Subdivisions of Ladinian–Carnian boundary beds and the lower Carnian strata in South China are challenging owing to a paucity of west Tethyan ammonoids. We investigated a conodont fauna in a continuous section at Yize in eastern Yunnan Province to provide a biostratigraphic solution. Five genera and 24 conodont species are recognized, and five conodont zones are established. The zones are, in ascending order, the Paragondolella inclinata Zone, the Quadralella polygnathiformis Zone, the Quadralella praelindae Zone, the Quadralella auriformis Zone and the Quadralella robusta Zone. The Ladinian–Carnian boundary is provisionally defined by the first occurrences of Quadralella polygnathiformis and Quadralella intermedia in the cherty limestone member of the Zhuganpo Formation. Regional correlations via conodont biostratigraphy indicate that the Zhuganpo Formation is probably diachronous, with a maximal range spanning the upper Ladinian to the lower Carnian. Amongst all common late Ladinian – early Carnian conodont genera, Paragondolella, Quadralella and Mazzaella are probably cosmopolitan. Budurovignathus was restricted to a few basins and probably preferred offshore or deep-water environments.