22q11.2 recurrent region (central, B/C-D) (includes CRKL)

  • 2
    Haplo
    Score
  • 0
    Triplo
    Score

Region Facts

Region Name
22q11.2 recurrent region (central, B/C-D) (includes CRKL)
Cytoband
22q11.21
Genomic Coordinates
GRCh37/hg19 chr22:20731986-21465672 NCBI Ensembl UCSC
GRCh38/hg38 chr22:20377696-21111383 NCBI Ensembl UCSC

Dosage Sensitivity Summary (Region)

Dosage ID:
ISCA-37516
Curation Status:
Complete
Issue Type:
Dosage Curation - Region
Description:
The 22q11.2 region contains a cluster of low copy repeats that mediate recurrent copy number changes through non-allelic homologous recombination. This review refers to central region CNVs involving recurrent breakpoints LCR22-B or C and LCR22-D. Note that genes used as landmarks are not necessarily causative of the phenotype(s) associated with the region.
Haploinsufficiency:
Emerging Evidence for Haploinsufficiency (2)
Triplosensitivity:
No Evidence for Triplosensitivity (0)
Related Links:
Last Evaluated:
08/30/2022

Haploinsufficiency (HI) Score Details

HI Score:
2
HI Evidence Strength:
Emerging Evidence for Haploinsufficiency (Disclaimer)
HI Evidence:
  • PUBMED: 25123976
    Rump et al. (2014) reported 10 novel 22q11.2 B-D (6) and C-D (4) deletions. These deletions were identified in 24 total individuals (12 B-D and 12 C-D). Clinical features were variable and included developmental delay, behavioral problems, dysmorphic facial features, growth delay, skeletal/digital abnormalities, congenital heart anomalies, renal abnormalities, genital anomalies, ear infections, and additional, less common features. Of the 9 cases for which parental testing was performed, 7 were found to be inherited. Among carrier parents, 3 were noted to be asymptomatic and 4 were affected.
  • PUBMED: 29090080
    Clements et al. (2017) reported 18 patients with 22q11.2 B-D (14) or C-D (4) deletions. The reported neurological features included global developmental delay, intellectual disability, ADHD, ODD (oppositional defiant disorder), OCD, Anxiety, and MDD (major depressive disorder). Additional clinical findings include congenital heart defects, GERD (gestroesophaeal reflux disease), chronic constipation, ophthalmologic anomalies, and kidney abnormalities (medullary nephrocalcinosis and solitary, low-lying kidney). Approximately 69% of deletions were reported to be de novo. Parental phenotype was not documented in this study.
  • PUBMED: 26278718
    Burnside (2015) reviewed clinical findings of 23 patients with 22q11.2 deletions involving the B/C-D region including 45 additional patients from the literature. Clinical features were highly variable with the most common features being growth retardation, immune deficiency/recurrent infections, CNS anomalies/seizures, developmental delay, intellectual disability, skeletal anomalies, cardiovascular defects, psychiatric/behavioral problems, genitourinary anomalies, and dysmorphic features. Parental testing was performed in 7 of the novel patients reported in this study, with 4 of the deletions being de novo, 2 being inherited, and 1 unknown. Parental phenotypes were not included in this paper.
  • PUBMED: 22893440
    Verhagen et al. (2012) reported 5 novel 22q11.2 B-D (1) and C-D (4) deletions. These deletions were identified in 8 total individuals (2 B-D and 6 C-D). Clinical features were variable and included developmental delay, behavioral and/or psychiatric problems, dysmorphic facial features, microcephaly, congenital heart defects, genital anomalies, as well as additional less common features. Parental testing was performed in 4 cases, with 3/4 probands inheriting the deletion from a parent. 3 carrier parents were noted to be asymptomatic, and 1 was de novo. Parental phenotypes were not included in this paper.
  • PUBMED: 28121514
