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Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of Arabidopsis seedlings of wild type, brx loss-of-function and rescued brx lines

ABSTRACT: We compared the seedling transcription profiles to determine the effects of loss-of-function of the BRX gene of Arabidopsis. BRX is required for optimal root growth. We compared seedlings of a loss-of-function line (brx) with its control background (Sav-0). Because the loss-of-function line was derived from introgression, a brx line that was complemented by a transgenic wild type copy of BRX was also included as a control. This line (rescued brx) allows the identification of expression differences that are due to introgression drag. See Mouchel et al. 2004, Genes & Dev. Vol. 18, p. 700 for a detailed description. We also compared to response of the different genotypes to the application of the phytohormones brassinolide (BL) and indole acetic acid (IAA)

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Céline Mouchel

PROVIDER: E-MEXP-637 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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BRX mediates feedback between brassinosteroid levels and auxin signalling in root growth.

Mouchel Céline F CF Osmont Karen S KS Hardtke Christian S CS

Nature 20060901 7110

Brassinosteroid and auxin decisively influence plant development, and overlapping transcriptional responses to these phytohormones suggest an interaction between the two pathways. However, whether this reflects direct feedback or merely parallel inputs on common targets is unclear. Here we show that in Arabidopsis roots, this interaction is mediated by BREVIS RADIX (BRX), which is required for optimal root growth. We demonstrate that the brx phenotype results from a root-specific deficiency of b ...[more]

PMID: 17006513

Similar Datasets

Transcription profiling of Arabidopsis roots of wild type, brx loss-of-function and rescued brx lines

Project description:We compared the root transcription profiles to determine the effects of loss-of-function of the BRX gene of Arabidopsis. BRX is required for optimal root growth. We compared roots of a loss-of-function line (brx) with its control background (Sav-0). Because the loss-of-function line was derived from introgression, a brx line that was complemented by a transgenic wild type copy of BRX was also included as a control. This line (rescued brx) allows the identification of expression differences that are due to introgression drag. See Mouchel et al. 2004, Genes & Dev. Vol. 18, p. 700 for a detailed description.

2006-09-28 | E-MEXP-635 | biostudies-arrayexpress

The Genetic Basis of Rapidly Evolving Male Genital Morphology in Drosophila

Project description:Deep sequencing of total RNA extracted from the genital discs of males for each of the following strains : Drosophila sechellia, Drosophila mauritiana, hybrid introgression line 3Q1(A) and hybrid introgression line Q1(A)

2011-07-22 | GSE28663 | GEO

Expression data from dark-grown AtGATA2 (At2g45050) overexpression transgenic line, homozygous bri1-116 and Col-0 wild type

Project description:Molecular genetic analyses support important roles for the AtGATA2 gene in brassinolide (BR) and light regulation of plant development. The overexpression line 6-9 of AtGATA2 suppresses the etiolated phenotype of Col-0 grown in the dark. Using microarray analysis, we identified genes differentially expressed in the AtGATA2ox transgenic line 6-9 compared to wild type, and genes differentially expressed in the AtGATA2ox transgenic line 6-9 compared to the bri1-116 single mutant. Consistent with the phenotypic similarity of bri1-116 and AtGATA2, overall about 93% of the co-regulated genes were affected in the same way by GATA2-ox and bri1-116.

2011-11-09 | GSE25396 | GEO

Ozone-induced rice grain yield loss is controlled by ABERRANT PANICLE ORGANIZATION 1 gene

Project description:Rice grain yield is predicted to decrease in the future because of an increase in tropospheric ozone concentration. However, the underlying mechanisms are unclear. Here, we investigated the responses to ozone of two rice (Oryza Sativa L.) cultivars, Sasanishiki and Habataki. Sasanishiki showed ozone-induced leaf injury, but no grain yield loss. By contrast, Habataki showed grain yield loss with minimal leaf injury. A QTL associated with grain yield loss caused by ozone was identified in Sasanishiki/Habataki chromosome segment substitution lines and included the ABERRANT PANICLE ORGANIZATION 1 (APO1) gene. The Habataki allele of the APO1 locus in a near-isogenic line also resulted in grain yield loss upon ozone exposure, suggesting APO1 involvement in ozone-induced yield loss. Only a few differences in the APO1 amino acid sequences were detected between the cultivars, but the APO1 transcript level was oppositely regulated by ozone exposure: i.e., it increased in Sasanishiki and decreased in Habataki. Interestingly, the levels of some phytohormones (jasmonic acid, jasmonoyl-L-isoleucine, and abscisic acid) known to be involved in attenuation of ozone-induced leaf injury tended to decrease in Sasanishiki but to increase in Habataki upon ozone exposure. These data indicate that ozone-induced grain yield loss in Habataki is caused by a reduction in the APO1 transcript level through an increase in the levels of phytohormones that reduce leaf damage. Ozone induced gene expression in rice inflorescence meristem was measured at 6 month after exposure to dose of 43.7 nL L-1 (ambient air) and 85.7 nL L-1 (2-fold concentration compared to ambient air) (12 hours mean). The two culticars, Sasanishiki and Habataki, were used for each experiment.

