English: TreeView Images of Examples of Great Ape and human lineage-specific Gene Copy Number Increases and Decreases

Interhominoid cDNA aCGH was carried out as described in the text and Materials and Methods. Specific test DNAs were, left to right, human (H) (n = 5), bonobo (B) (n = 3), chimpanzee (C) (n = 4), gorilla (G) (n = 3), and orangutan (O) (n = 3). Each horizontal row represents aCGH data for one cDNA clone on the microarray, while each vertical column represents data from one microarray experiment. Regions shown contain LS genes (vertical black lines) and adjacent flanking genes ordered by chromosome map position using the UCSC Golden Path genome assembly (http://genome.ucsc.edu), November 2002 sequence freeze. Arrows denote for which hominoid lineage the copy number change is unique. Note that fluorescence ratios (pseudocolor scale indicated) reflect copy number changes relative to the human genome. For great ape LS changes, red signal is interpreted according to parsimony as increased gene copy number, and green signal as decreased gene copy number in the specific ape lineage, while increased or decreased gene copy number specific to the human lineage is represented by green or red signal, respectively, in all the great ape lineages. Gray signal indicates cDNA comparisons scored as absent. Estimates of the time at which indicated branch points occurred during hominoid evolution are derived from Chen and Li (2001).

doi:10.1371/journal.pbio.0020207.g001