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ABSTRACT:
PROVIDER: PRJNA895726 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:To understand the role of the Arabidopsis type-B Response Regulators ARR1, ARR10 and ARR12 in water stress response, we have carried out comparative expression analysis of the arr1,10,12 mutant and WT plants under dehydration and well-watered (control) conditions. Agilent’s whole Arabidopsis Gene Expression Microarray (G2519F-021169, V4, 4x44K) was used.
2016-01-13 | GSE74880 | GEO
Project description:Many of duplicated genes are enriched in signaling pathways. Recently, gene duplication of kinases has been shown to provide genetic buffering and functional diversification in cellular signaling. Transcription factors (TFs) are also often duplicated. However, how duplication of TFs affects their regulatory structures and functions of target genes has not been explored at the systems level. Here, we examined regulatory and functional roles of duplication of three major ARR TFs (ARR1, 10, and 12) in Arabidopsis cytokinin signaling using wild-type and single, double, and triple deletion mutants of the TFs. Comparative analysis of gene expression profiles obtained from Arabidopsis roots in wild-type and these mutants showed that duplication of ARR TFs systematically extended their transcriptional regulatory structures, leading to enhanced robustness and diversification in functions of target genes, as well as in regulation of cellular networks of target genes. Therefore, our results suggest that duplication of TFs contributes to robustness and diversification in functions of target genes by extending transcriptional regulatory structures. Duplication of TFs can confer an extension of transcriptional regulatory structures for target genes by providing new regulatory relationships between duplicated TFs and new or old target genes. To examine the nature of the extension in the regulatory structure, we performed gene expression profiling of Arabidopsis root tissues obtained from wild-type (WT) and deletion mutants of three type-B ARR1, 10, and 12. To examine how the extended regulatory structures by the duplicated ARR TFs are utilized for the responses to external CK, we generated gene expression profiles of WT Arabidopsis roots treated with mock or exogenous CK for 1 hour. Total RNAs were isolated from two biological replicates at each condition and used to measure gene expression level.
2015-02-03 | E-GEOD-62597 | biostudies-arrayexpress
Project description:Many of duplicated genes are enriched in signaling pathways. Recently, gene duplication of kinases has been shown to provide genetic buffering and functional diversification in cellular signaling. Transcription factors (TFs) are also often duplicated. However, how duplication of TFs affects their regulatory structures and functions of target genes has not been explored at the systems level. Here, we examined regulatory and functional roles of duplication of three major ARR TFs (ARR1, 10, and 12) in Arabidopsis cytokinin signaling using wild-type and single, double, and triple deletion mutants of the TFs. Comparative analysis of gene expression profiles obtained from Arabidopsis roots in wild-type and these mutants showed that duplication of ARR TFs systematically extended their transcriptional regulatory structures, leading to enhanced robustness and diversification in functions of target genes, as well as in regulation of cellular networks of target genes. Therefore, our results suggest that duplication of TFs contributes to robustness and diversification in functions of target genes by extending transcriptional regulatory structures.
2015-02-03 | GSE62597 | GEO
Project description:adt04-03_fdh_drought - drought stress - What is the role of the mitochondrial formate dehydrogenase in the response to drought? - Wild type and mutant arabidopsis plants were grown in soil for 6 weeks under short days. Each lot of plants is shared into 2 groups, one of which was watered normally (arr) whislt the other half was not watered for a week (sech). Keywords: gene knock out,treated vs untreated comparison
2008-02-13 | GSE10427 | GEO
Project description:Effect of the cytokinin BA on wt and arr1,10,12 mutant seedlings The type B Arabidopsis Response Regulators (ARRs) of Arabidopsis thaliana are transcription factors that act as positive regulators in the two-component cytokinin signaling pathway. We employed a mutant-based approach to perform a detailed characterization of the roles of ARR1, ARR10, and ARR12 in plant growth and development. The most pronounced phenotype was found in the arr1-3 arr10-5 arr12-1 triple loss-of-function mutant, which showed almost complete insensitivity to high levels of exogenously applied cytokinins. The triple mutant exhibited reduced stature due to decreased cell division in the shoot, enhanced seed size, increased sensitivity to light, altered chlorophyll and anthocyanin concentrations, and an aborted primary root with protoxylem but no metaxylem. Microarray analysis revealed that expression of the majority of cytokinin-regulated genes requires the function of ARR1, ARR10, and ARR12. Characterization of double mutants revealed differing contributions of the type B ARRs to mutant phenotypes. Our results support a model in which cytokinin regulates a wide array of downstream responses through the action of a multistep phosphorelay that culminates in transcriptional regulation by ARR1, ARR10, and ARR12. This data was originally made available through ArrayExpress under the accession number E-MEXP-1573.
