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Genome-wide identification of eggplant (Solanum melongena L.) miRNAs and their targets reveals differential regulation of heterostyly [Array]

ABSTRACT: MicroRNAs (miRNAs), a class of endogenous, non-coding, ~21 nucleotide RNAs, regulate the expression of their target genes by mRNA cleavage or translation inhibition. In plants, miRNAs have been demonstrated to play crucial roles in regulating diverse cellular, physiological, and developmental processes. The identification of all the miRNAs is not yet complete; there are no studies on their possible links with the difference in heterostyly observed in eggplant (Solanum melongena L.).

ORGANISM(S): Solanum virginianum Macrobrachium nipponense

PROVIDER: GSE81185 | GEO | 2017/05/06

SECONDARY ACCESSION(S): PRJNA320841

REPOSITORIES: GEO

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Genome-wide identification of eggplant (Solanum melongena L.) miRNAs and their targets reveals differential regulation of heterostyly [Seq]

Project description:MicroRNAs (miRNAs), a class of endogenous, non-coding, ~21 nucleotide RNAs, regulate the expression of their target genes by mRNA cleavage or translation inhibition. In plants, miRNAs have been demonstrated to play crucial roles in regulating diverse cellular, physiological, and developmental processes. The identification of all the miRNAs is not yet complete; there are no studies on their possible links with the difference in heterostyly observed in eggplant (Solanum melongena L.).

2017-05-06 | GSE81186 | GEO

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High-throughput sequencing of eggplant small RNAs

Project description:MiRNAs are a class of non-coding, small RNAs that play important roles in the regulation of gene expression. Although plant miRNAs have been extensively studied in model systems, less is known in other plants with limited genome sequence data, including eggplant (Solanum melongena L.). To identify miRNAs in eggplant and their response to Verticillium dahliae infection, a fungal pathogen for which effective cure methods and a clear understanding of its mechanisms are currently lacking, we deep-sequenced two small RNA (sRNA) libraries prepared from mocked and infected seedlings of eggplants. Specifically, 30,830,792 reads produced 7,716,328 unique small RNAs have been identified.

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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

Genome-wide identification of eggplant (Solanum melongena L.) miRNAs and their targets reveals differential regulation of heterostyly

Project description:Genome-wide identification of eggplant (Solanum melongena L.) miRNAs and their targets reveals differential regulation of heterostyly

| PRJNA320851 | ENA

Metabolomic and transcriptomic analyses identify quinic acid protecting eggplant from damage caused by western flower thrips

Project description:BACKGROUND: Western flower thrips are considered the major insect pest of horticultural crops worldwide, causing economic and yield loss to Solanaceae crops. The eggplant (Solanum melongena L.) resistance against thrips remains largely unexplored. This work aims to identify thrips-resistant eggplants and dissect the molecular mechanisms underlying this resistance using the integrated metabolomic and transcriptomic analyses of thrips-resistant and -susceptible cultivars. RESULTS: We developed a micro-cage thrips bioassay to identify thrips-resistant eggplant cultivars, and highly resistant cultivars were identified from wild eggplant relatives. Metabolomic profiles of thrips-resistant and -susceptible eggplant were compared using the gas chromatography-mass spectrometry (GC-MS)-based approach, resulting in the identification of a higher amount of quinic acid in thrips-resistant eggplant compared to the thrips-susceptible plant. RNA-sequencing analysis identified differentially expressed genes (DEGs) by comparing genome-wide gene expression changes between thrips-resistant and -susceptible eggplants. Consistent with metabolomic analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis of DEGs revealed that the starch and sucrose metabolic pathway in which quinic acid is a metabolic by-product was highly enriched. External application of quinic acid enhances the resistance of susceptible eggplant to thrips. CONCLUSION: Our results showed that quinic acid plays a key role in the resistance to thrips. These findings highlight a potential application of quinic acid as a biocontrol agent to manage thrips and expand our knowledge to breed thrips-resistant eggplant.

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Project description:Seven different Solanaceae species, Potato (Solanum tubersosum), Tomato (Solanum lycopersicum), Eggplant (Solanum melongena), Pepper (Capsicum annuum), Tobacco (Nicotiana tabaccum), Petunia and Nicotiana benthiamana were subjected to drought stress. Drought stress was applied by stopping watering of the plants, control plants were normally watered with nutrient solution. Samples were collected at 0, 1, 3, 5, 7 and 10 days after the first application of the drought stress. RNA was isolated using Qiagen RNeasy. Keywords: Direct comparison

2007-09-01 | GSE8161 | GEO

Heat stress in 7 Solanaceae species, replicate 1 and 2

Project description:Seven different Solanaceae species, Potato (Solanum tuberosum), Tomato (Solanum lycopersicum), Eggplant (Solanum melongena), Pepper (Capsicum annuum), Tobacco (Nicotiana tabacum), Petunia and Nicotiana benthamiana were subjected to heat stress. Plants were grown for 4-6 weeks at 25 C after which heat stress was initiated by exposing the plants to 35 C for 6, 12, 24, 48 and 96 hours. Control samples were isolated from plants just before initiating the heat stress. RNA was isolated using Qiagen RNeasy. Keywords: Direct comparison

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