Figure 2.

Depletion of rRNA in a mixture of total RNAs from E. coli, R. sphaeroides and P. marinus with Ribo-Zero is reproducible and works well with fragmented total RNA. (a) The pie charts represent the mapped read distributions of protein-coding genes (CDS; blue), rRNA (red), and other reads (tRNA, non-coding RNA, small RNA and intergenic regions; gray) for undepleted total RNA, two technical replicates of Ribo-Zero treatment of intact total RNA and for Ribo-Zero treatment of fragmented total RNA. (b,c) Double-log scatter plots of RPKM values and the coefficient of determination (R²) for the technical Ribo-Zero replicates (b) and for Ribo-Zero treatment of fragmented versus intact total RNA (c). Points on the axes represent CDSs with zero coverage in one of the two samples. The number of data points in the diagonal cloud and on the axes is indicated. The total number of annotated CDSs in the three bacterial genomes is 10,278.