Problem statement: The genetic diversity of Barbodes species in Thailand is presently unavailable. The objectives of this study were to study external morphology and genetic diversity using Randomly Amplified Polymorphic DNA-Polymerase Chain Reaction (RAPD-PCR) of three Barbodes species; Barbodes altus, B. gonionotus and Barbodes sp. Approach: Two of twelve screened decanucleotide primers (OPA07 and UBC122), were selected for the genetic analysis of Barbodes genera. Results: Thirty-five reproducible and polymorphic fragments (250-2150 bp in length) were generated across the investigated species. The percentages of polymorphic band were 7.69, 3.85 and 6.25% for B. altus, B. gonionotus and Barbodes sp., respectively. The UPGMA indicated a similarity coefficient between B. gonionotus and Barbodes sp. up to 90%. The candidate species-specific marker of UBC122 primer was found in only Barbodes sp. Conclusion: This approach indicates that Barbodes sp. may be a variant species of B. gonionotus.