| Literature DB >> 34194391 |
Birgit Weiss1, Birgit Eberle1, Ralph Roeth1, Christiaan de Bruin2, Julian C Lui3, Nagarajan Paramasivam4, Katrin Hinderhofer5, Hermine A van Duyvenvoorde6, Jeffrey Baron3, Jan M Wit2, Gudrun A Rappold1.
Abstract
Human growth is a complex trait. A considerable number of gene defects have been shown to cause short stature, but there are only few examples of genetic causes of non-syndromic tall stature. Besides rare variants with large effects and common risk alleles with small effect size, oligogenic effects may contribute to this phenotype. Exome sequencing was carried out in a tall male (height 3.5 SDS) and his parents. Filtered damaging variants with high CADD scores were validated by Sanger sequencing in the trio and three other affected and one unaffected family members. Network analysis was carried out to assess links between the candidate genes, and the transcriptome of murine growth plate was analyzed by microarray as well as RNA Seq. Heterozygous gene variants in CEP104, CROCC, NEK1, TOM1L2, and TSTD2 predicted as damaging were found to be shared between the four tall family members. Three of the five genes (CEP104, CROCC, and NEK1) belong to the ciliary gene family. All genes are expressed in mouse growth plate. Pathway and network analyses indicated close functional connections. Together, these data expand the spectrum of genes with a role in linear growth and tall stature phenotypes.Entities:
Keywords: ciliary genes; exome sequencing; growth; growth plate; non-syndromic tall stature; oligogenic inheritance
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Year: 2021 PMID: 34194391 PMCID: PMC8237855 DOI: 10.3389/fendo.2021.660731
Source DB: PubMed Journal: Front Endocrinol (Lausanne) ISSN: 1664-2392 Impact factor: 5.555
Figure 1(A) Pedigree with non-syndromic familial tall stature. Arrow indicates index individual; circle, females, square, males; (B) Growth curve of the index case, plotted on the reference data from the Dutch 4th nation-wide growth study (8). Epiphysiodesis was performed at 15.1 years. Layout prepared using Growth analyser.org; (C) Gene variants shared between the four tall family members and not present in family members with normal height (in gray color). Exome sequenced trio is indicated in light green; orange color indicates ciliary genes. A nonsense variant was identified in TSTD2; the others are missense variants. CADD scores are given in numbers behind the gene symbol; adjSDS, stands for standard deviation score adjusted for secular trend in the population;/p, indicates paternal side; circle, female, square, male; e, heterozygous; w, wild type.
Sanger sequencing results in five tall individuals and two individuals with normal height.
| Mother | Father | Index | Sister | Brother/p | Sister/p | Aunt/p | |
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| Height (adjSDS) | 0.9 | 3.2 | 3.5 | 2.6 | 2.9 | 1.4 | 2.1 |
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Twenty-eight genes with high CADD scores above 20 and considered damaging in at least 2/4 in silico prediction tools were analyzed.
Missense variants were found in 24/28 genes: nonsense variants in TSTD2 and CHI3L2; a frameshift in NCOA3 and a splice site variant in FREM1. CADD scores are given in numbers behind the gene symbol; adjSDS, stands for standard deviation score adjusted for secular trend in the population;/p, indicates paternal side; circle, female, square, male; grey color, gene variants shared between the four tall individuals of the index family; orange color, ciliary genes in the five shared candidate genes for tall stature.
Figure 2(A) Evolutionary conservation of the affected amino acids by missense mutations; −, no ortholog; a nonsense variant was identified in TSTD2; (B) Network Analysis by Ingenuity pathway analysis. Identified candidate gene products are highlighted in color; orange, proteins encoded by ciliary genes; green, proteins encoded by non-ciliary genes.