Integration of IgM ELISA and 56 kDa gene PCR in management of pediatric acute encephalitis syndrome associated with scrub typhus

•This study examines a novel gene 27 kDa for scrub typhus (ST) detection in AES cases.•56 kDa gene has higher sensitivity for ST detection than other reported genes.•64.4 % of AES cases negative for IgM Antibody of ST were positive by 56 kDa gene PCR.•Integration of IgM ELISA and 56 kDa:PCR may contribute to management of AES cases with ST.•Gilliam and Karp were the predominant strains of Orientia among AES patients.