    Lopez-Rivera et al. (2017) reported clinical findings for 9 individuals with 22q11.2 C-D deletions. Of these patients, 7 were identified in a cohort of over 2000 patients affected by congenital kidney and urinary tract anomalies. The reported findings in these patients include renal agenesis, renal hypodysplasia, and cortical cysts. The extrarenal features reported in these patients were limited, with undescended testis being the only one that was observed in more than one patient. Ten additional patients with a C-D deletion were identified in the Children’s Hospital of Philadelphia 22q11.2 deletion database, two of which were found to have kidney and urinary tract defects, including renal agenesis and renal hyperechogenicity. The reported extrarenal features included speech delay and dysphagia. Functional studies in both Zebrafish and Mice were consistent with CRKL being a critical gene within the region. Parental studies were not reported for these patients.
HI Evidence Comments:
Evidence is emerging that deletion of the 22q11.2 central B/C-D region is associated with a variable clinical phenotype that may include dysmorphic facial features, growth restriction/short stature, CNS anomalies/seizures, developmental delay (including language delay), intellectual disability, psychiatric/behavioral problems, skeletal anomalies, cardiovascular defects, genitourinary anomalies, and immune deficiency/recurrent infections. Parental testing has shown 21/35 (60%) deletions represent de novo events. Due to phenotypic variability, incomplete penetrance, and a lack of case-control data, the current haploinsufficiency score for this region is a 2. Additional relevant literature is summarized below: Case-Control Studies: PMID: 25217958 Coe et al. (2014) performed a large-scale case-control comparison study of the relative prevalence of CNVs in children with developmental delay/intellectual disability, multiple congenital anomalies, and other developmental phenotypes compared to controls. Deletions of the 22q11.2 C-D region were observed in 4/29,085 cases versus 1/19,584 controls (p=0.3328; LR: 2.69, 95% CI: 0.327 - 44.3), failing to show evidence for enrichment in the clinical population. Additional Literature: PMID: 25658046 Racedo et al. (2015) reported 25 patients with 22q11.2 deletions involving the LCR22-B/C to LCR22-D region (20 LCR22-B-D and 5 LCR22-C-D deletions). Overall 8/20 (40%) individuals with the LCR22-B-D and 1/5 (20%) individuals with the LCR22-C-D had cardiac malformations, including Tetralogy of Fallot, ventricular septal defects, and atrial septal defects. This study also provided literature review of published cases, reporting 17/71 (24%) individuals with LCR22-B/C-D deletions had congenital heart defects. The authors propose, using mouse models, that loss of CRKL is associated with the cardiac phenotype observed in LCR22-B/C-D patients. PMID: 30055034 Schindewolf et al. (2018) reported 2 patients with LCR22 C-D deletions that were diagnosed prenatally. These two patients were part of a larger cohort study on 22q11.2 deletions and their prenatal clinical findings. The reported ultrasound findings in the 2 LCR22C-D deletion patients included cardiac findings in both patients and gastrointestinal problems in a single patient. More specific information on the findings observed in these patients were not available. PMID: 17618498 D'Angelo et al. (2007) reported a single patient with a LCR22 C-D deletion. The features reported in this patient included speech delay and articulation problems, learning disability, high arched palate, hyperphagia, aggressiveness, hyperactivity, craniofacial abnormalities, and cerebral white matter alterations. The deletion was found to be maternally inherited. The mother had major depressive disorder and anxiety, minor dysmorphic craniofacial findings. The mother was noted to have obtained a higher education degree.