2015-01-31 | E-GEOD-65465 | biostudies-arrayexpress

Gene expression changes after loss of C/EBPα in transformed HSCs [CEBPA RNA-seq]

Project description:RNAseq characterization of gene expression changes 72 hours after genomic excision of Cebpa in murine hematopoietic progenitors from Cebpaf/f;CreER mice transformed by Hoxa9/Meis1. In the presence of tamoxifen (4OHT), Cre-ER localizes to the nucleus of cells allowing for excision of Cebpa and loss of C/EBPα protein levels. Loss of C/EBPα leads to a decrease in cellular proliferation. Examination of gene expression by RNAseq in two conditions in biological replicates.

2014-06-11 | E-GEOD-58360 | biostudies-arrayexpress

Expression data from dark-grown AtGATA2 (At2g45050) overexpression transgenic line, homozygous bri1-116 and Col-0 wild type

2011-11-09 | E-GEOD-25396 | biostudies-arrayexpress

Project description:Brassinolide plus pyraclostrobin

| PRJNA930055 | ENA

Expression profile of high yielding rice introgression line

Project description:Leaves and panicles from recurrent parent KMR3 and a high yielding KMR3-O.rufipogon introgression line were used Microarray analysis was carried out to reveal up- and down-regulated DEGs in leaves and panicles of control and experimental line for identifying key genes that help improve yield

2011-12-31 | GSE30487 | GEO

RNA-seq of Brassica napus root and shoot tissues after infection with Pseudomonas aeruginosa

Project description:Phytohormones control many vital biological processes within plants, including growth and development, senescence, seed setting, fruit ripening and innate immunity. These biological processes are controlled by specific combinations of multiple phytohormones. The three main phytohormones involved in plant innate immunity are salicylic acid (SA), jasmonic acid (JA) and ethylene (ET). SA is produced in response to biotrophic and hemibiotrophic pathogens. Whereas, JA and ET are produced in response to necrotrophic pathogens. Pseudomonas aeruginosa is found ubiquitously within the environment, and has been shown to participate in both beneficial and pathogenic interactions with host plants depending on bacterial strain and environment. In this study, we found that Brassica napus (canola) seedlings infected with P. aeruginosa strain PA14 displayed symptoms of disease and had significant weight loss in both root and shoot. Our transcriptomic data revealed that many molecular processes involved in plant innate immunity were upregulated, whereas photosynthesis was downregulated.

2020-02-14 | E-MTAB-7864 | biostudies-arrayexpress

Transcriptomic changes in aquaporin PIP1;2 deficient Arabodposis plants

Project description:The leaf transcriptome of the Arabidopsis thaliana aquaporin gene PIP1;2 T-DNA insertion line was compared to that of control plants. In total 730 genes were found to be differentially regulated. This regulation pattern was compared to mild drought stress and low CO2 Affymetrix data to elucidate whether loss of the aquaporin resembles transcriptomic changes of drought stress or lack of CO2 supply. Mild drought stress data were obtained from Harb A, Krishnan A, Ambavaram MMR, Pereira A (2010) Molecular and Physiological Analysis of Drought Stress in Arabidopsis Reveals Early Responses Leading to Acclimation in Plant Growth. Plant Physiology 154: 1254-1271 (GSE24177). Low CO2 data were obtained from Oliver E. Bläsing, Yves Gibon, Manuela Günther, Melanie Höhne, Rosa Morcuende, Daniel Osuna, Oliver Thimm, Björn Usadel, Wolf-Rüdiger Scheible, and Mark Stitt (2005) Sugars and Circadian Regulation Make Major Contributions to the Global Regulation of Diurnal Gene Expression in Arabidopsis. The Plant Cell, Vol. 17, 3257-3281 (GSE3423).

2015-01-10 | GSE34984 | GEO

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