Transcriptomics

Dataset Information

2

Revealing impaired pathways in regulatory mutant by high-throughput characterization of Petunia axillaris and Petunia inflata transcriptomes.


ABSTRACT: Petunia is an excellent model system, especially for genetic, physiological and molecular studies. Thus far, however, genome-wide expression analysis has been rarely applied because of the lack of sequence information. We applied next-generation sequencing to generate, through de novo read assembly, a large catalogue of transcripts for Petunia axillaris and Petunia inflata. On the basis of the transcriptome of each species, comprehensive microarray chips for gene expression analysis were established and used for the analysis of global- and organ-specific gene expression in both species. In addition, microarray analysis was applied to explore the molecular basis of the seed coat defects in Petunia hybrida mutants, homozygous for a null allele of the AN11 gene, encoding a WDR transcription regulator. Among the transcripts differentially expressed in an11 seeds compared to wild type, many expected targets of AN11 were found but also several interesting new candidates that might play a role in morphogenesis of the seed coat. Our results validate the combination of next-generation sequencing with microarray analyses strategies to identify the transcriptome of two petunia species without previous knowledge of their genome, and to develop comprehensive chips as useful tools for the analysis of gene expression in P. axillaris, P. inflata and P. hybrida. The manuscript describes the creation by next generation sequencing of a large catalogue of the transcriptome of the two Petunia species, that are considered to represent the natural material from which the breeders selected their varieties. This submission represents the transcriptome component of study. The high throughput sequencing data were submitted to SRA (accession numbers: SRA027293, SRP004866.1, SRX036999.2, SRX036998.2).

ORGANISM(S): Inflata  

SUBMITTER: Giovanni B Tornielli   Francesca Quattrocchio  Tom Gerats  Mario Pezzotti  Jan Zethof  Flavia Guzzo  Ronald Koes  Nunzio D’Agostino  Sara Zenoni  Massimo Delledonne  Luigi Frusciante  Maria L Chiusano 

PROVIDER: E-GEOD-28120 | ArrayExpress | 2012-02-29

SECONDARY ACCESSION(S): GSE28120PRJNA139839

REPOSITORIES: GEO, ArrayExpress

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