Case of 7p22.1 Microduplication Detected by Whole Genome Microarray (REVEAL) in Workup of Child Diagnosed with Autism
Introduction. More than 60 cases of 7p22 duplications and deletions have been reported with over 16 of them occurring without concomitant chromosomal abnormalities. Patient and Methods. We report a 29-month-old male diagnosed with autism. Whole genome chromosome SNP microarray (REVEAL) demonstrated a 1.3 Mb interstitial duplication of 7p22.1 ->p22.1 arr 7p22.1 (5,436,367–6,762,394), the second smallest interstitial 7p duplication reported to date. This interval included 14 OMIM annotated genes (FBXL18, ACTB, FSCN1, RNF216, OCM, EIF2AK1, AIMP2, PMS2, CYTH3, RAC1, DAGLB, KDELR2, GRID2IP, and ZNF12). Results. Our patient presented features similar to previously reported cases with 7p22 duplication, including brachycephaly, prominent ears, cryptorchidism, speech delay, poor eye contact, and outburst of aggressive behavior with autism-like features. Among the genes located in the duplicated segment, ACTB gene has been proposed as a candidate gene for the alteration of craniofacial development. Overexpression of RNF216L has been linked to autism. FSCN1 may play a role in neurodevelopmental disease. Conclusion. Characterization of a possible 7p22.1 Duplication Syndrome has yet to be made. Recognition of the clinical spectrum in patients with a smaller duplication of 7p should prove valuable for determining the minimal critical region, helping delineate a better prediction of outcome and genetic counseling
More than 60 cases of 7p22 duplications and deletions have been reported in  with over 16 of them occurring without concomitant chromosomal abnormalities . Several cases of de novo 7p duplications have been reported in recent years [2–4]; however, familial cases due to malsegregation of a parental balanced translocation or abnormal recombination caused by a parental inversion seem to be the most common cause of 7p duplications [5, 6]. These patients often include findings such as developmental delay, intellectual disability, behavioral problems, abnormal speech development, autism spectrum disorder (ASD), hypotonia, craniofacial dysmorphism with large anterior fontanel, broad forehead, hypertelorism, downslanting palpebral fissures, low-set and/or malformed ears, abnormal palate, micrognathia and/or retrognathia, pegged teeth, abnormal palmar creases, broad thumbs, cardiovascular abnormalities, skeletal abnormalities, joint dislocations and/or contractures, and undescended testes [1, 2, 4, 7, 8].
Recently, translocations in the 7p22 region were proposed as a candidate for autism . A case of a boy diagnosed with autism, no dysmorphic features, and a de novo balanced translocation 46, XY,t(7;16)(p22.1;p11.2) suggests that overexpression of gene RNF216 (localized to 7p22.1 by the Mammalian Gene Collection) resulting in abnormalities in E3 ubiquitin ligase may be linked to autism as well as other developmental and psychiatric conditions [9, 10].
We report a 29-month-old patient, recently diagnosed by his pediatrician with autism spectrum disorder, who was sent for genetic evaluation. He was found to have significant speech delay, poor eye contact, and several facial anomalies including brachycephaly and prominent ears. Whole genome microarray demonstrated a 1.3 Mb interstitial duplication of 7p22.1, the second smallest interstitial 7p duplication reported in the literature to date.
2. Clinical Report
The patient was a 29-month-old Hispanic male, referred for evaluation of developmental delay. The patient was born at 39 weeks gestation by normal spontaneous vaginal delivery after an uncomplicated pregnancy; birth weight was 3.528 (51–75th centile), head circumference was 34.3 cm (26–50th centile), and length was 52.1 cm (51–75th centile). At birth physical exam he was noted to have wide-spaced eyes, febrile, coarse, and decreased breath sounds, tachypnea, subcostal retractions, umbilical hernia, right undescended testes, and rocker bottom feet as per medical record. The patient was transferred to neonatal intensive care unit (NICU) for progressive respiratory distress and suspected sepsis and was placed on high flow nasal cannula and antibiotic therapy. Karyotype done 46XY. Patient has no siblings and parents were nonconsanguineous. Family history was remarkable for maternal grandmother having three miscarriages.
Echocardiogram at birth showed a large patent ductus arteriosus (PDA) (4 mm) with left to right shunt, mild tricuspid regurgitation (PG 33 mmHg), and patent foramen ovale (3 mm) with left to right shunt, no coarctation of the aorta, otherwise normal. Repeat echocardiogram on day 18 of life showed no PDA and showed mild tricuspid regurgitation (PSG 29 mHg) revealing mildly elevated pulmonary systolic pressure, otherwise normal. Other testing in medical record consist of X-ray of right foot with no congenital abnormality appreciated, unremarkable renal ultrasound, head ultrasound negative for IVH and testicular US that showed right testicle located at right external inguinal ring.
The review of systems was positive for brachycephaly, no eye contact, rolling his head side to side before going to sleep, unilateral right cryptorchidism, feet deformity which resolved spontaneously, and developmental delay. The patient walked at 16 months of age and did not use any words and did not point for what he wanted. Though diagnosed with ASD, no typical ritualistic behaviors were described. Despite not being able to speak, he attempted to communicate with family.
