Table 1. Polymorphism of the exons encoding the pathogen-recognition extracellular domains of Toll-like receptor genes among Stewart Island robin Petroica australis rakiura founders of Ulva Island.
| Gene (target exon) | N 1 | Fragment length (bp) | Observed haplotypes | SNPs | Amino acids | syn∶nsyn | π (±SE)2 | Genbank accession |
| TLR1LA (ex 2) | 10 founders (+2 & 5) | 1,166 | 2 | 172: C/T | Arg/Trp | 1∶1 | 8.89 (6.84) | JX502625: JX502627 |
| 291: G/A | Ser | |||||||
| TLR1LB (ex 1) | 10 founders (+2 & 5) | 971 | 2 | 154: C/T | Leu | 2∶1 | 16.01 (11.04) | JX502628: JX502630 |
| 185: C/T | Ala/Val | |||||||
| 369: G/A | Val | |||||||
| TLR2A (ex 2) | 10 founders (+6 & 5) | 1,034 | 2 | 891: C/T | Gly | 1∶0 | 5.01 (4.86) | JX502631: JX502633 |
| TLR2B (ex 2) | 10 founders (+7 & 6) | 1,021 | 3 | 108: G/A | Glu | 4∶1 | 21.40 (13.68) | JX502634: JX502637 |
| 324: C/T | Asn | |||||||
| 632: C/T | Thr/Met | |||||||
| 645: C/T | Asn | |||||||
| 846: G/A | Arg | |||||||
| TLR3 (ex 4) | 9 founders (+53 & 5) | 1,087 | 1 | (none) | - | - | - | JX502638 |
| TLR4 (ex 3) | 10 founders (+5 & 6) | 649 | 5 | 94: A/C/T | Ile/Leu/Phe | 0∶4 | 27.13 (18.17) | JX502639: JX502644 |
| 142: C/T | Leu/Phe | |||||||
| 220: A/T | Thr/Ser | |||||||
| 520: G/A | Asp/Asn | |||||||
| TLR5 (ex 1) | 10 founders (+2 & 5) | 1,229 | 3 | 371: G/A | Arg/Gln | 0∶2 | 4.66 (4.36) | JX502645: JX502648 |
| 817: G/T | Asp/Tyr | |||||||
| TLR7 (ex 2)4 | 10 founders (+6 & 7) | 1,0105 | ≥2 | 162: G/A | Asn/Asp | 0∶3 | N/A4 | JX502657: JX502665 |
| 672: C/T | Pro/Ser | |||||||
| 723: G/A | Ser/Gly | |||||||
| TLR15 (ex 1) | 10 founders (+6 & 6) | 1,279 | 2 | 997: G/A | Asp/Asn | 0∶1 | 0.65 (1.40) | JX502649: JX502651 |
| TLR21 (ex 1) | 10 founders (+7 & 7) | 618 | 4 | 118: G/A | Asn/Asp | 1∶2 | 14.42 (11.62) | JX502652: JX502656 |
| 169: C/T | Arg/Trp | |||||||
| 300: G/A | Pro | |||||||
| Mean | 1,006 | ≥2.6 | 2.4 | 9∶15 |
1
Numbers in brackets are the number of offspring used to infer the genotypes of the missing 11th (female) and 12th (male) founders. See Methods.
2
Nucleotide diversity (×104).
3
These five birds are also the offspring of the 10th founder that could not be genotyped for this locus.
4
TLR7 primers co-amplified two loci, excludes SNPs that clearly do not follow Mendelian inheritance (likely to be fixed differences). Genotypes could not be inferred.
5
Length of cloned product (see Results); initial, population-level sequence analyses were based on directly sequenced PCR products (sequence length = 947 bp).