The presence of direct current (DC) injury currents in ischemic tissue is an important diagnostic indicator of pathophysiology in cortical spreading depression and particularly in myocardial infarction. To date, no measurements of DC injury currents in the alimentary tract have been reported. We used a SQUID magnetometer to measure changes in the baseline of the magnetic field of intestinal electrical activity during induced segmental ischemia. We computed the magnetic field DC baseline by subtracting sequential recordings made while the bowel segment was first directly beneath the SQUID and then pulled away. We observed a significant baseline decrease of 38% +/- 4% in experimental animals, while the control group decreased by only 1% +/- 6%. This magnetic field baseline decrease is consistent with the flow of injury currents between normally perfused and hypoxic tissue regions. This study is the first report of DC injury currents in ischemic smooth muscle of the alimentary tract.