• Candida auris isolates are susceptible to sphingolipid inhibitors myriocin and aureobasidin A. • The distribution of sphingolipid species is distinct among C. auris isolates resistant to different antifungals. • Phytoceramides are the most abundant class of sphingolipid. • Cer(d18:1/18:1) is the major of ceramide species in C. auris . • d19:2 glucosylceramide backbone is typically in abundance in AmB resistant C. auris isolates.