The lung clearance index (LCI) derived from a nitrogen multiple breath washout test (N-MBW) is a promising tool to assess small airways disease in primary ciliary dyskinesia, but it is difficult to apply in routine clinical settings because of its long measuring time. In this study, we aimed to assess alternative indices derived from shorter washout protocols.49 patients with primary ciliary dyskinesia (mean age 14.7±6.6 years) and 37 controls (mean age 14.3±1.4 years) performed N-MBW and double-tracer gas (DTG) single-breath washout tests. Global (LCI and moment ratio (M/M)), conductive (S) and acinar ventilation inhomogeneity (DTG Slope III (S-DTG)) were determined for each individual. The main outcomes were 1) the ability to detect abnormal lung function from washout indices (>1.64 z-scores) and 2) measurement duration.The prevalence of abnormal values for LCI was 37 out of 47 (79%), for LCI was 34 out of 47 (72%), for M/M was 34 out of 47 (72%), for S was 36 out of 46 (78%) and for S-DTG was 12 out of 35 (34%). Mean±sd duration of measurement was 19.8±11.2 min for LCI, 10.8±4.6 min for LCI and 8.6±2.3 min for SCompared to standard LCI, ventilation inhomogeneity was detected by LCI, moment ratio and S with comparable sensitivity while measurement duration was significantly shorter. Longitudinal studies will show which outcome is most suitable and practical in terms of sensitivity, duration and variability within the course of primary ciliary dyskinesia lung disease.