Table 7.
Primers and probe used for PCR testing in this study.
| Oligonucleotide | Type | Sequence |
|---|---|---|
| BsppITS325s | Sense primer | 5’ CCTCAGATGATGATCCCAAGCCTTCTGGCG 3’ |
| BsppITS543as | Antisense primer | 5’ AATTGGTGGGCCTGGGAGGACTTG 3’ |
| BsppITS1100as | Antisense primer | 5’ GAACCGACGACCCCCTGCTTGCAAAGCA 3’ |
| BsppITS438 | TaqMan probe | 5’ FAM-AGGTTTTCC/ZEN/GGTTTATCCCGGAGGGC-IABkFQ 3’ |
| Bkoehl-1s | Sense primer | 5’ CTTCTAAAATATCGCTTCTAAAAATTGGCATGC 3’ |
| Bkoehl1125as | Antisense primer | 5’ GCCTTTTTTGGTGACAAGCACTTTTCTTAAG 3’ |
| Sequencing analysis | ||
PCR amplicon DNA sequencing was performed by a commercial company (Genewiz, Research. Triangle Park, NC). Chromatogram evaluation and sequence alignments were performed using ContigExpress and AlignX software (Vector NTI Suite 10.1, Invitrogen Corp., Carlsbad, CA). Bacteria species and genotype were defined by comparing similarities with other sequences deposited in the GenBank database using the Basic Local Alignment Search Tool (Blast v. 2.0), and an in-house curated database (Align X, Vector-NTI-Invitrogen).