| Literature DB >> 36011323 |
Cristina Lucia-Campos1, Irene Valenzuela2,3, Ana Latorre-Pellicer1, David Ros-Pardo4, Marta Gil-Salvador1, María Arnedo1, Beatriz Puisac1, Neus Castells2,3, Alberto Plaja2,3, Anna Tenes2,3, Ivon Cuscó2,3,5, Laura Trujillano2,3, Feliciano J Ramos6, Eduardo F Tizzano2,3, Paulino Gómez-Puertas4, Juan Pié1.
Abstract
Cornelia de Lange syndrome (CdLS) is a multisystemic genetic disorder characterized by distinctive facial features, growth retardation, and intellectual disability, as well as various systemic conditions. It is caused by genetic variants in genes related to the cohesin complex. Single-nucleotide variations are the best-known genetic cause of CdLS; however, copy number variants (CNVs) clearly underlie a substantial proportion of cases of the syndrome. The NIPBL gene was thought to be the locus within which clinically relevant CNVs contributed to CdLS. However, in the last few years, pathogenic CNVs have been identified in other genes such as HDAC8, RAD21, and SMC1A. Here, we studied an affected girl presenting with a classic CdLS phenotype heterozygous for a de novo ~32 kbp intragenic duplication affecting exon 10 of HDAC8. Molecular analyses revealed an alteration in the physiological splicing that included a 96 bp insertion between exons 9 and 10 of the main transcript of HDAC8. The aberrant transcript was predicted to generate a truncated protein whose accessibility to the active center was restricted, showing reduced ease of substrate entry into the mutated enzyme. Lastly, we conclude that the duplication is responsible for the patient's phenotype, highlighting the contribution of CNVs as a molecular cause underlying CdLS.Entities:
Keywords: Cornelia de Lange syndrome; HDAC8; array CGH; copy number variants; genetic diagnosis; genetic disorder; intragenic duplication
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Year: 2022 PMID: 36011323 PMCID: PMC9408140 DOI: 10.3390/genes13081413
Source DB: PubMed Journal: Genes (Basel) ISSN: 2073-4425 Impact factor: 4.141
Figure 1Clinical and genetic description of the patient. (a) Patient at 5 years showing her back with hirsutism and small hands and feet with clinodactyly of the fifth finger (more details in the text); (b) CytoSure Constitutional v3 array 8 × 60K array-CGH result showing a 0.032 Mb duplication at Xq13.1 in the patient.
Figure 2Molecular characterization of the intragenic duplication in HDAC8. (a) Schematic representation of intragenic duplications on HDAC8 related to CdLS reported to date. The genomic region duplicated for each case is shown. Localizations of duplications on HDAC8 are indicated by chromosome band and position (human (GRCh38.p13)). The arrow indicates the direction of transcription. The region duplicated in the patient is marked by an orange-filled box [6]; (b) qPCR analysis of exons 1–2 and 9–10 of HDAC8 (NM_018486.3). Gene expression levels were normalized to actin. The expression level in controls was arbitrarily set to 1.0; (c) agarose gel of the cDNA PCR products. After amplification of a fragment compromising exons 9 and 10, cDNA of the patient yielded the expected PCR product of 213 bp, as well as an aberrant fragment of 309 bp corresponding to an insertion of 96 bp between exons 9 and 10; (d) Cts from qPCR analysis of exons 1–2 and the Δ96 bp region in the patient and controls. Gene expression levels were normalized to Actin.
Figure 3Structural modeling of HDAC8 variant. (a) Structural model of wildtype (left) and variant (right) human HDAC8 proteins after 200 ns of unrestricted molecular dynamics simulation. The differential C-terminal end between the two proteins is colored in red. The position of the Zn++ atom in the active center and the distance between residues Pro209 and Gly151 (arrow) are indicated; (b) surface of both proteins after 200 ns of molecular dynamics. The entrance of the active center is circled in yellow. The surface is colored according to the electrostatic charge (red: negative, blue: positive); (c) distance in Å between the α carbon atoms of residues Pro209 and Gly151 over the 200 ns simulation of the wildtype (wt) and variant (var) HDAC8 protein.