Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Identification of target genes of translation-dependent signalling in Arabidopsis

ABSTRACT: Changes ins organellar gene expression trigger retrograde signalling. Prolyl-tRNA synthetase (PRORS1) is located in chloroplasts and mitochondria. Thus, prors1-2 mutants are impaired in chloroplast and mitochondrial gene expression. The effects of the prors1-2 mutation on the global transcriptome were investigated with microarray analyses. RNA was extracted from Col-0 (WT, 4-weeks-old) and prors1-2 (38-d-old) leaves of the same developmental stage

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Tatjana Kleine

PROVIDER: E-GEOD-54573 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Identification of target genes and transcription factors implicated in translation-dependent retrograde signaling in Arabidopsis.

Leister Dario D Romani Isidora I Mittermayr Lukas L Paieri Francesca F Fenino Elena E Kleine Tatjana T

Molecular plant 20140529 7

Changes in organellar gene expression (OGE) trigger retrograde signaling. The molecular dissection of OGE-dependent retrograde signaling based on analyses of mutants with altered OGE is complicated by compensatory responses that mask the primary signaling defect and by secondary effects that influence other retrograde signaling pathways. Therefore, to identify the earliest effects of altered OGE on nuclear transcript accumulation, we have induced OGE defects in adult plants by ethanol-dependent ...[more]

PMID: 24874869

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Project description:This study was designed to identify changes in gene expression that occur when corn was grown on different landscape features. Specifically on the backslope or summit/shoulder of a hill. In rolling landscapes, plant available water varies drastically by location and soil type. Almost simultaneously, plants may be flooded out in footslope locations whereas plants in summit locations may be suffering from severe drought. The objective of this study was to determine the influence of landscape position on corn (Zea mays) productivity and gene regulation. Corn was sampled at V12 for plant growth characteristics and transcriptome analysis at summit/shoulder and lower backslope positions. Plants at the summit had 16% less leaf area and biomass compared with plants at the toeslope. Gene expression analysis using microarray chips, transcriptome analysis, and qPCR indicated that plants at the summit had 708 genes down-regulated and 399 genes up-regulated compared to control plants at the lower back slope. GSEA (Gene Set Enrichment Analysis) indicated tolerance to cold, salt, and drying were increased in summit/should plants compared to control toeslope plants. However, nutrient uptake, recovery from wounding, pest and fungal disease resistance, along with photosynthetic capacity were all down-regulated in moderate water stresses plants. These responses suggest that corn preferentially responses to water stress as the expense of its ability to respond to other stresses. Three biological replicates for the control (backslope) and six biological replicate of summit/shoulder-grown plants were collected. The resulting labeled cDNA was hybridized to the 46,000-element maize microarray chip developed by the University of Arizona using their protocol (International Microarray Workshop Handbook, 2009Gardiner et al. 2005). The hybridization scheme was a dual hybridization using a rolling circle balanced dye swap design. Thus we had three to six biological replicates for each growth condition and two technical replicates for each biological sample.

Dataset Information

Identification of target genes of translation-dependent signalling in Arabidopsis

Publications

Identification of target genes and transcription factors implicated in translation-dependent retrograde signaling in Arabidopsis.

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