Reactivation of BK virus in renal allografts causes a destructive chronic infection. This single-center retrospective cohort study describes the evolution of BK virus allograft nephropathy (BKVAN) from 63 kidneys (from 61 patients) using sequential histopathology (454 biopsies, averaging 7.8 AE 2.6 per kidney) followed for 60.1 mo. Uninfected protocol biopsies formulated time-matched control Banff scores (n = 975). Interstitial inflammation occurred in 73% at diagnosis, correlating with viral histopathology (r = 0.413, p = 0.008) and amplifying early injury with accelerated interstitial fibrosis and tubular atrophy (IF/TA, p = 0.017) by 3 mo. Prodromal simian virus 40 large T antigen (SV40T)-negative inflammation with viremia preceded the histological diagnosis in 23.8%. Persistent subacute injury from viral cytopathic effect was associated with acute tubular necrosis and ongoing interstitial inflammation, culminating in IF/ TA in 86.9%. Overall, cellular interstitial infiltration mitigated the intensity of subsequent tubular injury, SV40T, and tissue viral load, assessed by sequential paired histology (p < 0.001). Graft loss was predicted by high-level viremia (hazard ratio [HR] 4.996, 95% CI 2.19-11.396, p < 0.001), deceased donor (HR 3.201, 95% CI 1.149-8.915, p = 0.026), and late acute rejection (HR 3.124, 95% CI 1.037-9.413, p = 0.043). Transplant failure occurred in 38.1%, with uncontrolled infection (58.3%) and SV40T-negative chronic rejection (41.7%) causing losses. BKVAN is characterized by subacute virus-induced tubular injury, inflammation, and progressive nephron destruction. Effective antiviral therapy remains an unmet clinical need.Abbreviations: ATN, acute tubular necrosis; BFC, biopsy for cause; BKVAN, BK virus allograft nephropathy; CMV, cytomegalovirus; DSA, donorspecific antibody; HR, hazard ratio; IF, interstitial fibrosis; IQR, interquartile range; Ln, natural logarithm (base e) to transform viral load data; NS, not significant; SV40T, simian virus 40 large T antigen; TA, tubular atrophy This single-center cohort study describes the evolution of BKVAN following reduced immunosuppression using sequential histopathology starting from the index diagnostic biopsy and then analysis of previous and subsequent pathology until graft failure. We routinely undertake protocol biopsy at implantation and 1, 3, and 12 mo after transplant, supplemented by progress and additional indication pathology. We compared BKVAN histology scores against normative Banff scores from 2065