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JMD 2006, Vol. 8, No. 5
Copyright © 2006 American Society for Investigative Pathology & Association for Molecular Pathology

Rapid Mutation Screening for HRPT2 and MEN1 Mutations Associated with Familial and Sporadic Primary Hyperparathyroidism

Viive M. Howell*, John W. Cardinal{dagger}, Anne-Louise Richardson*, Oliver Gimm{ddagger}, Bruce G. Robinson* and Deborah J. Marsh*

From the Kolling Institute of Medical Research, Royal North Shore Hospital and the Department of Molecular Medicine, * University of Sydney, Sydney, Australia; the Department of Diabetes and Endocrinology, {dagger} Princess Alexandra Hospital, Queensland, Australia; and the Department of General, Visceral, and Vascular Surgery, {ddagger} Martin Luther University, Halle-Wittenberg, Germany


    Abstract
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Familial hyperparathyroidism, a disease of the parathyroid glands, may occur in conjunction with pituitary and pancreatic tumors (multiple endocrine neoplasia type I), kidney and bone tumors (hyperparathyroidism jaw tumor syndrome), or alone (familial isolated hyperparathyroidism). This study describes the development and validation of rapid scanning for mutations in two tumor suppressor genes linked to familial hyperparathyroidism—MEN1 and HRPT2. Denaturing high-performance liquid chromatography mutation scanning for MEN1 was performed using a set of 10 amplicons covering the nine coding exons and flanking intronic regions and for HRPT2 using a set of three amplicons for exons 1, 2, and 7 and flanking intronic regions, in which 80% of the mutations identified to date are located. All 52 MEN1 mutations or polymorphisms, 46 known and six unknown, were successfully detected. Mutation detection in exon 9 was not confounded by the presence of the common polymorphism D418D. In addition, all 10 HRPT2 mutations were successfully detected, and a two-step approach was able to distinguish IVS2 common polymorphisms from exon 2 mutations. The development of rapid denaturing high performance liquid chromatography mutation scanning of MEN1 and HRPT2 facilitates a molecular diagnosis of the associated familial syndromes for both clinically affected and at-risk family members.


    Introduction
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
Hyperparathyroidism (HPT) is a disease of the parathyroid glands characterized by calcium-insensitive hypersecretion of parathyroid hormone and increased cell proliferation. The familial autosomal dominant cancer syndromes multiple endocrine neoplasia type 1 (MEN 1) (OMIM no. 131100) and hyperparathyroidism jaw-tumor syndrome (HPT-JT) (OMIM no. 145001) have an 80 to 90% penetrance of HPT.1, 2 Germline MEN1 mutations have been detected in ~70% of individuals affected by MEN 11, 3, 4 and a small number of patients presenting with familial isolated hyperparathyroidism (OMIM no. 145000).5, 6, 7, 8, 9 In addition, 10% of germline mutations are de novo mutations identified in sporadic parathyroid adenomas.10 To date ~60% of HPT-JT kindreds and up to 7% of familial isolated hyperparathyroidism kindreds have been found to carry germline HRPT2 mutations.8, 11, 12, 13, 14, 15, 16, 17, 18, 19 In addition, HRPT2 mutations have been detected in 70% of patients with parathyroid carcinomas, almost 20% of which have been found in the germline.13, 14, 19, 20 These mutations may be de novo germline mutations or inherited mutations with low penetrance.

The MEN 1 gene MEN1 is located at 11q13 and consists of 10 exons, of which nine are coding. The Human Genome Mutation Database, Cardiff, UK, has to date recorded more than 330 MEN1 germline mutations distributed throughout the coding region. No genotype/phenotype correlation has been identified.21 Menin, the gene product of MEN1, is thought to have a tumor suppressor role in the formation of familial MEN 1 tumors as well as sporadic parathyroid adenomas. Loss of heterozygosity (LOH) at the MEN1 locus has been reported in 20 to 40% of sporadic parathyroid adenomas, and somatic MEN1 mutations were found in 46 to 100% of these tumors.22, 23, 24, 25 MEN1 mutation detection is most commonly performed by direct sequencing or single-stranded conformational polymorphism analysis (SSCP).3, 25, 26 Enhanced SSCP, using fluorescent labeling in combination with heteroduplex analysis, has recently been reported for MEN 1 with 100% detection of 27 known variants.27 Denaturing high-performance liquid chromatography (DHPLC) with or without SSCP and sequencing has been used for the detection of MEN1 mutations28, 29 ; however, DHPLC validation studies, taking into consideration the possible confounding influence of common polymorphisms, have not been reported.

