Genome-wide Association study of facial morphology identifies novel genetic loci in Han Chinese

Huang, Y.; Li, D.; Qiao, L.; Liu, Y.; Peng, Q.; Wu, S.; Zhang, M.; Yang, Y.; Tan, J.; Xu, S.; Jin, L.; Wang, S.; Tang, K.; Grünewald, S.

doi:10.1101/691584

bioRxiv · 10.1101/691584

Genome-wide Association study of facial morphology identifies novel genetic loci in Han Chinese

Huang, Y.·Li, D.·Qiao, L.·Liu, Y.·Peng, Q.·Wu, S.·Zhang, M.·Yang, Y.·Tan, J.·Xu, S.·Jin, L.·Wang, S.·Tang, K.·Grünewald, S.

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Abstract

Human face is a heritable surface with many complex sensory organs. In recent years, many genetic loci associated with facial features have been reported in different populations, yet there is a lack for the Han Chinese population. We report a genome-wide association analysis of 3D normal human faces in 2659 Han Chinese with two groups of phenotypes, the partial and whole face phenotypes and the distance and angle phenotypes. We found significant signals in five genomic regions with traits related to nose or eyes, including rs970797 in 2q31.1 near HOXD1 and MTX2, rs16897517 in 8q22.2 at intron of VPS13B, rs9995821 in 4q31.3 near DCHS2 and SFRP2, rs12636297 in 3q23 near PISRT1, and rs12948076 in 17q24.3 near SOX9 and CASC17. We visualized changes in facial morphology by comparing the volume of local areas and observed that these nose-related loci were associated with different features of the nose, including nose prominence, nasion height, and nostril shape, suggesting that the nose underlies precise genetic regulation. These results provide a more comprehensive understanding of the relationship between genetic loci and human facial morphology.\n\nAuthor SummaryHuman face as a combination of delicate sensory organs has a strong genetic component, as evidenced by the identical appearance in twins and shared facial features in close relatives. Although facial genetics have been studied in different populations, our knowledge between genetic markers with facial features is still limited. In this paper, we found genetic variants associated with nose and eyes through a large-scale high-resolution 3D facial genetic study on the Han Chinese population. We observed that these nose-related loci were associated with different features of the nose, including nose prominence, nasion height, and nostril shape, which suggests the nose underlies precise genetic regulation. Intriguingly, we noted that genes (DCHS2 and SFRP2) related to one of these loci are differentially expressed in human and chimp cranial neural crest cells, which plays a crucial role in the early formation of facial morphology. The ongoing genetic studies of facial morphology will improve our understanding of human craniofacial development, and provide potential evolution evidence of human facial features.

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Huang, Y., Li, D., Qiao, L., Liu, Y., Peng, Q., Wu, S., Zhang, M., Yang, Y., Tan, J., Xu, S., Jin, L., Wang, S., Tang, K., Grünewald, S.. 2019-07-03. Genome-wide Association study of facial morphology identifies novel genetic loci in Han Chinese. https://doi.org/10.1101/691584

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