| Literature DB >> 29611406 |
Hyo Jeong Kim1, Chang Il Park2, Jae Woo Lim3, Gyung Min Lee3, Eunhae Cho4, Hyon J Kim5.
Abstract
PURPOSE: The present study aimed to investigate chromosomal microarray (CMA) and clinical data in patients with unexplained developmental delay/intellectual disability (DD/ID) accompanying dysmorphism, congenital anomalies, or epilepsy. We also aimed to evaluate phenotypic clues in patients with pathogenic copy number variants (CNVs).Entities:
Keywords: Chromosomal microarray; developmental delay; dysmorphism; intellectual disability
Mesh:
Year: 2018 PMID: 29611406 PMCID: PMC5889996 DOI: 10.3349/ymj.2018.59.3.431
Source DB: PubMed Journal: Yonsei Med J ISSN: 0513-5796 Impact factor: 2.759
Clinical Characteristics of the 50 Patients
| Characteristics | n=50 |
|---|---|
| Gender (male:female) | 26:24 |
| Age (yr) (mean±SD) | 5.4±5.9 |
| Developmental delay/intellectual disability | 50 (100.0%) |
| Craniofacial dysmorphism | 39 (78.0%) |
| Failure to thrive | 27 (54.0%) |
| Epilepsy | 19 (38.0%) |
| Major organ anomalies | 12 (24.0%) |
| Autism | 9 (18.0%) |
n, number; SD, standard deviation.
Clinical and Genetic Features in 29 Patients with CNVs
| Patient | Age | Sex | Microarray (genome build:hg19) | Size | Critical genes or region | Classification | Inheritance | Clinical features | Syndrome | Reasons of classification |
|---|---|---|---|---|---|---|---|---|---|---|
| Pathogenic CNVs | ||||||||||
| 1 | 6 yr | F | 3p26.3p24.3(234763_18360238)×3, 4q34.1q35.2(175696310_190957460)×1 | 18 Mb/15 Mb | 3p26.3 | Pathogenic/Pathogenic | Unknown | Severe DD/ID, dysmorphism, hypotonia | 3p26.3 duplication | 1/1 |
| 4q 34 | 4q 34 deletion | |||||||||
| 2 | 10 yr 3 m | M | 5q33.3q35.1(156409412_172584708)×1 | 16 Mb | 5q33.3q35.1 | Pathogenic | Severe DD/ID, dysmorphism, epilepsy, FTT, microcephaly | 5q33.3q35.1 deletion | 1 | |
| 3 | 8 m | M | Xq28(149987236_155233098)×2 | 5 Mb | Pathogenic | Severe DD, dysmorphism, macrodactyly, hypotonia, intestinal pseudoobstruction, chylothorax | 1 | |||
| 4 | 12 yr 10 m | M | 4q13.2(68598997_69155166)×3, 6q12.3(47653195_48811902)×3, Xq28(152916789_153421838)×3 | 556 kb/1159 kb/505 kb | VOUS/VOUS/Pathogenic | Unknown | Severe DD/ID no speech, dysmorphism, epilepsy | 3, 4/3, 4/1 | ||
| 5 | 7 m | M | 14q12q13.3(25363718_36872996)×1 | 11.5 Mb | Pathogenic | Severe DD, dysmorphism, emangioma in midline forehead, simian crease, epilepsy, FTT, microcephaly, agenesis of corpus callosum | 1 | |||
| 6 | 9 yr 11 m | M | 8p23.2(3685300_5935671)×3, 18q11.2q12.2(24000546_34855 669)×1 | 2.2 Mb/11 Mb | Benign/Pathogenic | DD/ID, dysmorphism | 18q11.2 microdeletion | 2/1 | ||
| 7 | 2 yr 11 m | M | 2q36.3q37.3(228613832_242782258)×3, 10p15.3(100047_2979784)×1 | 14 Mb/2.8 Mb | Pathogenic/Pathogenic | DD/ID, dysmorphism, FTT, microcephaly, cryptochidism | 1/1 | |||
