Table 1. PCR protocol used for the confirmation of Salmonella spp. and E. coli.
|
Target bacterial species |
Target gene |
Sequence of primer |
Temperature profile |
Amplicon size (bp) |
Ref. |
|
Salmonella spp. |
invA |
F: ATCAGTACCAGTCGTCTTATCTTGAT R: TCTGTTTACCGGGCATACCAT |
Initial denaturation at 95℃ for 5 mins, Denaturation at 94℃ for 30 sec, Annealing at 52℃ for 2 mins, Extension at 72℃ for 45 sec, Final extension at 72℃ for 5 mins, Holding at 4℃, No. of cycles = 29. |
211 |
[27] |
|
Escherichia coli |
EC 16S rRNA |
F: GACCTCGGTTTAGTTCACAGA R: CACACGCTGACGCTGACCA |
Initial denaturation at 95℃ for 7 min, Denaturation at 94℃ for 1 min, Annealing at 55℃ for 1 min, Extension at 72℃ for 1 min, Final extension at 72℃ for 7 min, Holding at 4℃, No. of cycles = 35. |
585 |
[6] |
The isolates were obtained from water used during live transportation of Pangasius catfish (Pangasianodon hypophthalmus) in Bangladesh from 3 different supply channels. Forward primer: F, and reverse primer: R.