Table 1

Comparison of phylotype coverage and diversity estimation of the 16S rRNA gene libraries at 3% dissimilarity from the pyrosequencing analysis
Group Reads OTUs1 Good’s2 ACE 95% C. I . Chao1 95% C. I . Shannon Simpson Evenness3
Nasopharynx 30521 998 0.969 2290.3 2142.5 2457.3 1802.0 1622.9 2032.6 4.0960 0.0945 0.0117
Saliva 28309 1129 0.962 2431.9 2286.5 2595.7 1907.9 1742.1 2118.6 4.6437 0.0780 0.0131
Dominant hand 43708 1768 0.960 3993.1 3796.7 4208.6 3082.0 2853.2 3359.2 5.2870 0.0297 0.0279
Feces 54179 1959 0.965 3967.6 3787.5 4165.7 3233.9 3019.2 3492.5 5.4907 0.0197 0.0349

1The operational taxonomic units (OTUs) were defined with 3% dissimilarity level.

2The coverage percentage (Good’s), richness estimators (ACE and Chao1) and diversity indices (Shannon and Simpson) were calculated using Good’s method [66] and the mothur program, respectively.

3The Shannon index of evenness was calculated with the formula E = H/ln(S), where H is the Shannon diversity index and S is the total number of sequences in that group.

Ling et al.

Ling et al. BMC Genomics 2013 14:390   doi:10.1186/1471-2164-14-390

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