On physical exam, weight was 15.8 kg (90–95th centile) and OFC was 49 cm (50th centile). The head was brachycephalic and the anterior fontanel was closed. Hair was straight and black and of normal distribution and density. There were two posterior whorls and bifrontal upsweeps with a widow’s peak. The palpebral fissures were horizontal, inner canthal distance was 31 mm (90th centile), and lower face was prominent. Nasal width was 31 mm (90–95th centile). His mouth was 50 mm (90–95th centile) wide with normal vermillion. Both ears measured 62 mm (90–95th centile), the right ear protruded more than the left ear, and both have a flat posterior helix (Figure 1). Right testicle was not palpable in scrotum. The right distal palmar crease extends to the 2-3 interspace with a small bridged proximal crease. The left palmar creases bridged to form one (Figure 2). There was dorsally placed second toes and flat arches; the toenails were convex. The patient cooperated poorly with examiner and muscle tone was difficult to assess.
Genetic testing included a fragile X PCR DNA analysis, with 31 CGG repeats. Whole genome chromosome SNP microarray (REVEAL) analysis showed a 1.326 Mb interstitial duplication of 7p22.1 >p22.1 arr 7p22.1 (5,436,367–6,762,394) × 3. This interval includes 14 OMIM annotated genes (FBXL18, ACTB, FSCN1, RNF216, OCM, EIF2 K1, AIMP2, PMS2, CYTH3, RAC1, DAGLB, KDELR2, GRID2IP, and ZNF12) (Figure 3). Test was interpreted as “possible familial variant” per report.
A duplication variant at Xp22.31 (6,455,151 to 8,135,644) × 2 was also detected. Although deletion of this region spanning the STS gene is associated with ichthyosis in males, familial passage of duplications of this region to normal males has been well documented. Females are unaffected by either deletion or duplication. No extended contiguous regions of homozygotic alleles associated with UPD (single chromosome) or consanguinity (multiple chromosomes) were observed.
Because both anomalies were considered “normal variants,” parental samples were not able to be studied due to healthcare insurance refusing to cover genetic testing at this time.
The patient continued to follow up in the Genetic Clinics at Driscoll Children’s Hospital. He was subsequently placed on Guanfacine by his pediatrician for aggressive behavior and outbursts of screaming and walking out of the house during a tantrum. During his last visit in 2013, the patient was 3 years and 9 months old and had a 6-single-word vocabulary. Though still diagnosed with ASD, no typical ritualistic behavior was described by parents and despite his speech delay, he attempted to communicate with family through gestures. During examination, he would at times establish eye contact and share his toy truck with examiner.
Chui et al.  reported a case of a 28-month-old Hispanic male with features of a 7p21 duplication syndrome that included developmental and speech delay and craniofacial abnormalities similar to our patient, such as prominent forehead and hypertelorism, as well as cryptorchidism and bridged palmar creases; other abnormalities not seen in our patient included anteverted nares and anterior fontanel closure delay. The duplication was 1.7 Mb in size and located at 7p22.1 region (arr7 p22.1 (5,092,748–6797,449) × 3 (hg18)). Preiksaitiene et al.  reported a case of a 14.5-year-old female with a smaller size duplication, a 979.8 Kb located at 7p22.1 region (position 5,337,072–6,316,915 × 3), who had developmental and speech delay, low-set and protruding ears, slanting down palpebral fissures, ocular hypertelorism, midface hypoplasia, microretrognathia, tapering fingers, abnormal palmar dermatoglyphic patterns, and short 5th toes. In both cases, it was found that the duplication was absent in the parents and therefore occurred de novo. The duplication in our patient does overlap completely with the patient reported by Chui et al.  and partially with the patient reported by Preiksaitiene et al. .
A more recent article by Pebrel-Richard et al.  presented a 3-year-old boy with a 1,559 Mb microduplication (4,207,513 Mb–5,766,245 Mb) located at the 7p22.2p22.1 region. Their patient presented with psychomotor developmental delay and unusual facial features. He had expressive and receptive language impairment. Physical examination showed prominent forehead, widely spaced eyes, high-arched eyebrows, downslanted palpebral fissures, anteverted nares, large mouth with thin vermilion, and low-set and small ears with narrow external auditory canals, as well as undescended testes, joint hypermobility, and flat arches of feet . Authors attempt to refine a critical region by describing a 430 Kb region of overlap between their patient and Bousman et al. . Our patient further refines this section to 330 Kb region, between 5,436,367 and 5,766,245, which encompasses four RefSeq genes: FBXL18, ACTB, FSCN1, and RNF216, where only RNF216 (OMIM 6609948) and ACTB (OMIM 102630) are known to cause diseases in humans (Figure 3).
