Objectives: Loss of ATP plays crucial roles in the progression of acute kidney injury (AKI) by renal ischemia, however, region specific alteration of adenine nucleotides under transient ischemia has not been elucidated yet. Imaging mass spectrometry (IMS) with metabolome analysis is a novel technique to quantify regional distribution of small-molecule metabolites. To elucidate the distribution of adenine nucleotides (ATP, ADP and AMP) after transient ischemia, we applied the imaging technique to the murine kidney. Methods: Distributions of adenine nucleotides in the normal kidney, ischemic kidney (renal artery clipping for 10 minutes), and ischemic kidney after re-perfusion (re-perfused for 24 hours after ischemia for 10 minutes) in C57Bl6 mice were visualized by IMS. Febuxostat, a xanthine oxidase inhibitor which suppresses the degradation pathway of adenine nucleotides, was administrated with drinking water during the re-perfusion period. Results: In the normal kidney, ATP was significantly rich in both the cortex and outer medulla. After transient ischemia, ATP in the cortex degraded and the energy charge value decreased within a minute. ATP in the inner medulla did not decrease within a minute and needed 10 minutes to start decreasing. During the 24 hours re-perfusion after 10 minutes ischemia, recovery of total adenylates in the cortex was not sufficient. The administration of febuxostat in accordance with the re-perfusion period promoted the recovery of ATP level in the cortex. The reduction of renal function after ischemia were suppressed by febuxostat treatment. Conclusion: IMS revealed the region-specific alteration of phosphorylated adenosine the ischemic kidney and the novel effect of febuxostat on the restoration of adenine nucleotides and ATP in the cortex after transient ischemia.