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Table 2 Success of species detection using 454 pyrosequencing

From: Environmental monitoring using next generation sequencing: rapid identification of macroinvertebrate bioindicator species

Direction/run/gene Species detected Species missed % Identification success rate
Run 1    
COI forward 100 7 93.46
COI reverse 98 9 91.59
COI both directions 103 4 96.26
Run2    
COI forward 98 9 91.59
COI reverse 101 6 94.39
COI both directions 102 5 95.33
Both runs    
COI forward 101 6 94.39
COI reverse 102 5 95.33
COI both directions 103 4 96.26
Run 1    
CytB forward 78 29 72.90
CytB reverse 79 28 73.83
CB both directions 83 24 77.57
run2    
CytB forward 77 30 71.96
CytB reverse 80 27 74.77
CytB both directions 86 21 80.37
Both runs    
CytB forward 85 22 79.44
CytB reverse 83 24 77.57
CytB both directions 89 18 83.18
Both genes for run1 105 2 98. 13
Both genes for run2 106 1 99. 07
All runs/direction/genes combined 106 1 99. 07
  1. Species detected and missed from the ten field sites using 454 pyrosequencing examining each gene in each direction (forward or reverse) and both directions (combining forward and reverse sequences) and combining these across biological replicates (runs). The result for both genes combined in each run (biological replicate 1 and biological replicate 2) and the results for the entire experiment are bolded. Values given are based on 107 opportunities to detect a species across all ten field samples (i.e. the sum of the number of species for each of the 10 field sites).