This article presents the construction of high-density molecular linkage maps for the tomato and potato genomes, comprising over 1000 markers with an average spacing of 1.2 cM. These maps allow for precise identification of chromosomal inversions, with all inversions resulting from single breakpoints near centromeres. The study reveals significant heterogeneity in crossing over within chromosomes, with centromeric and telomeric regions experiencing up to 10-fold less recombination. Approximately 28% of mapped loci are in areas of suppressed recombination, including both random genomic clones and transcribed genes. The maps have practical applications in chromosome walking, marker-assisted breeding, and evolutionary studies. The research also compares the tomato and potato genomes, identifying five chromosomal inversions. The study highlights the importance of high-density maps in understanding genetic structure and facilitating crop improvement.This article presents the construction of high-density molecular linkage maps for the tomato and potato genomes, comprising over 1000 markers with an average spacing of 1.2 cM. These maps allow for precise identification of chromosomal inversions, with all inversions resulting from single breakpoints near centromeres. The study reveals significant heterogeneity in crossing over within chromosomes, with centromeric and telomeric regions experiencing up to 10-fold less recombination. Approximately 28% of mapped loci are in areas of suppressed recombination, including both random genomic clones and transcribed genes. The maps have practical applications in chromosome walking, marker-assisted breeding, and evolutionary studies. The research also compares the tomato and potato genomes, identifying five chromosomal inversions. The study highlights the importance of high-density maps in understanding genetic structure and facilitating crop improvement.