Transcriptomics,Genomics

Dataset Information

164

Brachypodium distachyon Transcriptome or Gene expression


ABSTRACT: Deep sequencing of Brachypodium distachyon small RNA from panicles (flowers) was done to analyze the genome-wide distribution patterns of 1) total small RNA reads and loci, 2) 21 and 24 nucleotide repeat-normalized reads and 3) 21 and 24 nucleotide phased siRNA clusters relative to gene and transposable element density. Overall design: Small RNA were extracted from total RNA by size fractionation and converted to DNA amplicons by serial adaptor ligation to both ends followed by RT-PCR. DNA amplicons were sequenced using an Ilumina Genome Analyzer. Resulting sequences were computationally trimmed to remove 3' adaptor sequences. Raw data for GSM506621 was not provided.

INSTRUMENT(S): Illumina Genome Analyzer (Brachypodium distachyon)

SUBMITTER: James C Carrington  

PROVIDER: GSE20195 | GEO | 2010-02-15

SECONDARY ACCESSION(S): PRJNA125697

REPOSITORIES: GEO

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Publications

Genome sequencing and analysis of the model grass Brachypodium distachyon.

Nature 20100201 7282


Three subfamilies of grasses, the Ehrhartoideae, Panicoideae and Pooideae, provide the bulk of human nutrition and are poised to become major sources of renewable energy. Here we describe the genome sequence of the wild grass Brachypodium distachyon (Brachypodium), which is, to our knowledge, the first member of the Pooideae subfamily to be sequenced. Comparison of the Brachypodium, rice and sorghum genomes shows a precise history of genome evolution across a broad diversity of the grasses, and  ...[more]

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