| 8 | 8 yr | F | 8p23.2(3685300_5935671)×3, 22q11.21(18648855_21800471)×1 | 2.2 Mb/3 Mb | Benign/Pathogenic | Unknown | DD/ID, no speech, dysmorphism, FTT, microcephaly, tetralogy of Fallot, autism | DiGeorge syndrome | 2/1 | |
| 9 | 8 yr 10 m | F | 9q21.11q21.2(70966261_80322287)×1 | 9.4 Mb | Pathogenic | Unknown | DD/ID, dysmorphism, epilepsy, FTT, microcephaly | 9q21 microdeletion | 1 | |
| 10 | 2 yr 1 m | M | 8p21.3(20328613_21241707)×3, 10q21.3(68716001_68942534)×1 | 913 kb/227 kb | Pathogenic/VOUS | Unknown | Severe DD/ID, no speech, dysmorphism, epilepsy, FTT, microcephaly, hypotonia | 8p duplication | 1/3, 4 | |
| 11 | 2 yr | M | 15q11.2q13.1(23290787_28540345)×1 | 5.3 Mb | Pathogenic | Unknown | DD, dysmorphism, epilepsy, FTT, microcephaly | Angelman syndrome | 1 | |
| 12 | 1 yr 11 m | M | Xp22.2p22.13(16985909_17728652)×2 | 743 kb | Pathogenic | Unknown | DD, no speech, FTT, microcephaly, autistic behavior | R/O Nance-Horan syndrome | 1 | |
| 13 | 2.9 yr | M | 22q11.21(18648855_21800471)×3 | 3.2 Mb | Pathogenic | Unknown | DD, autistic behavior | 22q11.2 duplication | 1 | |
| 14 | 18 yr | F | 2q36.3(229975072_230647161)×1, 16p11.2(29580020_30176508)×1 | 672 kb/596 kb | VOUS/Pathogenic | Severe ID, dysmorphism, macrocephaly, DM, obesity, abnormal behavior, sister of patient 15 | 16p 11.2 microdeletion syndrome | 3, 4/1 | ||
| 15 | 32 yr | F | 16p11.2(29580020_30177916)×1 | 596 kb | Pathogenic | Severe ID, dysmorphism, macrocephaly, obesity, mood disorder, sister of patient 14 | 16p 11.2 microdeletion syndrome | 1 | ||
| 16 | 1 yr | M | 21q22.2q22.3(41891664_42708105)×3 | 816 kb | Pathogenic | Paternal | DD, dysmorphism, FTT, atophic dermatitis | 1 | ||
| 17 | 0.1 yr | F | 5q31.2q31.3(138934568_139624833)×1 | 690 kb | Pathogenic | DD, dysmorphism, epilepsy, hypotonia | 1 | |||
| 18 | 2 yr | M | 5q14.3q21.3(89183371_105989481)×1 | 17 Mb | Pathogenic | Unknown | DD, dysmorphism, FTT | 1 | ||
| CNVs of VOUS | ||||||||||
| 19 | 9 m | M | 15q26.3(100738522_101136059)×3 | 400 kb | VOUS | Maternal | Mild DD, hypotonia, atrial septal defect | 3, 4 | ||
| 20 | 2 yr 1 m | M | 5q23.2q23.3(126540520_128636176)×1 | 2 Mb | VOUS | Paternal | DD, epilepsy, FTT, macrocephaly, | Alternating hemiplegia | 3, 4 | |
| 21 | 1 m | M | Y(19585046_21028944)×2 | 1.4 Mb | VOUS | Unknown | DD, dysmorphism, seizure, FTT, hemangioma in philtrum, severe VUR, thinning of corpus callosum | 3, 4 | ||
| 22 | 15 yr | F | 1q44(247575767_248639486)×3 | 1 Mb | VOUS | Paternal | Severe ID, dysmorphism, short stature, microcephaly, sister of patient 23 | 3, 4 | ||
| 23 | 13 yr 8 m | F | 1q44(247584363_248660805)×3 | 1 Mb | VOUS | Paternal | Severe ID, dysmorphism, short stature, microcephaly, autism, sister of patient 22 | 3, 4 | ||
| Benign CNVs | ||||||||||
