Table 1.
Identification of microbial species cultured from ostrich tracheal swab pools.
| Isolate | Classical phenotypic methods | MALDI-TOF mass spectrometry | 16S rRNA sequence | |||
|---|---|---|---|---|---|---|
| Identity | Score | Closest match in GenBank | Accession | % identity | ||
| B700/18-0 | Clostridium sp.* | Not tested | Clostridium sp. | KT592379 | 100 | |
| B700/18-1 | Micrococcus sp.* | Dietzia maris | 1.90 | Dietzia maris | MG547917 | 98.6 |
| B700/18-2 | Acinetobacter sp.† | Acinetobacter lwoffii | 2.08 | Acinetobacter sp. | MK548512 | 99.9 |
| B700/18-3 | Brevibacterium sp.* | Arthrobacter gandavensis | 2.43 | Arthrobacter gandavensis | MK646035 | 99.7 |
| B700/18-5 | Streptococcus equinus * | Unidentified | 1.55 | Streptococcus pluranimalium | CP025536 | 98.1 |
| B700/18-8 | Pantoea sp.* | Not tested | Pantoea septica | HM854257 | 98.6 | |
| B700/18-9 | Vibrio parahaemolyticus † | Pseudomonas putida | 1.86 | Pseudomonas putida | CP024086 | 99.8 |
| B700/18-10 | Citrobacter freundii † | Unidentified | 1.91 | Not sequenced¦ | ||
| B700/18-15 | Rothia dentocariosa * | Rothia dentocariosa | 2.30 | Not sequenced¦ | ||
| B700/18-16 | Corynebacterium bovis * | Unidentified | 1.60 | Corynebacterium falsenii | KT824798 | 98.3 |
| B700/18-17 | Streptococcus sp.* | Unidentified | 1.40 | Uncultured bacterium | AB989765 | 99.3 |
| B700/18-18 | Streptomyces sp.* | Streptomyces badius | 1.74 | Curtobacterium sp. | HF566227 | 96.7 |
| B700/18-19 | Staphylococcus sp.* | Staphylococcus haemolyticus | 2.08 | Staphylococcus haemolyticus | CP033814 | 99.8 |
| B700/18-21 | Rhodotorula mucilaginosa ‡ | Not tested | Not sequenced | |||
| B700/18-22 | Purpureocillium lilacinum § | Not tested | Not sequenced | |||
| B700/18-23 | Alternaria spp.§ | Not tested | Not sequenced | |||
*
Gram-positive bacterium.
†
Gram-negative bacterium.
‡
Yeast.
§
Fungi.
¦
DNA was below the quality cutoff for barcoded library preparation.