Table 4.
Results obtained with designed probes with total DNA extracted from the contaminated soil S3.
| Gene name | phnA1a | phnA2a | ahdA1c | ahdA2c | bphB | bphC | bphA3 | ahdA4 | |
|---|---|---|---|---|---|---|---|---|---|
| Targeted region | A | B | B | A | B | A | B | B | A |
|
Total number of specific probes |
256 | 128 | 1024 | 1024 | 768 | 768 | 128 | 768 | 1024 |
|
Number of specific probes giving a positive signal (SNR' > 3) |
0 | 37 | 204 | 18 | 1 | 36 | 16 | 44 | 2 |
|
Percentage of probes giving a positive signal (SNR' > 3) |
0 | 28.90 | 19.92 | 1.75 | 0.13 | 4.68 | 12.50 | 5.72 | 0.19 |
|
Highest median SNR' obtained for each targeted region |
0 ± 0.00 |
9.47 ± 0.70 |
42.85 ± 5.83 |
7.05 ± 1.37 |
4.29 ± 1.71 |
6.33 ± 2.05 |
4.43 ± 1.31 |
8.84 ± 2.15 |
3.48 ± 0.98 |
For each degenerate probe defined targeting one particular region (A or B) of genes (phnA1a, phnA2a, ahdA1c, ahdA2c, bphB, bphC, bphA3 and ahdA4), total number of specific probes stemming from the degenerate sequence, total number of specific probes giving a 'positive' signal (with a SNR' > 3), probe percentage giving a 'positive' signal and highest signal median SNR' visualized for each targeted region of each gene.