We used laser microdissection and pressure catapulting (LMPC) to isolate and subsequently recultivate cells from the colorectal cancer cell line HCT116. Cell isolation and recultivation was repeated 5 times from the preceding cell culture. The chromosomal composition of the HCT116 cells was analyzed at the beginning and after each recultivation. We did not observe any additional chromosomal structural or copy number changes during this procedure. Our data suggest that the procedure of cell isolation by LMPC and subsequent recultivation does not affect the karyotype of the respective cells. This technology will facilitate the analysis of different cell populations in a heterogeneous tumor cell population.