| Literature DB >> 28358038 |
Silva Kourtian1,2, Jihane Soueid1, Nadine J Makhoul1, Dikran Richard Guisso1, Maria Chahrour3, Rose-Mary N Boustany1,4.
Abstract
Autism spectrum disorder (ASD) is characterized by ritualistic-repetitive behaviors and impaired verbal/non-verbal communication. Many ASD susceptibility genes implicated in neuronal pathways/brain development have been identified. The Lebanese population is ideal for uncovering recessive genes because of shared ancestry and a high rate of consanguineous marriages. Aims here are to analyze for published ASD genes and uncover novel inherited ASD susceptibility genes specific to the Lebanese. We recruited 36 ASD families (ASD: 37, unaffected parents: 36, unaffected siblings: 33) and 100 unaffected Lebanese controls. Cytogenetics 2.7 M Microarrays/CytoScan™ HD arrays allowed mapping of homozygous regions of the genome. The CNTNAP2 gene was screened by Sanger sequencing. Homozygosity mapping uncovered DPP4, TRHR, and MLF1 as novel candidate susceptibility genes for ASD in the Lebanese. Sequencing of hot spot exons in CNTNAP2 led to discovery of a 5 bp insertion in 23/37 ASD patients. This mutation was present in unaffected family members and unaffected Lebanese controls. Although a slight increase in number was observed in ASD patients and family members compared to controls, there were no significant differences in allele frequencies between affecteds and controls (C/TTCTG: γ2 value = 0.014; p = 0.904). The CNTNAP2 polymorphism identified in this population, hence, is not linked to the ASD phenotype.Entities:
Mesh:
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Year: 2017 PMID: 28358038 PMCID: PMC5372175 DOI: 10.1038/srep45336
Source DB: PubMed Journal: Sci Rep ISSN: 2045-2322 Impact factor: 4.379
Characteristics of patients with autism included in the study.
| Patient ID | Age | Gender | Total Number of ROH in the genome | Locus of overlapping ROH regions | Satisfied DSM4/5 criteria | Family history | Additional notable clinical features |
|---|---|---|---|---|---|---|---|
| F1-001 | 2y | Male | 65 | 2p22.1 | + | Negative for psychiatric/mental disorder | Tip-toe walking, non-verbal |
| F2-005 | 14y | Male | 29 | + | Mental retardation in mother’s uncle. | Non-verbal, ECAR-T score | |
| F3-010 | 23y | Male | 68 | 2p22.1 18q12.1 | + | Negative for psychiatric/mental disorder | N.A. |
| F4-015 | 17y | Male | 44 | 8q23.1 3q25.32 18q12.1 | + | Negative for psychiatric/mental disorder | ECAR-T score = 31 |
| F5-020 | 5y | Male | 50 | + | Depression in maternal grand-father | N.A. | |
| F6-024 | 10y | Male | 41 | 2p22.1 8q23.1 3q25.32 | + | Negative for psychiatric/mental disorder | N.A. |
| F7-029 | 21y | Male | 35 | 8q23.1 | + | Asperger’s case in maternal family | N.A. |
| F8-034 | 14y | Male | 77 | + | Negative for psychiatric/mental disorder | N.A. | |
| F9-038 | 10y | Male | 113 | 8q23.1 | + | Negative for psychiatric/mental disorder | N.A. |
| F11-048 | 7y | Male | 36 | + | Negative for psychiatric/mental disorder | Verbal, talked at 2y | |
| F15-070 | 6y | Male | 11 | + | Negative for psychiatric/mental disorder | Agoraphobia | |
| F17-080 | 2y | Male | 59 | + | Father has autistic features | Hyperactive, speech delay | |
| F18-083 | 13y | Male | 45 | 2p22.1 | + | Negative for psychiatric disorder. Mental retardation in a family member | Speech delay |
