Abstract:This paper mainly discussed the phylogenetic relationship between Pteris fauriei and Pteris biaurita based on the combined rps4-trnS region sequences of Pteridaceae and the allied groups that have been published in GenBank. The result showed that: no significant difference between chloroplast rps4-trnS region sequences of P.fauriei and P.biaurita was detected. Therefore, P.fauriei and P.biaurita are most probably conspecific or variant relations based on our phylogenetic analysis combining the evidences of morphological characteristics of their sporophytes and gametophytes.