TABLE 2.
Primers used to genotype M. avium strains
| Target sequencea | Primer 1 (forward) | Primer 2 (reverse) | Primer 3 (reverse) |
|---|---|---|---|
| LSPjn | ACACACCGACCAGAGAGGAG | CGATCCAGAGGCTGAAGATG | ACAACTTCGCCAAGGTCATC |
| SSR locus 1 | GTGTTCGGCAAAGTCGTTGT | TCAGACTGTGCGGTATGGAA | |
| SSR locus 2 | GTGACCAGTGTTTCCGTGTG | TGCACTTGCACGACTCTAGG | |
| SSR locus 8 | AGATGTCGACCATCCTGACC | AAGTAGGCGTAACCCCGTTC | |
| SSR locus 9 | GACAAGTTCGGGTTGACCAC | AGTTCCTCGACCCAGTCGT | |
| 16S rRNA | AGAGTTTGATCCTGGCTCAG | GTATTACCGCGGCTGCTG | |
| Hsp65 (3′ end) | CGGTTCGACAAGGGTTACAT | ACGGACTCAGAAGTCCATGC |
a
Testing for the presence or absence of LSPjn was performed using three primers in a multiplex PCR reaction, such that a 233-bp product is expected if the sequence is present (primers 1 and 3) and a 396-bp product is expected if the sequence is missing (primers 1 and 2). SSR, short sequence repeat. Locus 1 and locus 2 are mononucleotide (G) repeats; locus 8 and locus 9 are variable-number trinucleotide repeats.