| F19-088 | 4y | Male | 11 | 2p22.1 | + | Negative for psychiatric disorder. Mental retardation in a family member | High IQ, speech regression at 2.5y, aggressive, mild ASD |
| F19-089 | 3y | Male | 11 | 2p22.1 | + | Negative for psychiatric/mental disorder | Severe autistic features, echolalia, speech regression at 2y, mental retardation |
| F20-093 | 3y | Male | 49 | 3q25.32 18q12.1 | + | Negative for psychiatric/mental disorder | Speech regression at 2y, stereotypies, little improvement with therapies |
| F22-101 | 5y | Male | 47 | 18q12.1 | + | Mental retardation in paternal cousin | Congenital cataract, Hyperactivity |
| F24-108 | 8y | Male | 5 | + | Negative for psychiatric/mental disorder | Speech regression at 2y | |
| F27-122 | 8y | Male | 35 | 3q25.32 | + | Negative for psychiatric/mental disorder | N.A. |
| F28-127 | 9y | Male | 29 | 3q25.32 18q12.1 | + | Negative for psychiatric/mental disorder | N.A. |
| F29-133 | 8y | Male | 41 | 2p22.1 | + | Negative for psychiatric/mental disorder | N.A. |
| F31-145 | 3y | Male | 47 | + | Negative for psychiatric/mental disorder | Hyperactive, stereotypies, speech delay | |
| F32-148 | 8y | Male | 38 | + | Negative for psychiatric/mental disorder | Speech delay at 3.5y, significant improvement with therapies | |
| F33-152 | 2y | Male | 31 | + | Negative for psychiatric/mental disorder | Non-verbal, tip toe walking | |
| F34-158 | 4y | Male | 10 | + | Negative for psychiatric/mental disorder | No stereotypical movements, aggressive, small improvement with therapies | |
| F35-164 | 16y | Female | 32 | 18q12.1 | + | Negative for psychiatric/mental disorder | Non-verbal, hyperactive |
| F36-169 | 4y | Male | 61 | 3q25.32 18q12.1 | + | Family history of autism | Non-verbal. |
| F37-172 | 8y | Male | 44 | + | Negative for psychiatric/mental disorder | Walked at 2.5y, non-verbal, stereotypies, Krabbe disease | |
| F38-176 | 10y | Male | 37 | + | Negative for psychiatric/mental disorder | Delayed speech, walked at 1y 4 m, aggressive, improved with therapies | |
| F39-180 | 8y | Male | 18 | + | Negative for psychiatric/mental disorder | Walked at 1.6y, few words, epilepsy | |
| F40-186 | 5y | Male | 57 | 8q23.1 | + | Mother had intra-partum depression | Speech regression, rigid behavior, stereotypies |
| F41-190 | 15y | Male | 37 | + | Father has depression. Complications during labor and delivery | Talked at 1y5m, stereotypies, rigid behavior, echolalia | |
| F42-194 | 7y | Male | 25 | + | Mother has depression | Stereotypies, non-verbal, delayed walking | |
| F43-197 | N.A | Male | 26 | + | Negative for psychiatric/mental disorder | Feeding difficulties in early childhood, drooling, flapping tip -toe walking, Non-verbal, improvement with therapies | |
| F44-201 | 3y | Male | 20 | + | Negative for psychiatric/mental disorder | Speech delay, stereotypies | |
| F45-205 | 12y | Male | 21 | + | Asperger’s case on the maternal side | Hyperactivity, non-verbal, improvement with therapies | |
| F46-211 | N.A | Female | 51 | + | Negative for psychiatric/mental disorder | Regression at 2y, tip-toe walking, stereotypies, non-verbal |
Total number of ROH in the genome are only ROHs unique to the affected patient(s) and not present in the parents (column 4). Locus of overlapping ROH regions found at least in 5 ASD patients and described in table 2 (see column 5). N.A: Data not available.