| 24 | 9 yr 3 m | F | 8p23.2(3685300_5935671)×3 | 2.2 Mb | Benign | Maternal | Severe DD/ID, no speech, dysmorphism, cleft palate, epilepsy, FTT, microcephaly | 2 | ||
| 25 | 11 yr 7 m | M | Yq11.223q11.23(24660113_28464713)×3 | 3.8 Mb | Benign | Unknown | Severe DD/ID, autism | 2 | ||
| 26 | 1 yr 8 m | F | 8p23.2(3688709_5950611)×3 | 2.3 Mb | Benign | Paternal | Severe DD, dysmorphism, epilepsy, FTT, hypotonia, VUR | 2 | ||
| 27 | 4.1 yr | F | 11q21(95577614_96054413)×3 | 477 kb | Benign | Paternal | Severe DD, dysmorphism, epilepsy, FTT, double ureter, microcephaly, autism | 2 | ||
| 28 | 0.2 yr | M | 17q21.32q21.33(47070357_47637376)×1 | 567 kb | Benign | Maternal | DD, dysmorphism, hyperpigmentation, FTT, pulmonary stenosis | 2 | ||
| 29 | 6.3 yr | F | 8p23.2(3685300-5935671)×3 | 2.3 Mb | Benign | Unknown | DD, dysmorphism, hypotonia | 2 | ||
CNVs, copy number variants; VOUS, variants of uncertain significance; CMA, chromosomal microarray; DD, developmental delay; ID, intellectual disability; FTT, failure to thrive; DM, diabetes millitus; VUR, vesicoureteral reflux.
1. Overlapping with a known imbalance syndrome; 2. In the category of genomic imbalance in healthy individuals as per public database; 3. CNV is not a common polymorphism; 4. Genes in the CNV are not associated with patient's phenotype.
Percentage of Presented Clinical Manifestations in Different CNVs Groups
| Characteristics | Pathogenic CNVs (n=18) | VOUS (n=5) | Benign CNVs (n=6) | Normal CMA (n=21) |
|---|---|---|---|---|
| Dysmorphism (%) | 16/18 (88.9) | 5/5 (100.0) | 6/6 (100.0) | 12/21 (57.1) |
| CNS anomaly (%) | 2/18 (11.2) | 1/5 (20.0) | 0/6 (0.0) | 3/21 (14.3) |
| Heart anomaly (%) | 1/18 (5.6) | 1/5 (20.0) | 1/6 (16.7) | 0/21 (0.0) |
| Uro-genital anomaly (%) | 1/18 (5.6) | 1/5 (20.0) | 2/6 (33.3) | 0/21 (0.0) |
| FTT (%) | 9/18 (50.0) | 3/5 (60.0) | 4/6 (66.7) | 11/21 (52.4) |
| Microcephaly (%) | 8/18 (44.4) | 2/5 (40.0) | 2/6 (33.3) | 9/21 (42.9) |
| Macrocephaly (%) | 2/18 (11.2) | 1/5 (20.0) | 0/6 (0.0) | 3/21 (14.3) |
| Epilepsy (%) | 7/18 (38.9) | 2/5 (40.0) | 3/6 (50.0) | 7/21 (33.3) |
| Autism (%) | 4/18 (22.2) | 1/5 (20.0) | 2/6 (33.3) | 2/21 (9.5) |
CNVs, copy number variants; VOUS, variants of uncertain significance; CMA, chromosomal microarray; CNS, central nervous system; FTT, failure to thrive.
Fig. 1Comparison of phenotypes between the patients with pathogenic CNVs and normal CMA. Dysmorphism (p=0.028) was significantly more frequent in patients with pathogenic CNVs than in those with normal CMA. Autism (p=0.387), epilepsy (p=0.718), and microcephaly (p=0.921) were more frequent in patients with pathogenic CNVs than in patients with normal CMA, but the difference was not significant. CNVs, copy number variants; VOUS, variants of uncertain significance; CMA, chromosomal microarray; CNS, central nervous system; FTT, failure to thrive.