Transcriptomics

Dataset Information

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Transcription profiling by array of Arabidopsis lines grown on tilted hard agar surfaces


ABSTRACT: The growth behavior of plant roots on tilted, hard agar surfaces is determined by many basic cellular processes, including microtubule dynamics and cell wall expansion. Among Arabidopsis thaliana accessions there is natural variation for these behaviors, including one known as skewing or slanting. The root skewing pattern on hard, tilted agar surfaces may be a clue to adaptations of an accession to its environment. Here, we compare expression profiles of two accessions with diverse skewing behavior grown on the wave assay, which consists of seedlings growing two days vertically and 3 days tilted on hard agar plates. Cvi has a strong skew on tilted, hard agar sufaces, and Ler-2 has a weaker one. We also include a near isogenic line, 170G-55-16 a.k.a HGI2.1, that is mostly Ler-2 in background but has a segment of Cvi introgressed into chromosome 2. This line has an intermediate skew between its two parents. 3 biological replicates of each of 3 genotypes (Cvi, Ler-2, and 170G-55-16/HGI2.1) were subjected to the wave assay. After the assay, approximately 600 root tips from each biological replicate were pooled for RNA extraction and hybridization on the Affymetrix ATH1 microarray.

REANALYSED by: E-GEOD-28275

ORGANISM(S): Arabidopsis thaliana  

SUBMITTER: Laura M Vaughn  Laura Vaughn   Patrick H Masson    

PROVIDER: E-GEOD-28275 | ArrayExpress | 2011-03-31

SECONDARY ACCESSION(S): GSE28275PRJNA139375

REPOSITORIES: GEO, ArrayExpress

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Publications

A QTL Study for Regions Contributing to Arabidopsis thaliana Root Skewing on Tilted Surfaces.

Vaughn Laura M LM   Masson Patrick H PH  

G3 (Bethesda, Md.) 20110701 2


Plant root systems must grow in a manner that is dictated by endogenous genetic pathways, yet sensitive to environmental input. This allows them to provide the plant with water and nutrients while navigating a heterogeneous soil environment filled with obstacles, toxins, and pests. Gravity and touch, which constitute important cues for roots growing in soil, have been shown to modulate root architecture by altering growth patterns. This is illustrated by Arabidopsis thaliana roots growing on til  ...[more]

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