The hindgut, as a part of the tick excretory system, plays an important physiological role in maintaining homeostasis and waste elimination. Immunoreactive projections from the synganglion to the hindgut were found using antibodies against four different neuropeptides: FGLamide related allatostatin (FGLa/AST), myoinhibitory peptide (MIP), SIFamide, and orcokinin. The presence of FGLa/AST, MIP and SIFamide in both synganglia (source) and hindgut (target organ) extracts was confirmed by MALDI-TOF. Tissue-specific PCR revealed the expression of four putative FGLa/AST receptors and an SIFamide receptor (SIFa-R) in the hindgut. An antibody against Ixodes scapularis SIFa-R detected immunoreactive spots in epithelial cells as well as the visceral muscles surrounding the rectal sac, while staining with the antibody against MIP receptor 1 (MIP-R1) revealed that the immunoreactivity was only associated with the visceral muscles. In hindgut motility assays, SIFamide activated hindgut motility in a dose-dependent manner. None of other three neuropeptides (FGLa/AST, MIP and orcokinin) activated hindgut motility when tested alone. MIP antagonized the SIFamide-stimulated hindgut mobility when it was tested in combination with SIFamide.