Research Article
Metagenomic Characterization of Poultry Cloacal and Oropharyngeal Swabs in Kenya Reveals Bacterial Pathogens and Their Antimicrobial Resistance Genes
Table 4
OTUs (0.05% coverage) and diversity indices from oropharyngeal samples from different poultry species.
| Sample | Number of observed OTUs | Chao1 | ACE | Shannon | Inverse Simpson |
| CNP7 | 14 | 14.33 | 15.46 | 1.367 | 3.144 | CNP8 | 40 | 42.63 | 45.61 | 2.742 | 9.568 | CNP9 | 28 | 35.50 | 32.88 | 1.810 | 3.072 | CNP12 | 11 | 11.20 | 12.61 | 0.501 | 1.263 | DKP5 | 38 | 53.00 | 49.56 | 2.267 | 5.232 | DKP6 | 14 | 14.33 | 14.90 | 0.386 | 1.143 | GFP2 | 20 | 20.00 | 20.00 | 1.674 | 2.985 | GSP3 | 29 | 36.50 | 33.04 | 2.141 | 5.608 | GSP4 | 47 | 54.33 | 57.58 | 2.420 | 7.230 | PNP4 | 5 | 5.00 | 5.00 | 0.416 | 1.262 | PNP5 | 7 | 7.00 | 8.243 | 1.276 | 3.157 | PNP6 | 4 | 4.00 | NaN | 0.9769 | 2.372 | TYP2 | 18 | 28.00 | 23.40 | 1.6760 | 3.767 | Total | 275 | | | | |
|
|