Triplosensitivity (TS) Score Details

TS Score:
0
TS Evidence Strength:
No Evidence for Triplosensitivity (Disclaimer)
TS Published Evidence:
  • PUBMED: 30614210
    Woodward et al. (2019) reported 13 individuals from 6 families with 22q11.2 B-D (1 family) and C-D (5 families) duplications. The patients presented with developmental delay (speech and motor) and/or cognitive impairment, psychiatric/behavior problems, autism spectrum disorder, motor stereotypies, mild dysmorphic features (including up-slanting palpebral fissures), and additional clinical findings. Parental testing performed in 7 cases from 4 families found that all duplications were inherited (1 paternal and 3 maternal). Transmitting parents are reported to be asymptomatic.
  • PUBMED: 29090080
    Clements et al. (2017) reported 10 patients with 22q11.2 B-D (8) or C-D (2) duplications. The reported clinical findings include developmental delay, neuropsychiatric symptoms, GERD, velopharyngeal insufficiency, and additional clinical findings. One of the C-D duplications was de novo. One patient and the sibling harboring the B-D duplication both showed decreased face processing ability on the Benton Facial Recognition Test which has not been reported in 22q11.2 syndrome before. Parental phenotype was not documented in this study.
  • PUBMED: 18445048
    Blennow et al. (2008) reported a single patient harboring both a deletion and a duplication involving the 22q11.2 region. The deletion involved LCR22-A to LCR22-B and the duplication involved LCR22-B to LCR22-D. The patient had many features of Velocardiofacial syndrome likely to be attributed to the A-B deletion (velopharyngeal insufficiency, recurrent infections, learning and concentration problems and difficulties in social interactions) but no congenital malformations. The A-B deletion was found to be de novo and the B-D duplication was paternally inherited. The B-D duplication was also detected in the proband's paternal uncle, grandfather and granduncle. All tested family members were reportedly unaffected.
  • PUBMED: 18414210
    Ou et al. (2008) reported a single patient with a 22q11.2 B-D duplication. The patient has a 46,XY karyotype but with severely under-virilized external genitalia, including hypospadias and cryptorchidism. The duplication was inherited from the proband’s phenotypically normal father.
  • PUBMED: 19490635
    Fernández et al. (2009) report a patient with a 22q11.2 C-D duplication. The patient was admitted to NICU due to respiratory distress, clinical findings include complete cleft palate and up-slanting palpebral fissures, with normal development at 13 months. The duplication was found to be maternally inherited, and also detected in the proband's maternal uncle, two maternal aunts, and the maternal grandfather, all of whom were reportedly normal.
  • PUBMED: 22796526
    Pebrel-Richard et al. (2012) reported a patient with a 22q11.2 B-D duplication. Clinical features included muscular hypotonia, developmental delay (speech and motor), and mild dysmorphic facial features. The duplication was found to be maternally inherited. Only echocardiogram and ECG were performed on the mother, no abnormalities were found.
TS Evidence Comments:
There is currently insufficient evidence for a clinical association for 22q11.21 B/C-D duplications. Most of the literature involves single case reports or small case series. These patients have been reported to present with variable clinical findings that include developmental delay, psychiatric/behavioral problems (including autism spectrum disorder), and minor dysmorphic craniofacial findings. Available familial testing demonstrated inheritance of the duplication in the majority of cases and the transmitting parents and tested relatives appear to be clinically unaffected. Additionally, case-control data are currently inconclusive. Due to a limited number of patients reported in the literature, phenotypic variability, incomplete penetrance and inconsistent case-control data, the current triplosensitivity score for this region is 0. Case-Control Studies: PMID: 25217958 Coe et al. (2014) performed a large-scale case-control comparison study of the relative prevalence of CNVs in children with developmental delay/intellectual disability, multiple congenital anomalies, and other developmental phenotypes compared to controls. Duplications of the 22q11.2 C-D region were observed 16/29,085 cases versus 2/19,584 controls (p=0.007788; LR: 5.39, 95% CI: 1.48 - 26.2), providing evidence for enrichment in the clinical population. However, duplications of the larger, overlapping 22q11.2 B-D region were observed in 11/29,085 cases versus 7/19,584 controls (p=0.5551; LR: 1.06 95% CI: 0.419 - 2.74), presenting conflicting data. Therefore, case-control information for this region is unclear. Additional relevant literature is summarized below: PMID: 31836587 Vyas et al. (2019) reported a patient with a 22q11.2 B-D duplication. The patient presented with ADHD and severe chronic antisocial behavior of early childhood onset. No familial testing was performed. The biological mother had a strong family history of schizophrenia. PMID: 31479204 Yu et al. (2019) reported a patient with a 22q11.2 C-D duplication. The patient presented with truncus arteriosus, bell-shaped chest, brain anomalies, situs solitus of the liver, IUGR and died shortly after birth. Inheritance information was not reported.

Genomic View

Select assembly: (NC_000022.10) ()