Diagnostic value of whole exome sequencing for patients with intellectual disability or global developmental delay.
10.3760/cma.j.cn511374-20220522-00345
- Author:
Yangyan LI
1
;
Dongzhu LEI
;
Caiyun LI
;
Dongqun HUANG
;
Jufang TAN
;
Haoqing ZHANG
Author Information
1. Center of Prenatal Diagnosis, Chenzhou Hospital Affiliated to Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China. zhhqsunny@sina.com.
- Publication Type:Journal Article
- MeSH:
Humans;
Exome Sequencing;
Intellectual Disability/genetics*;
DNA Copy Number Variations;
Mutation;
Loss of Heterozygosity
- From:
Chinese Journal of Medical Genetics
2023;40(6):648-654
- CountryChina
- Language:Chinese
-
Abstract:
OBJECTIVE:To assess the diagnostic value of whole exome sequencing (WES) for patients with intellectual disability (ID) or global developmental delay (GDD).
METHODS:134 individuals with ID or GDD who presented at Chenzhou First People's Hospital between May 2018 and December 2021 were selected as the study subjects. WES was carried out on peripheral blood samples of the patients and their parents, and candidate variants were verified by Sanger sequencing, copy number variation sequencing (CNV-seq) and co-segregation analysis. The pathogenicity of the variants was predicted based on the guidelines from the American College of Medical Genetics and Genomics (ACMG).
RESULTS:A total of 46 pathogenic single nucleotide variants (SNVs) and small insertion/deletion (InDel) variants, 11 pathogenic genomic copy number variants (CNVs), and 1 uniparental diploidy (UPD) were detected, which yielded an overall detection rate of 43.28% (58/134). The 46 pathogenic SNV/InDel have involved 62 mutation sites in 40 genes, among which MECP2 was the most frequent (n = 4). The 11 pathogenic CNVs have included 10 deletions and 1 duplication, which have ranged from 0.76 to 15.02 Mb. A loss of heterozygosity (LOH) region of approximately 15.62 Mb was detected in 15q11.2q12 region in a patient, which was validated as paternal UPD based on the result of trio-WES. The patient was ultimately diagnosed as Angelman syndrome.
CONCLUSION:WES can detect not only SNV/InDel, but also CNV and LOH. By integrating family data, WES can accurately determine the origin of the variants and provide a useful tool for uncovering the genetic etiology of patients with ID or GDD.
