Table 1.
Data generated for contributions to this special issue using reduced representation GBS methods
| Study | Organism | Method | # loci analysed | # samples | # groups | Study goals |
|---|---|---|---|---|---|---|
| Catchen et al. | Threespine stickleback (Gasterosteus aculeatus) | Single-end RAD-seq* | 25 679 | 578 inds | 9 pops | Phylogeography |
| Corrander et al. | Herring (Clupea harengus) | Single-end RAD-seq* | 5 985 | 2 pools | 2 pops | Population differentiation |
| Davey et al. | Caenorhabditis elegans | Paired-end RAD-seq* | 24 828 | 24 pools | 1 laboratory strain | Quantification of technical bias |
| DeWit & Palumbi | Red abalone (Haliotis rufescens) | Transcriptome sequencing | 21 579 | 39 inds | 3 pops | Population structure; identification of outlier loci |
| Gagnaire et al. | Lake whitefish (Coregonus clupeaformis) | Single-end RAD-seq* | 3438 | 102 inds | 1 hybrid backcross family | QTL mapping |
| Hecht et al. | Rainbow/steelhead trout (Oncorhynchus mykiss) | Single-end RAD-seq* | 12 073 | 189 inds | 2 pops | Genome-wide association mapping |
| Hess et al. | Pacific lamprey (Entosphenus tridentatus) | Single-end RAD-seq* | 4439 | 518 inds | 21 pops | Phylogeography; identification of outlier loci |
| Hohenlohe et al. | Westslope cutthroat trout (Oncorhynchus clarkii lewisi) | Paired-end RAD-seq* | 77 141 | 97 inds | 5 pops | Estimation of admixture |
| Hyma & Fay | Yeast (Saccharomyces cerevisiae & S. paradoxus) | Single-end RAD-seq* | 5425 (S.c.); 9809 (S.p.) | 77 inds | 8 pops | Population structure |
| Jones et al. | Swordtail fish (Xiphophorus spp.) | Single-end double-digest RAD-seq† | 149 362 | 139 | 26 species | Phylogenetic reconstruction |
| Keller et al. | Cichlid fish (Pundamilia spp. & Mbipia spp.) | Single-end RAD-seq* | 10 663 | 50 inds | 5 species | Population structure; phylogenetic reconstruction; identification of outlier loci |
| Narum et al. | Redband trout (Oncorhynchus mykiss gairdneri) | Single-end RAD-seq* | 10 685 | 774 inds | 2 pops + 1 F1 family | Association mapping |
| Ogden et al. | Sturgeon (Acipenser spp.) | Paired-end RAD-seq* | 48 731 | 4 pools + 8 inds | 4 species from 6 sites | SNP discovery; population structure |
| Reitzel et al. | Sea anemone (Nematostella vectensis) | Single-end RAD-seq* | 4065 | 30 inds | 4 pops | Phylogeography; identification of outlier loci |
| Richards et al. | Land snail (Cepaea nemoralis) | Single-end RAD-seq* | 57 750 | 26 inds | 1 laboratory cross | Linkage mapping |
| Roda et al. | Groundsel (Senecio spp.) | Single-end RAD-seq* | 29 307 | 29 pools | 29 pops | Phylogenetic reconstruction; identification of outlier loci |
| Roesti et al. | Threespine stickleback (Gasterosteus aculeatus) | Single-end RAD-seq* | 1872 | 282 inds | 1 F2 cross | Mapping of recombination rate; sex chromosome evolution |
| Senn et al. | Eurasian beaver (Castor fiber) | Paired-end RAD-seq* | 30 201 | 10 inds | 3 | SNP discovery |
| Takahashi et al. | Cichlid fish (Cyprichromis leptosoma) | Single-end RAD-seq* | 11 123 | 14 + 78 inds | F2 cross + 1 wild population | Linkage mapping |
| Wang et al. | Birch (Betula spp.) | Single-end RAD-seq* | ~43 000 | 15 inds | n/a | SNP discovery |
| White et al. | Bank vole (Myodes glareolus) | Genotyping-by-Sequencing‡ | 5979 | 281 inds | 14 pops | Genetic diversity |
Abbreviations for populations = pops, individuals = inds.