TABLE 1.
Summary of sequencing statistics for each sample
| Samplea by bacterial species | Total no. of sequence reads | No. of trimmed sequence reads | No. of aligned sequence reads |
|---|---|---|---|
| R. sphaeroides | |||
| Aerobic Rep A RppH− | 8,254,464 | 6,065,679 | 2,803,014 |
| Aerobic Rep A RppH+ | 8,383,862 | 6,080,322 | 2,795,258 |
| Aerobic Rep B RppH− | 6,174,801 | 4,622,659 | 2,456,095 |
| Aerobic Rep B RppH+ | 8,457,109 | 6,270,320 | 3,469,770 |
| Aerobic Rep C RppH− | 11,058,996 | 8,247,098 | 3,089,246 |
| Aerobic Rep C RppH+ | 13,653,189 | 10,112,149 | 4,366,100 |
| Photosynthetic Rep A RppH− | 10,038,077 | 7,340,387 | 1,565,952 |
| Photosynthetic Rep A RppH+ | 11,451,252 | 8,654,668 | 4,121,559 |
| Photosynthetic Rep B RppH− | 7,016,230 | 4,765,608 | 1,914,259 |
| Photosynthetic Rep B RppH+ | 8,489,377 | 6,181,210 | 3,726,327 |
| Photosynthetic Rep C RppH− | 11,377,067 | 8,247,308 | 2,631,811 |
| Photosynthetic Rep C RppH+ | 12,835,262 | 9,648,342 | 5,631,696 |
| N. aromaticivorans | |||
| Glucose Rep A RppH− | 6,147,801 | 4,690,677 | 2,542,350 |
| Glucose Rep A RppH+ | 5,912,261 | 4,531,213 | 2,262,352 |
| Glucose Rep B RppH− | 4,557,911 | 3,387,765 | 2,286,253 |
| Glucose Rep B RppH+ | 4,706,281 | 3,498,597 | 2,236,403 |
| Glucose Rep C RppH− | 5,300,718 | 4,054,452 | 2,728,261 |
| Glucose Rep C RppH+ | 5,099,093 | 3,891,366 | 2,492,722 |
| Vanillic Acid Rep A RppH− | 3,673,324 | 2,808,993 | 1,596,876 |
| Vanillic Acid Rep A RppH+ | 4,952,555 | 3,789,825 | 2,709,442 |
| Vanillic Acid Rep B RppH− | 3,773,367 | 2,873,551 | 1,725,337 |
| Vanillic Acid Rep B RppH+ | 5,212,702 | 3,992,016 | 3,044,911 |
| Vanillic Acid Rep C RppH− | 6,280,041 | 4,754,420 | 2,122,011 |
| Vanillic Acid Rep C RppH+ | 7,644,055 | 5,887,229 | 3,805,586 |
a
Each sample was split and treated either with (RppH+) or without (RppH−) RppH as described (20).