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ECBiG PlasTi-microarray CSH validation

ABSTRACT: Experiment evaluating aplicability of PlasTi-microarray for cross-species hybridization studies. PlasTi-microarray is a tiling oligonucleotide microarray originally designed for cucumber plastome analysis.Chloroplast RNA from Arabidopsis, tomato and spinach leaves was extracted, labelled and hybridized to PlasTi-microarray with the cucumber samples labelled with the second dye as a control. For each species, one biological sample and one technical replicate (labelled in a dye-swap orientation) were analyzed, resulting in two microarray hybridizations per species and six microarrays (a-f) in total.

ORGANISM(S): Lycopersicon esculentum

SUBMITTER: Agnieszka Żmieńko 

PROVIDER: E-MEXP-3220 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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A tiling microarray for global analysis of chloroplast genome expression in cucumber and other plants.

Zmieńko Agnieszka A   Guzowska-Nowowiejska Magdalena M   Urbaniak Radosław R   Pląder Wojciech W   Formanowicz Piotr P   Figlerowicz Marek M  

Plant methods 20110928

Plastids are small organelles equipped with their own genomes (plastomes). Although these organelles are involved in numerous plant metabolic pathways, current knowledge about the transcriptional activity of plastomes is limited. To solve this problem, we constructed a plastid tiling microarray (PlasTi-microarray) consisting of 1629 oligonucleotide probes. The oligonucleotides were designed based on the cucumber chloroplast genomic sequence and targeted both strands of the plastome in a non-cont  ...[more]

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