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Table 1 Library growth conditions and summary of the number and percentage of reads mapped to the Pseudomonas aeruginosa PAO1 reference sequence and including (+ RNA) or excluding (− RNA) rRNA, tRNA and tmRNA genes

From: High-throughput detection of RNA processing in bacteria

Sample   including rRNA excluding rRNA
Total Reads Reads Mapped Percent Mapped Reads Mapped Percent Mapped
pRNA-Seq
LB Medium, 37 °C, OD600 = 0.7 (A06027)
272,983,632 149,142,710 55% 51,067,158 19%
dRNA-Seq
LB Medium, 37 °C, OD600 = 0.7 (110817_SN865)
131,130,793 108,900,693 83% 29,801,108 23%
RNA-Seq
Synthetic Cystic Fibrosis Medium, 37 °C, OD600 = 0.7 (A03674)
54,000,716 51,910,678 96% 16,003,536 30%
RNA-Seq
Artifical Sputum Medium, 37 °C, OD600 not determined (A06026)
63,854,706 61,850,374 97% 6,802,731 11%
RNA-Seq
LB Medium, 37 °C, OD600 = 0.7 (PA0004)
75,437,354 72,729,310 96% 30,068,678 40%
RNA-Seq
LB Medium, 34 °C, OD600 = 0.7 (PA0001)
20,643,394 17,559,382 85% 3,352,489 16%
  1. In all libraries but 110817_SN865, which consists of single end reads, the mapped reads are in proper pairs with a maximum insert size < 1000. A moderate drop in read quality (55% aligned reads) was observed with the dRNA-Seq library, which we attributed to the extra RNA manipulation steps required for library construction. We employed the same rigorous alignment quality thresholds with the dRNA-Seq library as with all other libraries to ensure that only high quality reads were mapped