Mechanism of dosage compensation, a process in which the gene expression is balanced between different biological sexes, has been studied for decades in many organisms. Whereas in some species DC affects the entire X chromosomes, it appear that many organisms exhibit local or incomplete dosage compensation and the mechanisms through which this happens remain unclear. It is therefore of interest to study which mechanisms affect the early stages of DC evolution and what epigenetic processes set the precise expression balance. In dioecious plant Silene latifolia, it was suggested that the maternal X chromosome is being compensated similar as in mammals. Nevertheless, there is a missing cytogenetic evidence that could link between previous differential chromosome labeling and recent transcriptomic studies. Here, we present how to identify parental sex chromosomes inheritance and click method adapted to Silene. We examined replication timing between autosomes and sex chromosomes in diploid females and found late replication pattern of paternal X chromosome. Further, we ask whether polyploidy disturbs the dosage compensation balance between X chromosomes in S. latifolia. We discuss future possibilities how to test DC in relation to different ploidy level and further implications to study sex chromosome DC mechanisms in plants.