%0 Journal Article %T A Neanderthal/Denisovan GLI3 variant contributes to anatomical variations in mice. %A Agata A %A Ohtsuka S %A Noji R %A Gotoh H %A Ono K %A Nomura T %J Front Cell Dev Biol %V 11 %N 0 %D 2023 %M 38020913 %F 6.081 %R 10.3389/fcell.2023.1247361 %X Changes in genomic structures underlie phenotypic diversification in organisms. Amino acid-changing mutations affect pleiotropic functions of proteins, although little is known about how mutated proteins are adapted in existing developmental programs. Here we investigate the biological effects of a variant of the GLI3 transcription factor (GLI3R1537C) carried in Neanderthals and Denisovans, which are extinct hominins close to modern humans. R1537C does not compromise protein stability or GLI3 activator-dependent transcriptional activities. In contrast, R1537C affects the regulation of downstream target genes associated with developmental processes. Furthermore, genome-edited mice carrying the Neanderthal/Denisovan GLI3 mutation exhibited various alterations in skeletal morphology. Our data suggest that an extinct hominin-type GLI3 contributes to species-specific anatomical variations, which were tolerated by relaxed constraint in developmental programs during human evolution.