Table 1.
Microbial diversity and mean relative proportions of dominant taxa in the gill and skin of the seabass Dicentrarchus labrax (seabass) across all samples and between the four different states (H = Healthy; D = Diseased; T = Treatment; R = Recovery).
| GILL | SKIN | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| All | H vs D | D vs T | T vs R | H vs R | All | H vs D | D vs T | T vs R | H vs R | |
| Alpha-diversity | ||||||||||
| Shannon |
3 (0.04) |
19.4 (0.001) | 2.6 (0.04) | 2.9 (0.1) | 19.7 (0.001) |
5.1 (0.001) |
14.1 (0.002) | 28.2 (0.002) | 1.6 (0.2) |
1.2 (0.3) |
| ACE | 0.9 (0.47) |
0.9 (0.4) |
0.4 (0.6) | 1.7 (0.2) | 4.1 (0.05) |
10.7 (8−6) |
18.2 (0.002) | 24.6 (0.002) |
2 (0.2) |
1.8 (0.2) |
| PD |
2 (0.06) |
1.6 (0.2) |
0.5 (0.6) | 3.1 (0.1) | 8.7 (0.01) |
6 (0.0001) |
21.3 (0.002) | 27.7 (0.001) | 1.4 (0.3) |
3.1 (0.1) |
| Fisher |
1.2 (0.3) |
2.2 (0.2) |
0.9 (0.4) | 2.3 (0.1) | 4.9 (0.03) |
4.2 (0.002) |
16.1 (0.003) | 21.8 (0.002) |
2 (0.2) |
1.2 (0.3) |
| Beta-diversity | ||||||||||
| Uni Un |
0.2 (9−5) |
0.1 (2−4) |
0.1 (3−4) |
0.1 (4−4) |
0.1 (9−5) |
0.2 (9−5) |
0.1 (9−5) |
0.1 (2−4) |
0.04 (4−4) |
0.1 (9−5) |
| Uni Weigh |
0.5 (9−5) |
0.3 (4-4) |
1.7 (0.2) | 0.1 (0.04) | 0.1 (0.03) |
0.4 (9−5) |
0.4 (2−4) |
0.5 (2−4) |
0.1 (0.01) | 0.1 (0.04) |
| Bray C |
0.4 (9−5) |
0.2 (9-5) |
0.2 (9−5) |
0.1 (0.002) |
0.2 (9−5) |
0.3 (9−5) |
0.2 (2−4) |
0.3 (9−5) |
0.07 (0.003) |
0.1 (9−5) |
| Phylum | ||||||||||
| Bacteroidetes |
5 (0.003) |
11.9 (0.002) | 0.5 (0.5) | 4.7 (0.04) |
2 (0.2) |
10 (2−5) |
24.9 (3−5) |
23.6 (0.0001) | 2.2 (0.2) |
1.1 (0.3) |
| Proteobacteria |
2.9 (0.04) |
5.5 (0.03) |
0.3 (0.6) | 4.2 (0.04) |
0.1 (0.7) |
10.4 (1−5) |
21.5 (8−5) |
29.7 (4−5) |
0.3 (0.6) |
1.3 (0.3) |
| Verrucomicrobia |
4.9 (0.004) |
3.8 (0.1) |
1.2 (0.3) | 5.3 (0.03) |
6 (0.02) |
3.8 (0.01) |
9.1 (0.005) | 10.2 (0.005) | 0.3 (0.6) |
0.8 (0.4) |
| Genus | ||||||||||
| NS3a marine group |
5.9 (0.001) |
11 (0.003) |
6.8 (0.02) | 1.9 (0.2) | 4.5 (0.04) |
8 (0.0001) |
11.5 (0.002) | 16.7 (0.001) | 0.02 (0.9) |
5.2 (0.03) |
| Photobacterium |
3.1 (0.03) |
3.3 (0.1) |
1.7 (0.2) | 4.4 (0.04) |
3.8 (0.1) |
— | — | — | — | — |
| Polaribacter 4 |
7.5 (0.0002) |
12.8 (0.001) | 5.5 (0.03) | 7.6 (0.01) |
3.5 (0.1) |
9.1 (4−5) |
21.6 (7−5) |
0.7 (0.4) |
6.1 (0.02) |
3.3 (0.1) |
| Polynucleobacter |
8.7 (6−5) |
75.8 (2−9) |
2.1 (0.2) | 4 (0.05) | 13 (0.001) | — | — | — | — | — |
| Pseudoalteromonas | — | — | — | — | — |
7.4 (0.0002) |
12.4 (0.002) |
6.2 (0.02) |
8.6 (0.01) |
2.6 (0.1) |
| Pseudomonas |
4 (0.01) |
7.4 (0.01) |
0.2 (0.6) |
2 (0.2) |
29.1 (2−6) |
12.6 (1−6) |
18.6 (0.0002) |
56.8 (6−7) |
1.5 (0.2) |
0.9 (0.3) |
| Rubritalea |
4.6 (0.01) |
4.4 (0.04) |
0.3 (0.6) | 3.6 (0.1) |
6 (0.02) |
— | — | — | — | — |
| Stenotrophomonas |
9.2 (4−5) |
8.5 (0.01) |
0.1 (0.8) | 1.3 (0.3) |
30.3 (1−6) |
3.5 (0.02) |
7.6 (0.01) |
8.8 (0.01) |
0.2 (0.7) |
0.3 (0.6) |
For each test we report relevant F (alpha-diversity indices and taxa proportions) or R2 (beta-diversity indices) statistic and significance (p). Significant associations are indicated in bold.