Abstract Background and Aims Chronic kidney disease (CKD) is one of the prevalent diseases worldwide leading to increasing global disease burden, however, comprehensive studies of the subsequently developed disease outcomes are lacking. We aimed to explore the associations between CKD and a broad range of following disease conditions. Method Polygenic risk score (PRS) of 347308 white participants in UK Biobank were calculated using PLINK1.9 software with summing of risk alleles weighted by the effect sizes of. Genome-wide association study (GWAS) summary statistical data of CKD from CKDGen consortium was utilized as base data. The phenome codes of disease outcomes were derived from the primary and secondary diagnoses of ICD-10 and ICD-9 codes in the HSE records in the U.K. Biobank. Then, the association between genetically predicted eGFR and following disease outcomes were evaluated using logistic regression adjusting for age (continuous variables), sex (male/female), assessment cancer (category variables), and the first 10 genetic principal components (PCs) (continuous variables). PRS of eGFR was scaled to a unit reflecting one SD (equals to 1) decrease of PRS. We applied the Bonferroni correction (P threshold = 0.05/665 phecodes = 7.52 × 10−5) to correct for multiple testing. Results Totally, 261,254 SNPs (pruned by r2 < 0.1 within the 250 kb region, P < 0.4) from base data were retained for PRS calculation. Our PheWas identified that one standard deviation (SD) increase in the PRS of CKD significantly associated with chronic renal failure (OR = 1.16, 95% CI: 1.14-1.18, P = 2.01 × 10−66), essential (primary) hypertension (OR = 1.05, 95% CI: 1.04-1.06, P = 2.12 × 10−29), hypertensive renal disease (OR = 1.22, 95% CI: 1.16-1.29, P = 3.81 × 10−14), gout (OR = 1.09, 95% CI: 1.07-1.12, P = 6.57 × 10−13), intestinal malabsorption (OR = 1.12, 95% CI: 1.08-1.16, P = 6.71 × 10−9), acute renal failure (OR = 1.05, 95% CI: 1.03-1.07, P = 2.08 × 10−8), disorders of lipoprotein metabolism and other lipidaemias (OR = 1.03, 95% CI: 1.01-1.04, P = 9.11 × 10−7), non-insulin-dependent diabetes mellitus (OR = 1.03, 95% CI: 1.02-1.04, P = 3.11 × 10−6), obesity (OR = 1.03, 95% CI: 1.02-1.05, P = 3.13 × 10−6), unspecified renal failure (OR = 1.11, 95% CI: 1.06-1.16, P = 1.18 × 10−5), chronic ischaemic heart disease (OR = 1.03, 95% CI: 1.01-1.04, P = 1.52 × 10−5). Conclusion Increased risk of CKD significantly associated with a series of subsequent conditions, providing evidence for prevention of following diseases in patients with CKD.