Background: Epidemiological and clinical studies have suggested comorbidity between amyotrophic lateral sclerosis (ALS) and obesity-related traits. However, little is known about their shared genetic architecture.Objective: To examine whether there exist genetic enrichment between ALS and eleven obesity-related traits, including body mass index (BMI), waist hip ratio, body fat percentage (BFP), birth weight, triglycerides, total cholesterol, low-density lipoprotein cholesterol (LDL-C), high-density lipoprotein cholesterol (HDL-C), type 2 diabetes (T2D), fasting glucose, fasting insulin, and identify shared loci among them.Methods: Using the conditional false discovery rate (FDR) statistical framework, we analyzed genome wide association summary statistics for ALS (n=80610) and obesity-related traits, and further conducted functional enrichment analysis.Results: Robust genetic enrichment was observed for ALS conditional on BMI, BFP, HDL-C, LDL-C and T2D, but minimal enrichment on the other traits. 9 shared genetic loci with conjunctional FDR < 0.05 was identified, among which 6 were replicated in a second ALS cohort, including rs3849942 (C9orf72), rs170663 (G2E3), rs8018993 (SCFD1), rs978220 (ATXN3), rs62333164 (CLCN3) and rs12603276 (GGNBP2). We further identified GGNBP2 as a novel potential ALS risk gene, by integrating cis-expression quantitative trait loci analysis in human brain tissue and summary-data-based Mendelian randomization analysis. Functional analysis indicated the shared risk genes were involved in pathways membrane trafficking and vesicle-mediated transport.Conclusions: Our findings demonstrate selective genetic overlap between ALS and obesity-related traits, and identified new shared risk loci, including novel potential ALS risk gene GGNBP2. These results provide better understanding for the pleiotropy of ALS and have implications for future therapeutic trials.