Skip to main content

Table 1 Summary of RNA-Seq sequencing and data analysis results

From: Effects of supplementary butyrate on butanol production and the metabolic switch in Clostridium beijerinckii NCIMB 8052: genome-wide transcriptional analysis with RNA-Seq

Samples from R1 R11 R12 R13 R14 R15 R16 R17 R18 --- Total
Time collected (h) 3 5 7 10 13 16 20 28 ---  
Total number of reads 32934519 29367899 15075431 30451579 37230096 26184184 36117022 32444284 --- 241287505
No. of reads mapped 31098649 27046332 14016757 29094448 34907591 24836210 34255629 30754172 --- 227240126
No. of reads unambiguously mapped 29844200 26282300 13592284 28326600 34233900 24012800 33747700 30065800 --- 221417584
No. of genes with detectable expression1 5070 5056 5032 5075 5084 5062 5087 5085 --- 5088
Range in expression levels (RPKM) 7.4 × 10-3 1.1 × 10-2 5.7 × 10-3 2.3 × 10-2 1.6 × 10-3 1.5 × 10-3 2.3 × 10-2 2.3 × 10-2 --- 1.5 × 10-3
~ 2.0 × 104 ~ 1.8 × 105 ~ 8.6 × 104 ~ 5.0 × 104 ~ 9.2 × 104 ~ 1.1 × 105 ~ 2.2 × 105 ~ 8.8 × 104   ~ 2.2 × 105
Samples from R2 R21 R22 R23 R24 R25 R26 R27 R28 R23-22 Total3
Time collected (h) 10 12 14 17 20 23 28 36 14  
Total number of reads 25350444 38025575 31352222 33877714 26099516 42485421 38176862 33624379 33916811 268992133
No. of reads mapped 23995017 35773620 29542453 32664767 24890605 40877908 36397654 31652246 32399849 255794270
No. of reads unambiguously mapped 22098900 31363000 27534800 31668100 24198000 39820500 35617800 30760200 31451300 243061300
No. of genes with detectable expression1 5059 5063 5058 5077 5084 5088 5088 5084 5081 5088
Range in expression levels (RPKM) 2.3 × 10-2 6.2 × 10-3 2.4 × 10-2 1.6 × 10-3 2.8 × 10-2 4.7 × 10-2 2.6 × 10-2 3.6 × 10-2 2.9 × 10-2 1.6 × 10-3
  ~ 1.1 × 105 ~ 1.0 × 105 ~ 1.3 × 105 ~ 1.5 × 105 ~ 4.6 × 104 ~ 6.7 × 104 ~ 1.3 × 105 ~ 1.2 × 105 ~ 1.1 × 105 ~ 1.5 × 105
  1. 1Pseudogenes included.
  2. 2R23-2 is a biological replicate for sample R23; it was taken at the same fermentation time as for R23, but from a replicate reactor operated under the identical conditions.
  3. 3R23-2 is excluded.