Libraries were prepared using the Illumina TruSeq Stranded mRNA Library Preparation Kit on a Perkin Elmer Sciclone G3 robot following manufacturer's recommendations. Completed libraries were quantified using a combination of Qubit dsDNA HS and Caliper LabChipGX HS DNA assays. Libraries were divided into pools and quantified using the Kapa Biosystems Illumina Library Quantification qPCR kit. Each pool was loaded onto one lane of an Illumina HiSeq 4000 flow cell and sequencing performed in a 1x50bp single end read format using HiSeq 4000 SBS reagents. Base calling was done by Illumina Real Time Analysis (RTA) v2.7.6 or  v2.7.7 and output of RTA was demultiplexed and converted to FastQ format with Illumina Bcl2fastq v2.19.0.

Illumina HiSeq 4000 sequencing; B. Distachyon RNA-Seq Atlas

Brachypodium distachyon

This Brachypodium distachyon gene expression atlas was designed to be useful in studying cell wall formation by carefully selecting tissues that include cell wall elongation, primary cell wall maturation, and secondary cell wall formation. In total RNA-seq data was obtained from 38 individual stages, which have been assayed in triplicate. To increase the usefulness of this expression data we have characterized the tissues used for RNA-seq by determining the quantity of structural carbohydrates and lignin along with a series of other cell wall analysis. To aid in the interpretation of this very large amount of data we are entering our data into a public and online searchable database.

Brachypodium distachyon RNA-Seq atlas

Submitter Supplied Information

Samples