Atlantic Puffin (Fratercula arctica) single-nucleotide polymorphism (SNP) datasets

Blood samples were collected from Atlantic Puffins breeding at five colonies in Atlantic Canada. DNA was extracted using a DNeasy Blood and Tissue DNA Kit from Qiagen. Triple digest genotype-by-sequencing (3D-GbS) library preparation was performed using three restriction enzymes (PstI/NsiI/MspI). Samples were sequenced on one lane using 150 bp, paired-end sequencing with an Illumina NovaSeq 6000. Data were assembled with Stacks v.2.6.1, see publication for full methodological details. Filtered SNP datasets used in genetic analyses are included here.