The role of nitric oxide synthase (NOS) in the pathophysiology of coeliac disease (CD) was investigated.We examined mRNA (reverse transcription multiplex polymerase chain reaction) and protein expression (Western blotting) of i,e and nNOS in enterocytes isolated from the duodenum of patients with untreated CD (n=22) and iron deficiency anaemia (IDA, n=22). Expression of IL1β and TNFα, two pivotal “NOS-controlling” cytokines, was also studied.Enterocytes from both patient groups were negative for eNOS and TNFα message but positive for n and iNOS. nNOS gene expression was not statistically different between groups (158.38±29.11% vs. 114.95±24.17%, IDA vs. CD, p=0.07, Mann–Whitney U). iNOS expression was higher in patients with CD when compared to patients with IDA (96.95±17.82% vs. 48.76±8.07%, p<0.006). Low levels of IL1β mRNA (15.66±3.70%) were detected in nine samples—all of these samples were isolated from patients with CD representing a positive result in 40% of coeliac patients. In support of these observations, patients with CD expressed more iNOS protein than those with IDA (159.7±14.9% vs. 69.8±20%, p<0.05).These results suggest that iNOS could be an important mediator in coeliac disease. Expression of this regulatory protein may be under the control of IL1β.