Improved systems and methods for collecting, isolating and analyzing trophoblasts from the endocervical canal for prenatal genetic testing are disclosed. Particularly, an endocervical sample collection device is disclosed, where that collection device is enhanced with surface nanostructures/microstructures and functionalized with trophoblast specific antibodies to allow the collection device to preferentially adhere to and pick up fetal trophoblasts as opposed to maternal cells and/or non-cellular materials such as endocervical mucus. In addition, a non-caustic mucolytic preparation for treating endocervical sample to remove mucus while keeping the trophoblast cells intact and viable for downstream culturing and processing is disclosed.