2014-02-12 | GSE54870 | GEO
Project description:Plant-parasitic cyst nematodes induce the formation of hypermetabolic feeding sites, termed syncytia, as their sole source of nutrients. The formation of the syncytium is orchestrated by the nematode in part by modulation of phytohormone responses, including cytokinin. In response to infection by the nematode H. schachtii, cytokinin signaling is transiently induced at the site of infection and in the developing syncytium. Arabidopsis lines with reduced cytokinin sensitivity show reduced susceptibility to nematode infection, indicating that cytokinin signaling is required for optimal nematode development. Furthermore, lines with increased cytokinin sensitivity also exhibit reduced nematode susceptibility. To ascertain why cytokinin hypersensitivity reduces nematode parasitism, we examined the transcriptomes in wild-type and a cytokinin-hypersensitive type-A arr Arabidopsis mutant in response to H. schachtii infection. Genes involved in the response to biotic stress and defense response were elevated in the type-A arr mutant in the absence of nematodes and were hyper-induced following H. schachtii infection, which suggests that the Arabidopsis type-A arr mutants impede nematode development because they are primed to respond to pathogen infection. These results suggest that cytokinin signaling is required for optimal H. schachtii parasitism of Arabidopsis, but that elevated cytokinin signaling triggers a heightened immune response to nematode infection.
2015-11-18 | GSE72548 | GEO
Project description:To understand the role of the Arabidopsis type-B Response Regulators ARR1, ARR10 and ARR12 in water stress response, we have carried out comparative expression analysis of the arr1,10,12 mutant and WT plants under dehydration and well-watered (control) conditions. Agilentâs whole Arabidopsis Gene Expression Microarray (G2519F-021169, V4, 4x44K) was used. Two-week-old WT and arr1,10,12 mutant plants were transferred from GM plates to soil and grown for 10 additional day. Aerial portions of 24-d-old plants were detached and exposed to dehydration on KimTowel papers for 0 (well-watered, control), 2 and 4 h. Rosette leaves collected in 3 biological repeats from arr1,10,12 and WT plants treated by dehydration for 0, 2 and 4 h were used for microarray and expression analyses. Total RNA was prepared and used for the microarray hybridization. Three independent biological replicates were used for each plant sample.
2016-01-13 | E-GEOD-74880 | biostudies-arrayexpress
Project description:In this study, in a systematic screen of CK signaling mutants, we have identified a role of the CK signaling components type-A Arabidopsis response regulators (ARRs) in heat stress response in Arabidopsis. The mutants lacking multiple type-A ARR genes exhibit improved basal and acquired thermotolerance and, altered response to oxidative stress.
2022-09-09 | PXD034173 | Pride
Project description:The intent of the experiment was to infer from DNA sequencing the occurrence of extra-chromosomal DNA from Arabidopsis thaliana's heat-activated LTR retrotransposon Onsen/COPIA78. For this, we performed Illumina 150 bp pair-end PCR-free DNA genome re-sequencing, in both wild-type Col-0 and RdDM mutant nrpd1-3 under control and heat stress.
2018-03-18 | E-MTAB-5641 | biostudies-arrayexpress