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A Novel 8 Mb Interstitial Deletion of Chromosome 8P12-P21.2

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A Novel 8 Mb Interstitial Deletion of Chromosome 8P12-P21.2 ß 2006 Wiley-Liss, Inc. American Journal of Medical Genetics 140A:873–877 (2006) Clinical Report A Novel 8 Mb Interstitial Deletion of Chromosome 8p12-p21.2 Eva Klopocki,1* Britta Fiebig,1 Peter Robinson,1 Holger To¨nnies,2 Fikret Erdogan,3 Hans-Hilger Ropers,3 Stefan Mundlos,1 and Reinhard Ullmann2 1Institute of Medical Genetics, Charite´ Universita¨tsmedizin Berlin, Berlin, Germany 2Institute of Human Genetics, Charite´ Universita¨tsmedizin Berlin, Berlin, Germany 3Max-Planck Institute for Molecular Genetics, Berlin, Germany Received 10 June 2005; Accepted 2 January 2006 We report on a girl with delayed mental and motor (GSR), and neuregulin 1 (NRG1), are located within the development, ophthalmological abnormalities, and periph- deleted region on chromosome 8p. A comparison of our eral neuropathy. Chromosome analysis suggested a deletion patient with the cases described in the literature is presented, within chromosome 8p. Further investigation by array-based and we discuss the genotype–phenotype correlation in our comparative genomic hybridization (array-CGH) delineated patient. This is the first report of array-CGH analysis of an an 8 Mb interstitial deletion on the short arm of chromosome interstitial deletion at chromosome 8p. ß 2006 Wiley-Liss, Inc. 8. The breakpoints are located at chromosome bands 8p12 and 8p21.2. Forty-two known genes including gonadotro- pin-releasing hormone 1 (GNRH1), transcription factor EBF2, exostosin-like 3 (EXTL3), glutathione reductase Key words: 8p; interstitial deletion; array-CGH INTRODUCTION neously after 40 þ 2 weeks of gestation. The preg- nancy was complicated by maternal parvovirus In contrast to the terminal 8p- syndrome, the B19-infection with seroconversion in week 20. Fetal phenotype of interstitial 8p deletions is rather hydrops was excluded by ultrasound examination. heterogeneous [Ostergaard and Tommerup, 1989; Her birth weight was 3,300 g, her birth length 52 cm, Tsukahara et al., 1995]. Both syndromes are still and her APGAR-score 10/10. A difference between poorly defined and show non-specific clinical the palpebral fissure length (left < right) as well as features. Up to now about 20 cases with interstitial nystagmus were noticed after birth. Sparse produc- 8p deletions have been described in the literature. tion of tears was reported. The interstitial deletions in these cases range from The mental and motor development was delayed chromosomal band 8p11.1 to chromosomal band (sitting at 14 months, crawling at 16 months). First 8p23.1. A critical region associated with congenital words were spoken at the age of 22 months. Physical heart defects has been assigned to 8p23.1 [Devriendt examination at age 2 1 revealed a small, slender et al., 1999]. 4 female with length 82 cm (4 cm < 3rd centile), weight We report on a 2½-year-old girl with psychomotor 9.8 kg (1.5 kg < 3rd centile), head circumference retardation and dysmorphic features. Initially, rou- 44.6 cm (1.8 cm < 3rd centile), and with the following tine chromosome analysis was performed and an interstitial deletion of 8p was suspected. Using array-based comparative genomic hybridization (array-CGH) we confirmed an interstitial deletion This article contains supplementary material, which may be viewed at of chromosome 8p12 to 8p21.2 and defined the the American Journal of Medical Genetics website at http:// deletion size to be 8 Mb. www.interscience.wiley.com/jpages/1552-4825/suppmat/index.html. Grant sponsor: European Regional Development Fund (ERDF). *Correspondence to: Eva Klopocki, Ph.D., Institute of Medical CLINICAL REPORT Genetics, Charite´ Universita¨tsmedizin Berlin, Campus Virchow Klinikum, Augustenburger Platz 1, 13353 Berlin, Germany. The patient is the second daughter of healthy and E-mail: [email protected] non-consanguineous parents. She was born sponta- DOI 10.1002/ajmg.a.31163 American Journal of Medical Genetics: DOI 10.1002/ajmg.a 874 KLOPOCKI ET AL. lysis protocol. Remaining genomic E. coli DNA was removed by exonuclease treatment. BAC insert DNA was amplified by Ligation-Mediated PCR [Klein et al., 1999]. Following ethanol precipitation the PCR products were dissolved in 3ÂSSC/1.5 M betaine and printed on epoxy slides (Advalytix, Brunnthal, Germany). For array CGH analysis genomic DNA was extracted from peripheral blood of the patient by standard methods. Prior to hybridization, the patient’s DNA and reference DNA were labeled with Cy3 and Cy5, respectively, using the BioPrime Array CGH labeling kit (Invitrogen, Carlsbad, CA). The array was hybridized for 24 hr at 428C under humidified conditions in a SlideBoosterTM hybridiza- tion station (Advalytix). Following post-hybridiza- tion washes the array was scanned with a GenePix FIG.1. Patient at age 2½ years. A: Frontal view of the patient. B: Facial aspect. [Color figure can be viewed in the online issue, which is available at Personal 4100A scanner and the spot intensities were www.interscience.wiley.com.] measured