Project description:TranscriptoTranscriptome profiling using DNA microarrays of the aerial parts of the wild-type and other plants was conducted to examine if either MYB overexpression or flavonoid overaccumulation is responsible for the expression of stress-related genes involved in both the biotic and abiotic stress response. Comparative transcriptome analysis using DNA microarray in flavonoid overaccumulating and lacking Arabidopsis.
Project description:cea10-03_cyclocitral - analysis of arabidopsis transcriptome in response to b-cyclocitral treatment - Is beta--cyclocitral a bioactive molecule involved in stress response? - Analysis of Arabidopsis transcriptome in response to b-cyclocitral treatment.
Project description:Key genes involved in symbiosis have been lost in nonmycorrhizal plants such as Arabidopsis thaliana. We studied the effects on gene expression in A. thaliana expressing an abbreviated, functional version of one of genes, the transcription factor Interacting Protein of DMI3 (IPD3-min), under low nutrient conditions in the presence and absence of a mycorrhizal fungi, Rhizophagus. We conducted the same transcriptome analysis with a cyclops-4 knockout mutant in Lotus japonicus to compare with the expression profile of a mycorrhizal host model lacking IPD3.
Project description:Characterization of an U1 snRNP component (LUC7) in plants through transcriptome analysis of luc7 Arabidopsis mutant and AP-MS for detecting LUC7 interacting partners
Project description:During sexual reproduction in flowering plants, the two haploid sperm cells embedded within the cytoplasm of a growing pollen tube are carried to the embryo sac for double fertilization. Pollen development in flowering plants is a dynamic process that encompasses changes at transcriptome and epigenome level. While the transcriptome of pollen and sperm cells in Arabidopsis thaliana is well documented, previous analyses were mostly based on expression at gene level. In-depth transcriptome analysis, particularly the extent of alternative splicing at the resolution of sperm cell and vegetative nucleus was still lacking. Therefore, we performed RNA-seq analysis to generate a spliceome map of Arabidopsis sperm cells and vegetative nuclei isolated from mature pollen grains. Based on our de-novo transcriptome assembly we identified 58039 transcripts, including 9681 novel transcripts, of which 2091were expressed in sperm cells and 3600 in vegetative nuclei. Our data from sperm cell and vegetative nucleus identified 468 genes that were regulated both at gene and splicing level, with many having functions in mRNA splicing, chromatin modification, and protein localization. Moreover, a comparison with egg cell RNA-seq data uncovered sex-specific regulation of transcription and splicing factors. Our study provides novel insights into a gamete specific alternative splicing landscape at unprecedented resolution.
Project description:The expresion of dominant negative version of Arabidopsis TFIIS (TFIISmut) in plants lacking funtional TFIIS leads to severe growth defects. The genome-wide analysis of changes in active RNAPII occupancy upon TFIISmut expression was determined using ChIP-seq in order to better understand the biological importance of TFIIS. 10DAS seedlings of transgenic lines carring inducible GFP-TFIIS or GFP-TFIISmut transgenes were studied by ChIP-seq following plants exposure to 24h b-estradiol or EtOH (mock) induction.
Project description:Transcriptome analysis of ddm1 Arabidopsis mutant, epiRIL98 and epiRIL202 Transcriptome analysis of ddm1 Arabidopsis mutant, epiRIL98 and epiRIL202