TABLE 1.
spd-3 SNP map
| Cosmid | Primers | Enzyme |
|---|---|---|
| C31H1 | AAAACTGGTCGAGGCACAC | HpyCH4IV |
| AGCCACGTAGCCACTGTAAC | ||
| C49A9 | TTTTGTTGTCGCATCACTTCTG | SspI |
| AACTTCTAAATGCTGCCCTTCC | ||
| T13A10 | GCTTGAGTGCCAGTTGTTATGTG | — |
| CTGCGGAAAAGGGTATGAGAA | ||
| Y73B6Bl | CCTGCAGGTGCGGATTGAG | — |
| CTAACCGATGCGCTGTGAACG | ||
| F38A5 | GCACCATCTTCTGCTCCAAC | XbaI |
| TTAACCTTTGGAGTGACTGCG | ||
| Y73B6A | TTATAGCTTGAACAACGGGACATC | — |
| CTCATTCGTTCGTGCTATTTCTCT | ||
| H34C03 | TCCGCCAATTTCCAC | — |
| CATCATGCGCCCACTTCT | ||
| R13H7 | ACAAGATCGTTTTCAGGGTCAAT | — |
| AGGGGGAGAATAAAACATCGTAA | ||
| B0478 | AAGAAGTGCCACCCAAAAAGAG | — |
| AAACCTAGCCGCCAAATGAC | ||
| C25A8 | CCCTTATGCCATTACTTATTCGTG | — |
| GTCGCCGGCGTTTTTACTTT | ||
| Y43B11AR | TTCGCAGTAGTAAAAGGTAAACAA | BsrSI |
| CGGCGACGGCGAGAAGT | ||
| D2024 | TAACCGCCACGAAAAAGATAGGAT | — |
| GGGACTTAGAATTACTGCGTTTGA | ||
| C48A7 | TGGTGCACGAAGAAGGAAGAG | DraI |
| GCCCCCGGAAATCAGAAATG | ||
| R05G6 | GGTGTTCAAACATGCGACG | PstI |
| TTTGGACGGATAGCTACATACG |
A single-nucleotide polymorphism (SNP) map was designed for spd-3 mapping. Primers were designed using DNAStar Lasergene PrimerSelect and used to amplify ∼1 kb of DNA containing a SNP between the Bristol and the Hawaiian strain. Several of these SNPs were contained in restriction enzyme cut sites in one strain but not the other, in which case the appropriate restriction enzymes were used to determine the genotype of the recombinant strain. In other cases, strains were genotyped by sequencing (no enzyme listed).