by GenePix Pro 6.0 software (Axon Instruments, Union City, CA). Further analysis and visualization of the data was performed using dysmorphic features: thin upper lip, microphthalmia CGHPRO software developed at the Max-Planck particularly of the left eye, strabismus convergens, Institute for Molecular Genetics [Chen et al., 2005]. and bifid uvula (Fig. 1A,B). At age 2½ she began Raw data were normalized by ‘‘Subgrid LOWESS’’. to take tentative steps while standing on the The log2ratio of test to reference was calculated. back of her left foot. Reduced sense of pain and Copy number gains and losses were determined by sleep disturbance were noticed. Because of feeding a conservative threshold of 0.3 and À0.3, respec- difficulties a percutanous stomach tube was recently tively. A gain or loss was regarded as genomic placed. She has a generalized muscular hypotonia aberration only if two or more neighboring clones and no Achilles reflex. Echocardiographical exam- showed a log2ratio above or below the threshold. ination and abdominal ultrasound were normal. BAC clone RP11-395I14, which maps to chromo- Ophthalmological examination revealed hypoplastic some band 8p21.2 was used as probe for FISH. BAC papillae. Decreased conduction velocity of the left DNA was fluorescently labeled using nick transla- peroneal nerve and prolonged distal motor latency tion, and hybridized to metaphase spreads of the indicated peripheral neuropathy with dysmyelina- patient’s lymphocytes using standard procedures. tion. Cerebral magnetic resonance imaging showed Cep8 (Vysis, Downers Grove, IL) was used as control dilatation of the inner ventricles and a small corpus probe. Chromosomes were counterstained with callosum as signs of white matter hypoplasia. Central DAPI. myelination was normal. RESULTS CYTOGENETIC AND MOLECULAR GTG-banding chromosome analysis of peripheral CYTOGENETIC ANALYSIS blood lymphocytes indicated a possible dele- Metaphasechromosomepreparationswereob- tion in chromosome 8p in all metaphases analyzed tained from PHA-stimulated lymphocyte cultures (Fig. 2B). To verify a loss of genomic material from from the patient and her mother according to chromosome 8p the patient’s genomic DNA standard procedures. Chromosome analysis was was analyzed by array-CGH with a genome wide carried out on GTG banded chromosomes at a resolution of approximately 1 Mb. Array-CGH resolution of 500 bands. analysis revealed an interstitial deletion spa- A genome wide 1 Mb resolution BAC array nning from 8p12 to 8p21.2 (Fig. 2A). The patient’s was used for the array CGH analysis [Fiegler et al., karyotype was thus interpreted as 46,XX,del(8) 2003] (clones kindly provided by Nigel Carter, (p12p21.2). The deletion encompasses an 8 Mb Wellcome Trust Sanger Centre). CGH arrays were interval on chromosome 8p (Fig. 3). Deletion break- produced at the Max-Planck Institute for Mole- points are located between BAC clones RP11-11N9 cular Genetics, Berlin, Germany. Detailed proto- and RP11-75P13 (8p12) and between BAC clones cols are available at the institute’s webpage (http:// RP11-561E1 and RP11-395I14 (8p21.2). Array-CGH www.molgen.mpg.de/ abt_rop/molecular_cyto- results were confirmed by FISH using BAC clone genetics/ProtocolsEntry.html). In brief, BAC/PAC RP11-395I14 which maps within the deleted region inserts were isolated based on a standard alkaline to 8p21.2 (Fig. 2C). We mapped the deletion on the American Journal of Medical Genetics: DOI 10.1002/ajmg.a del(8)(p12p21.2) 875 rule out that our patient is homozygous for one or more of the markers. Therefore, a definite statement according to the origin of the deletion is not possible. DISCUSSION In the present study, an interstitial deletion 8p12-p21.2 was identified in a girl with delayed mental and motor development, ocular abnormal- ities (papillar hypoplasia), and peripheral neuro- pathy. Chromosome analysis suggested an aberrant chromosome 8p. However, the exact determination of the deletion size was not possible by conventional cytogenetic analysis. Subsequent analysis by array- CGH revealed an 8 Mb deletion with breakpoints in chromosome bands 8p12 and 8p21.2. This demon- strates the value of the higher resolution of array- CGH for cytogenetic analysis. To our knowledge, 14 cases of interstitial deletion 8p with an overlap with 8p12-p21.2 have been described in the literature summarized in Table I. FIG.2. A: Array CGH profile of chromosome 8. The log2 values of the test/ Deletions in these cases range from chromosomal reference ratios are shown. The red bar next to the ideogram marks the deleted region on chromosome 8p. B: Partial karyotype showing G-banded chromo- band 8p11.1 to band 8p23.1. Microcephaly, mental somes 8 of the patient. Derivative chromosome 8 (*) shows a partial deletion of retardation and genital hypoplasia are common band 8p21 (red arrowhead). C: FISH analysis with RP11-395I14 mapping to 8p21.2 (RP11-395I14 shown in red; control probe cep8 shown in green). The findings in patients with interstitial deletion of 8p deletion of the second signal on chromosome 8 is indicated by the red arrow. (Table I).
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