Common bean is the main source of protein, fiber, and iron for Guatemalan's poorest households; however, bean rust can cause up to 100% yield losses. There is limited information about bean rust in Guatemala, especially at mid-altitude highlands. During 2015, 23 bean rust samples were collected in the Western Guatemalan Highlands and 17 isolates where characterized, as a result, races 63-1 and 31-1 were identified. Those were used to evaluate rust resistance by using 372 Guatemalan climbing beans. In total, 82% of accessions were resistant to race 63-1, 86% to race 31-1, and 90% to race 20-3. Based on GWAS results (78,754 SNPs) the Pv02 (38.13 Mb-38.22Mb) and Pv04 (379 kb) regions were associated with resistance to race 20-3. The Pv10 (10.71-10.68 Mb and 11.09 Mb) and Pv04 (1.42 MB) regions control resistance to race 63-1. And, the Pv04 (39.28 Mb) and Pv02 (35.92 Mb) control resistance to race 31-1.