Papadopoulou et al.  and Zahed et al.  presented a list of abnormalities described in the literature as an attempt to establish a phenotype or clinical spectrum in patients with 7p duplication. Among these abnormalities, there were described craniofacial dysmorphism, brachycephaly, macrognathia, cryptorchid testes, mental retardation, and one case of autism. Our patient’s previous medical records did not include information regarding delayed closure/large fontanels, often described as a common physical finding in reported cases of 7p duplications. When comparing the cases described by Chui et al., Preiksaitiene et al., and Pebrel-Richard et al. with ours, our patient presented many significant similarities but only some of the craniofacial dysmorphic features (Table 1), even though a significant overlap of genes exists when compared to their reported cases, including the ACTB gene which has been proposed as a strong candidate gene for the alteration of craniofacial development . This could be due to incomplete penetrance and/or variable expressivity of microduplications/deletions of the same region with resulting different clinical phenotypes .
Due to microarray testing of patients with intellectual disability and/or congenital anomalies becoming readily available, there are stronger links between 7p microduplications and developmental disorders, such as autism, speech delay, and mental retardation. The role of other genes in this region such as RNF216L (Q6NUR6), which encodes an E3 ubiquitin-protein ligase and is expressed in a variety of human tissues (brain) at all developmental stages , is associated with protein quality control as well as regulation of transcription factors such as p53 and androgen receptors . Ubiquitin-ligase complexes have been linked to a number of psychiatric diseases such as bipolar disorder and schizophrenia, as well as developmental disorders including autism (with higher blood levels of E3 ubiquitin in comparison to controls), intellectual disability, Angelman syndrome, and recessive juvenile Parkinson’s disease . The ACTB gene, encoding b-actin, an essential component of the cytoskeleton, as mentioned before has been suggested as a candidate gene for craniofacial dysmorphism associated with 7p22.1 duplication.
FSCN1, which codes for fascin, a protein involved in nerve growth and development, is expressed in mature dendritic cells, epithelial cells, glia, and neurons and plays a critical role in dendritic cell functions and with the accurate establishment of neuronal circuits [13, 14]. Studies on prenatally stressed rats, characterized by an anxious/depressive phenotype associated with neuroadaptive changes in the hippocampus, showed significant changes in the expression of this protein, which may be related to early life stress triggered developmental programming . Similarly, studies have correlated the reduction in dendritic arborizations with intellectual disability, showing a decreased neuronal size and a major cell packing density in patients with a defined neurological disorder. Dendritic abnormalities could lead to a cognitive deficit by reducing the synaptic density or by arresting the synaptic development . Furthermore, microarray assays revealed a significant downexpression of the FSCN1 gene in CREB binding protein-depleted cells found in Rubinstein–Taybi syndrome that is characterized by intellectual disability and growth restriction, multiple congenital malformations such as broad thumbs and big toes, heart defects, cryptorchidism, and increased tumor risk ; some of these features are also present in 7p22 patients.
Further investigation is needed in order to determine the relation between these genes which are poorly understood and the characterization of a 7p22.1 duplication syndrome. Recognition of the clinical spectrum in patients with a smaller duplication of 7p should prove valuable for determining the minimal critical region, helping delineate a better prediction of outcome and genetic counselling in patients with duplications in this region .
Conflict of Interests
The authors declare that there is no conflict of interests regarding the publication of this paper.
E. Preiksaitiene, J. Kasnauskiene, Z. Ciuladaite, B. Tumiene, P. C. Patsalis, and V. Kučinskas, “Clinical and molecular characterization of a second case of 7p22.1 microduplication,” American Journal of Medical Genetics, Part A, vol. 158, no. 5, pp. 1200–1203, 2012.View at: Publisher Site | Google Scholar
T. Cai, P. Yu, D. A. Tagle, and J. Xia, “Duplication of 7p21.2→pter due to maternal 7p;21q translocation: implications for critical segment assignment in the 7p duplication syndrome,” American Journal of Medical Genetics, vol. 86, no. 4, pp. 305–311, 1999.View at: Google Scholar
S. Y. Lee, J. Ramirez, M. Franco et al., “Ube3a, the E3 ubiquitin ligase causing Angelman syndrome and linked to autism, regulates protein homeostasis through the proteasomal shuttle Rpn10,” Cellular and Molecular Life Sciences, vol. 71, no. 14, pp. 2747–2758, 2014.View at: Publisher Site | Google Scholar
C. Pebrel-Richard, C. Rouzade, S. Kemeny et al., “Refinement of the critical region in a new 7p22.1 microduplication syndrome including craniofacial dysmorphism and speech delay,” American Journal of Medical Genetics Part A, vol. 164, no. 11, pp. 2964–2967, 2014.View at: Publisher Site | Google Scholar
C. A. Bousman, G. Chana, S. J. Glatt et al., “Preliminary evidence of ubiquitin proteasome system dysregulation in schizophrenia and bipolar disorder: convergent pathway analysis findings from two independent samples,” The American Journal of Medical Genetics Part B: Neuropsychiatric Genetics, vol. 153, no. 2, pp. 494–502, 2010.View at: Publisher Site | Google Scholar