Table 4.
Diversity Indices for Each Bronchoalveolar Lavage Samplea
| Sample ID | BAL 1 | BAL 2 | BAL 4 | BAL 6 | BAL 7 | BAL 8 | BAL 9 | BAL 10 | BAL 11 | BAL 13 | BAL 14 | BAL 15 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| sOTU | 35 | 116 | 73 | 69 | 76 | 150 | 110 | 148 | 193 | 98 | 43 | 30 |
| Shannon | 0.91 | 4.0 | 2.2 | 1.7 | 2.7 | 6.2 | 2.9 | 5.17 | 6.5 | 3.3 | 2.0 | 0.8 |
| chao1 | 65 | 160.6 | 104.2 | 127.0 | 82.3 | 226.5 | 169.7 | 254.6 | 240.9 | 170.7 | 43.1 | 37.4 |
a
Alpha diversity measurements made with Quantitative Insights into Microbial Ecology (QIIME) software were made on a rarified set of 1,590 sequences from each sample over 10 iterations and averaged. The 3% divergence species operational taxonomic units (sOTUs) were calculated to determine the predicted numbers of OTUs. Shannon and chao1 indices were calculated for each sample and are listed accordingly.
BAL=bronchoalveolar lavage.