Recently, crustacean hyperglycaemic hormone (CHH) has gained wide attention for its diverse physiological functions. In this study, two cDNA sequences encoding CHH, Sp-CHH1 and Sp-CHH2, were cloned from the eyestalk ganglia of the mud crab, Scylla paramamosain. Each conceptually translated precursor is expected to be processed into the signal peptide, the crustacean hyperglycaemic hormone precursor-related peptide (CPRP) and the CHH mature peptide. Sp-CHH1 and Sp-CHH2 share an identical sequence for the first 40 residues from the amino-terminus of the peptides, but substantially different from each other in the C-terminus. Quantitative real-time PCR (qPCR) showed that Sp-CHH transcripts were mainly detected in the eyestalk ganglia and to a much lesser extent in the brain, thoracic ganglia, stomach, hepatopancreas, heart and muscle. RNA in situ hybridization in the eyestalk ganglia indicated that the Sp-CHH was localized in the perikarya of neuroendocrine cells belonging to the X-organ of the medulla terminalis. Moreover, Sp-CHH transcripts were stage-specific changed during the moulting cycle, as it increased significantly from postmoult stage to intermoult stage, then decreased sharply at premoult stage. Sp-CHH expression levels in the eyestalk ganglia were also examined at different ovarian stages (stage I to stage V). It was found that the expression was gradually increased from stage I to stage IV, and then it was decreased at stage V. All the findings together suggested that Sp-CHH should be pleiotropic, which might inhibit the synthesis of ecdysteroids by Y-organs and be involved in promoting vitellogenesis in the mud crab.