Volume 25, Number 6—June 2019
Research
Mass Die-Off of Saiga Antelopes, Kazakhstan, 2015
Table 3
Main results of the k-mer–based approach on the random amplification metatranscriptomic dataset used in an investigation of a mass die-off of saiga antelopes, Kazakhstan, 2015*
Organism | No. reads (% total reads) |
|||||
---|---|---|---|---|---|---|
Sample 1 | Sample 2 | Sample 3 | Sample 4 | Sample 5 | Sample 6 | |
Total no. reads | 231,907 | 773,835 | 272,102 | 300,807 | 235,255 | 187,049 |
Total no. reads passing QC | 109,302 (47.1) | 553,163 (71.48) | 174,613 (64.17) | 233,888 (77.8) | 171,409 (72.86) | 138,292 (73.93) |
Unclassified/nonmicrobial | 50,478 (46.18) | 343,404 (62.08) | 86,165 (49.35) | 133,456 (57.06) | 57,812 (33.73) | 50,731 (36.68) |
Virus | 47 (0.03) | 141 (0.03) | 33 (0.03) | 174 (0.05) | 73 (0.04) | 51 (0.04) |
Pasteurellaceae | 53,097 (48.58) | 129,337 (23.38) | 69,251 (39.66) | 63,817 (27.29) | 93,378 (54.48) | 72,799 (52.64) |
Pasteurella multocida | 49,844 (45.6) | 115,231 (20.83) | 60,504 (34.65) | 56,775 (24.27) | 86,664 (50.56) | 67,406 (48.74) |
Alteromondales | 1303 (1.19) | 2690 (0.49) | 35 (0.02) | 499 (0.21) | 32 (0.02) | 51 (0.04) |
Enterobacteriaceae | 52 (0.05) | 208 (0.04) | 153 (0.09) | 112 (0.05) | 77 (0.04) | 48 (0.03) |
Haemophilus | 23 (0.02) | 77 (0.01) | 31 (0.02) | 36 (0.02) | 63 (0.04) | 37 (0.03) |
Betaproteobacteria | 86 (0.08) | 13160 (2.38) | 30 (0.02) | 86 (0.04) | 18 (0.01) | 22 (0.02) |
Mannheimia | 10 (0.0) | 18 (0.0) | 12 (0.01) | 18 (0.01) | 19 (0.01) | 9 (0.01) |
Aggregatibacter | 8 (0.0) | 37 (0.0) | 13 (0.0) | 18 (0.0) | 16 (0.0) | 18 (0.01) |
Klebsiella | 11 (0.0) | 58 (0.01) | 16 (0.0) | 54 (0.01) | 16 (0.0) | 14 (0.0) |
*Only organisms that were identified in all samples and with >10 reads are listed. Samples 2 and 5 were also tested at Friedrich-Loeffler-Institut by using an RNA sequencing protocol. QC, quality control.