Table 2.
Comparison of phylotype coverage and diversity estimation of the 16S rRNA gene libraries at 97% similarity from the sequencing analysis
| Group | No. of reads | No. of OTUs1 | Good’s2 (%) | PD-whole tree | Richness estimator | Diversity index | ||||
|---|---|---|---|---|---|---|---|---|---|---|
|
| ||||||||||
| ACE | 95% CI | Chao 1 | 95% CI | Shannon | Simpson | |||||
| Lung cancer | 3,240,700 | 30,680 | 99.10% | 47.77 | 774.81 | 674.63-874.98 | 755.29 | 655.44-855.14 | 5.02 | 0.88 |
| Healthy controls | 1,749,961 | 29,279 | 99.18% | 49.11 | 721.87 | 674.86-768.88 | 699.81 | 649.94-749.67 | 5.13 | 0.90 |
1
The operational taxonomic units (OTUs) were defined with 97% similarity level.
2
The coverage percentage (Good’s) and richness estimators (ACE and Chao 1), and diversity indices (Shannon and Simpson) were calculated using the R software.
No alpha diversity index between the lung cancer group and healthy controls reached the statistically different (P < 0.05, Student t test).