Two areas of the Iberian Peninsula (south and central regions) were sampled in order to determine prevalence and genetic diversity of APV in house sparrows. In central Spain (Madrid and Caceres provinces) we surveyed seven different locations between November (2012) and June (2013). In South Spain (Huelva province) 15 different sites were surveyed from July to October 2013 and from June to August 2014. Some of the sampling sites were located inside or close to protected areas, including the Doñana National Park and wetlands included in the Natura 2000 Network. In South Spain, sampling sites were geographically clustered in trios formed of an urban area (human inhabited areas in small towns or villages), an agricultural area (areas with a high presence of farm animals, usually cows, horses and/or hens) and natural areas (with low presence of humans and livestock). There were five clusters totalling 15 different sampling areas.