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Transcript data affected by constitutive expression of VvMYBPAR in Arabidopsis

ABSTRACT: Constitutive expression of VvMYBPAR in Arabidopsis was found to accumulate proanthocyanidins when the plants were grown on sucrose-supplemented media to induce anthocyanins. To identify the putative targets of VvMYBPAR, the transcriptome analysis of the transgenic lines which highly express VvMYBPAR was carried out using NimbleGen microarray.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE55318 | GEO | 2014/06/03

SECONDARY ACCESSION(S): PRJNA239313

REPOSITORIES: GEO

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Transcript data affected by constitutive expression of VvMYBPAR in Arabidopsis

Project description:Constitutive expression of VvMYBPAR in Arabidopsis was found to accumulate proanthocyanidins when the plants were grown on sucrose-supplemented media to induce anthocyanins. To identify the putative targets of VvMYBPAR, the transcriptome analysis of the transgenic lines which highly express VvMYBPAR was carried out using NimbleGen microarray. Three transgenic lines in which VvMYBPAR were constitutively expressed under the control of 35S promoter vs. empty vector transformants were compared.

2014-06-03 | E-GEOD-55318 | biostudies-arrayexpress

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2009-06-16 | E-TABM-514 | biostudies-arrayexpress

Cranberry derived proanthocyanidins induce a state of iron-limitation in uropathogenic Escherichia coli CFT073 as revealed by microarray analysis

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Project description:In eukaryotes, the Suv39 family of proteins tri-methylate lysine 9 of histone H3 (H3K9me) to form constitutive heterochromatin. However, how Suv39 proteins are nucleated at heterochromatin is not fully described. In the fission yeast, current models posit that Argonaute1-associated small RNAs (sRNAs) nucleate the sole H3K9 methyltransferase, Clr4/SUV39H, to centromeres. Here, we show that in the absence of all sRNAs and H3K9me, the Mtl1 and Red1 core (MTREC)/PAXT complex nucleates Clr4/SUV39H at a heterochromatic long noncoding RNA (lncRNA) at which the two H3K9 deacetylases, Sir2 and Clr3, also accumulate by distinct mechanisms. Iterative cycles of H3K9 deacetylation and methylation spread Clr4/SUV39H from the nucleation center in an sRNA-independent manner, generating a basal H3K9me state. This is acted upon by the RNAi machinery to augment and amplify the Clr4/H3K9me signal at centromeres to establish heterochromatin. Overall, our data reveal that lncRNAs and RNA quality control factors can nucleate heterochromatin and function as epigenetic silencers in eukaryotes.

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Genome-wide effect of constitutive IFN-signaling

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Genome-wide effect of constitutive IFN-signaling

Project description:Using wild type mice and mice deficient for either IFNb1 or IFN-receptor, we analysed the effect of the constitutive IFN on genome-wide expression

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Transcriptome analysis of the biosynthesis of anthocyanins in Begonia semperflorens under low-temperature and high-light conditions

Project description:Anthocyanins are considered as a stress indicator due to their involvement in the response to many stresses including high light (HL) and low temperature (LT). With the development of transcriptomics, it is necessary to find the different and common points in the mechanisms of LT-induced and HL-induced anthocyanin biosynthesis . In the present study, we determined the transcriptomes of Begonia semperflorens leaves under three different conditions (CK, HL and LT). To validate the DEGs, we selected four core genes involved in anthocyanin biosynthesis to perform RT-qPCR, and then determined anthocyanin content. In total, 94,880 unigenes with a mean length of 635 bp were assembled. The N50 values of the transcripts and unigenes were 2,286 bp and 1,064 bp, respectively. The functional annotations of the unigenes were analysed against five protein databases. DEGs related to anthocyanin biosynthesis, transportation and regulation were identified. We also analysis the enrichment pathway, and discuss the difference in mechanisms of anthocyanin induced under low-emperature and high-light conditions. This study is the first to examine broad-scale gene expression in B. semperflorens. By identifying DEGs regulated by both LT and HL conditions, we found that anthocyanin accumulation was employed as a common strategy by Begonia seedlings in resisting LT and HL stress. By identifying DEGs regulated differently by LT and HL conditions, we found that Begonia seedlings also had some different strategies for resisting LT and HL stresses: anthocyanins were biosynthesized under HL condition, while lignin, proanthocyanidins and anthocyanins under LT condition.

2017-12-08 | GSE107805 | GEO

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