ROH regions found in at least 5 ASD patients.
| Locus | Overlapping ROH coordinates | Length (Kb) | Gene content | ASD patients |
|---|---|---|---|---|
| 8q23.1 | 110051909–110185293 | 820 | F4-015 | |
| F6-024 | ||||
| F7-029 | ||||
| F9-038 | ||||
| F40-186 | ||||
| 3q25.32 | 157813799–158331136 | 517 | F4-015 | |
| F6-024 | ||||
| F20-093 | ||||
| F27-122 | ||||
| F28-127 | ||||
| F36-169 | ||||
| 2p22.1 | 38790327–39664219 | 873 | F1-001 | |
| F3-010 | ||||
| F6-024 | ||||
| F18-083 | ||||
| F19-88 | ||||
| F19-89 | ||||
| F29-133 | ||||
| 18q12.1 | 29687013–30278521 | 591 | F3-010 | |
| F4-015 | ||||
| F20-093 | ||||
| F22-101 | ||||
| F28-127 | ||||
| F35-164 | ||||
| F36-169 |
ROH chromosomal locations and coordinates for the overlapping regions are shown (human genome build hg19). Genes within the ROH are listed. ASD patients with the corresponding ROH are indicated (out of the 37 ASD patients in our cohort).
Figure 1Biological network created using pathway analysis to identify biological functions and disorders associated with genes selected from ROH regions common to at least 5 ASD patients in an overlapping manner.
Thirteen genes are depicted involved in direct interactions. Cellular processes are highlighted in yellow, cellular processes related to the brain are in blue, and disorders are in purple.
Figure 2The human CNTNAP2 locus at 7q35.
Schematic indicating the 24 exons (blue bars) of CNTNAP2. Red lines indicate ROH regions found in 7 ASD patients. Note that there is no complete overlap of ROH regions between the 7 patients.
Figure 3Biological network created using pathway analysis linking genes of interest DPP4, TRHR, MLF1, and CNTNAP2 to cellular processes related to the brain (in blue) and neurological disorders (in purple).
Figure 4An insertion of 5 bp (chr7: 148,106,477 C > TTCTG) upstream of exon 23 (red arrow) of CNTNAP2.
Representative Sanger sequence data depicting the 5 bp insertion. Intronic sequence is shown in black, coding sequence in blue, and the insertion in red.
Genotype and allelic distribution of CNTNAP2 variant in ASD patients, their family members, and unaffected controls.
| ASD patients (n = 37) | Parents (n = 36) | Unaffected siblings (n = 33) | Patients and family members (n = 106) | Controls (n = 100) | |
|---|---|---|---|---|---|
| Genotype | |||||
| NN | 14 (38%) | 7 (19.4%) | 11 (33.3%) | 32 (30.2%) | 34 (34%) |
| NV | 15 (40%) | 19 (52.8%) | 10 (30.3%) | 44 (41.5%) | 50 (50%) |
| VV | 8 (22%) | 10 (27.8%) | 12 (36.4%) | 30 (28.3%) | 16 (16%) |
| N allele frequency | 0.58 | 0.46 | 0.48 | 0.51 | 0.59 |
| V allele frequency | 0.42 | 0.54 | 0.52 | 0.49 | 0.41 |
N: reference allele; V: alternate allele with the TTCTG insertion at intron/exon junction of exon 23.
Primer sequences for amplification and sequencing of CNTNAP2 coding exons.
| Exon | Primer sequence | Amplicon size (bp) |
|---|---|---|
| CNTNAP2_ex8F | tcactgaatccatgctctgc | 524 |
| CNTNAP2_ex8R | aaaacctaatcctgagcgtgtaac | |
| CNTNAP2_ex14F | agagtattcctggggaagtgg | 440 |
| CNTNAP2_ex14R | ttgtcgcactgacctctttct | |
| CNTNAP2_ex17F | tcgacctttgtaggacgtgac | 479 |
| CNTNAP2_ex17R | ggccaacacctttacttttgg | |
| CNTNAP2_ex20F | agcaggaattgaggggatgt | 350 |
| CNTNAP2_ex20R | ttatgcacttgtaggagaaagtgt | |
| CNTNAP2_ex21F | gaaaaccagggttcaaagagtg | 314 |
| CNTNAP2_ex21R | aagatattcgtgactggccc | |
| CNTNAP2_ex22F | gctttggacacaagcattca | 462 |
| CNTNAP2_ex22R | acgttcctttgccctttctt | |
| CNTNAP2_ex23F | gttgtgattcttgtgggagaca | 366 |
| CNTNAP2_ex23R | cagcaaaatgaataatgtaaaaacc | |
| CNTNAP2_ex24F | 437 | |
| CNTNAP2_ex24R |