Use of multiplex ligation-dependent probe amplification increases the detection rate for 11p15 epigenetic alterations in Silver-Russell syndrome

• Published in: Clinical genetics 2008-01, Vol.73 (1), p.79-84
• Main Authors: Eggermann, T, Schönherr, N, Eggermann, K, Buiting, K, Ranke, MB, Wollmann, HA, Binder, G
• Format: Article
• Language: English
• Subjects: 11p15 epimutation; Abnormalities, Multiple - genetics; Biological and medical sciences; Chromosomes; Chromosomes, Human, Pair 11; Chromosomes, Human, Pair 7; Deoxyribonucleic acid; Diagnostic tests; DNA; DNA Methylation; Epigenesis, Genetic; Female; Fetal Growth Retardation - genetics; Fundamental and applied biological sciences. Psychology; General aspects. Genetic counseling; Genetic disorders; Genetics of eukaryotes. Biological and molecular evolution; Genomics; Growth Disorders - genetics; Humans; ICR1 hypomethylation; maternal UPD7; Medical genetics; Medical sciences; MLPA; Molecular and cellular biology; Mutation; Nucleic Acid Amplification Techniques - methods; Pregnancy; Silver-Russell syndrome; Syndrome; Uniparental Disomy
• ISSN: 0009-9163; 1399-0004
• DOI: 10.1111/j.1399-0004.2007.00930.x

Silver–Russell syndrome (SRS) describes a malformation syndrome with severe intrauterine and postnatal growth retardation. Currently, two major (epi)mutations have been described: while approximately 10% of patients carry a maternal uniparental disomy of chromosome 7 (UPD7), 35–60% show a hypomethylation at the H19 differentially methylated regions (DMRs) in 11p15. Until recently, a Southern‐blot based test was routinely used to identify epimutation carriers. Nevertheless, this test was time consuming and hampered by the huge amount of genomic DNA needed. With the methylation‐specific multiplex ligation‐dependent probe amplification assay (MLPA) for SRS, a PCR‐based test is now available, allowing the analysis also of small amounts of DNA. Probes in this assay hybridize to the H19 DMRs but do not cover the genomic target of the Southern‐blot probe. We now screened 72 patients with SRS by MLPA. Hypomethylation of the H19 DMRs was confirmed in all patients analyzed by Southern blot. In addition, we identified six individuals with hypomethylation of the H19 DMR who had previously normal blot results. This discrepancy can be explained by the observed generally lower degree of demethylation in this group, possibly not detectable by the less sensitive Southern‐blot method but also with a varying degree of methylation at different DMRs in the same individual. Apart from hypomethylation in the H19 DMR, we observed a slight demethylation for one of the IGF2 probes. The total detection rate of 11p15 hypomethylation is now increased to >38%. Considering maternal UPD7 and chromosomal aberrations, (epi)genetic alterations now account for more than 50% of SRS patients. In summary, MLPA represents an easy, low cost and reliable system in the molecular diagnostics of SRS.