Table 2.
Oligonucleotides for molecular differentiation of Cobetia species.
| Name | Sequence | Molecular Marker * | Reference ** |
|---|---|---|---|
| 1CmNucF | 5′–TATACCATGGACGATATTCGCTCGGCCGGCCGCAA-3′ | DNA/RNA non-specific endonuclease precursor (1) and without leader peptide (2) | WP_043334786 |
| CmNucR | 5′–TATAGAGCTCTCAGTAACGTGATGGCGTACGACTG-3′ | ||
| 2CmNucF | 5′-TATACCATGGTATGGCAGGAGCGCGACTACCAGCA-3′ | ||
| CmNucR | 5′–TATAGAGCTCTCAGTAACGTGATGGCGTACGACTG -3′ | ||
| CmEEPf | 5′–TATACCATGGGACTCGACGAGACGGCACCTCCCCT -3′ | exonuclease/ endonuclease/phosphatase (EEP) |
WP_084589364 |
| CmEEPr | 5′–TATAGAGCTCTTATGCTAGCCCGATCGCCTTGCGGCA-3′ | ||
| CmPhoDf | 5′–TATACCATGGAAGGACGGCGCCCGCGCATGCCCTC-3′ | alkaline phosphatase/phosphodiesterase PhoD | WP_043333989 |
| CmPhoDr | 5′–TATAGAGCTCTTAGACACTGGCGGCGGCGGGGGTC-3′ | ||
| CmPLA_f | 5′–TATACCATGGTACTCGATGAAAGCCTGGCCCAGCA-3′ | phospholipase A | WP_084589432 |
| CmPLA_r | 5′–TATAGAGCTCTTAGGTCTCTGGCGAGCCGGCGAAG-3′ | ||
| Tryp_F | 5′–TATACCATGGTACGTGAATTGCCCGACTTCACCCA-3′ | periplasmic serine peptidase Do/DeqQ | KGA03014 |
| Tryp_R | 5′–TATACTCGAGTCACTTGTCGCTGTCGGCACGCATG-3′ | ||
| CmClp_F | 5′-TATCCATGGTAAACGACTTCGACATCAAGAATGCT-3′ | ATP-dependent caseinolytic protease Clp | KGA03297 |
| CmClp_R | 5′-TATAGAGCTCTCACTCCACGTCGGGACGGCGTTCC-3′ | ||
| X-PhoN_F | 5′-TTAACCATGGCAGAGATCAAGAATGTCATTCTGAT-3′ | alkaline phosphatase PhoA | DQ435608 |
| CmAP_R | 5′-TTAAGAATTCCTTCGCTACCACTGTCTTCAGATACTGTCC-3′ |
* The molecular markers are the enzymes, predicted according to the structural classification of the National Center for Biotechnology Information (NCBI) Conserved Domain Database [23]; ** the reference genes’ IDs are from the whole genome sequence annotation of the C. amphilecti KMM 296 (GenBank ID: JQJA00000000.1).