes related to transcription or defense response are regulated by miRNAs in Solanaceae plants. We found several miRNAs in pepper targeting a number of genes encoding nucleotide-binding and leucine rich repeat (NLR) or receptor-like protein (RLP), known as major players in defense responses. In addition, resistance-related miRNAs trigger phasiRNA production indicating amplification of regulation of the disease-resistant gene families. Among them, specifically evolved miRNAs in pepper, can-miR-n033a and can-miR-n026, targets many NLRs and RLPs in an expanded subgroup in pepper, respectively. Conclusions: Taken together, miRNAs might be generated and evolved to regulate diverse genes involved in plant immunity in Solanaceae. This study provides an insight into possible co-evolution between resistance-related miRNAs and defense genes in pepper.

2018-07-18 | GSE102781 | GEO

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Project description:RATIONALE: Studying the genes expressed in samples of tissue from patients with cancer may help doctors identify biomarkers related to cancer. PURPOSE: This laboratory study is using gene expression profiling to evaluate normal tissue and tumor tissue from patients with colon cancer that has spread to the liver, lungs, or peritoneum.

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