Fluorescence in situ hybridization (FISH) using oligonucleotide-based probes is an innovative modification of classic FISH techniques, enabling karyotypic identifications. Here, we exemplarily describe the design and in silico visualization of oligonucleotide-based probes derived from the Cucumis sativus genome. Additionally, the probes are also plotted comparatively to the closely related Cucumis melo genome. The visualization process is realized in R using various libraries for linear or circular plots including RIdeogram, KaryoploteR, and Circlize.
Keywords: Comparative genomics; FISH; Hybrid genomes; Oligo-FISH; Phylogenomics; R; Visualization.
© 2023. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.