The HPT-JT gene HRPT2 is located at 1q25 and consists of 17 exons.11 To date, 45 different HRPT2 mutations and seven polymorphisms have been identified.11, 12, 13, 14, 15, 16, 17, 18, 19, 20 Eight of the 17 exons have been found to harbor mutations, and 80% of the mutations are located in exons 1, 2, and 7 or their flanking introns. HRPT2, like MEN1 is a putative tumor suppressor gene; however, the incidence of LOH at the HRPT2 locus is less than 13% in tumors tested.14, 25, 30, 31 Three studies that included investigation of two HPT-JT families have reported DHPLC detection of HRPT2 variants.14, 15, 19 All other mutation reports for HRPT2 have used direct sequencing for mutation detection8, 11, 13, 16, 17, 18, 20 with confirmation of one mutation by allele-specific-oligonucleotide hybridization.12

DHPLC is a technique for automated mutation scanning that detects heteroduplexes formed during polymerase chain reaction (PCR) amplification of heterozygous template DNA.32 After amplification, PCR fragments are injected into the flow path of a reverse phase column in a HPLC system. Under partially denatured conditions, the less stable (more denatured) heteroduplexes are eluted from the column earlier than the more stable homoduplexes and are detected by the presence of additional or aberrant peaks. Amplicons presenting with multiple or aberrant peaks are sequenced to characterize the variants.

DHPLC enables automated mutation scanning of PCR products amenable to high-throughput workloads. In a comparative study of BRCA1, DHPLC detected 100% of mutations assessed compared with 65% detection by SSCP.33 Further advantages of DHPLC over SSCP, the most common method reported for MEN1 mutation scanning, include larger fragment sizes able to be analyzed, automated sampling, and the ability to program multiple conditions per run or project.34 Mutation scanning by DHPLC has been successfully applied to a number of tumor suppressor genes including PTEN, VHL, and RET.35 A limitation of this and other mutation scanning techniques is likely interference from the detection of common polymorphisms. An anticipated problem specific to tumor suppressor genes is the possibility of false negative results attributable to LOH when testing tumor DNA. The loss of an allele will result in the loss of heteroduplexes and thus the absence of the mutant chromatographic profile.

We have evaluated the sensitivity of mutation scanning by DHPLC for the putative tumor suppressor genes MEN1 and HRPT2. Germline and tumor DNA samples harboring previously identified germline or somatic mutations were analyzed. Because both genes contain known common polymorphisms, interference by common polymorphisms was also assessed. After establishment of the mutation scanning conditions, assay sensitivity was tested further by mutation scanning for unknown mutations in several MEN 1 samples.


    Materials and Methods
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
DNA Samples
Deidentified germline and parathyroid tumor DNA with previously identified heterozygous MEN1 or HRPT214, 15 variants were obtained according to the ethical guidelines of the human research ethics committees of participating centers and are listed in Tables 1Go and 2Go . All variants detected were confirmed by commercial automated sequencing (Supamac; Sydney University, Sydney, Australia). Tumor DNA samples previously identified with LOH at the MEN1 locus (n = 11) and the HRPT2 locus (n = 1) were tested both unmixed and mixed with an equal amount of known wild-type DNA (Tables 1Go and 2)Go . After optimization of the MEN1 amplicons for DHPLC using a training set of known samples (n = 46), a further six samples known to harbor a mutation in one of the MEN1 exons were used as a test set to validate the optimized conditions (Table 1)Go . A normal DNA panel (n = 20) was also used as part of this validation.


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Table 1. Samples with MEN1 Mutations Assessed by DHPLC (n = 52)

 

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Table 2. Samples with HRPT2 Mutations (n = 10) and Presumptive Polymorphisms (n = 4) Assessed by DHPLC (n = 15)

 
MEN1 and HRPT2 Amplicons
The primers and amplicon sizes for MEN1 amplicons for exons 2 through 10, and HRPT2 amplicons for exons 1, 2, and 7 are detailed in Table 3Go . PCR amplifications were performed in 50 µl containing 200 µmol/L dNTP (Roche Molecular Systems Inc., Branchburg, NJ), 1.5 mmol/L MgCl2, except for MEN1 exon 3, which contained both 4 mmol/L MgCl2 and 1.3 mol/L Betaine (Sigma Aldrich Co., St. Louis, MO), 1 x Buffer II (Applied Biosystems, Foster City, CA), 1.5 U of AmpliTaq gold DNA polymerase (Applied Biosystems), 0.4 µmol/L of each primer (Pacific Oligos, Lismore, Australia), and 200 ng or 50 ng of DNA for MEN1 or HRPT2, respectively. All PCRs were performed in a DNA Engine Dyad thermal cycler (MJ Research, Incline Village, NV). A touchdown cycling protocol with 30-second steps and cycles consisting of denaturation at 95°C, followed by annealing at various temperatures, and extension at 72°C, was used for MEN1 PCR. An initial denaturation at 95°C for 10 minutes was performed followed by five cycles with the annealing temperature starting at 65°C and decreasing 1°C per cycle, five cycles with the annealing temperature at 60°C, five cycles with the annealing temperature starting at 59°C and decreasing 1°C per cycle, and then 30 cycles with the annealing temperature at 55°C and a final extension for 5 minutes. The thermal cycling for the HRPT2 amplicons consisted of an initial denaturation at 95°C for 10 minutes followed by 35 cycles of 30 second steps of denaturation at 95°C, annealing at 60°C (except for exon 1 for which the annealing temperature was 55°C), and extension at 72°C, followed by a final extension at 72°C for 5 minutes. Before DHPLC, heteroduplex enhancement was performed for all PCR products, as previously described.14


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Table 3. Primers, Amplicon Sizes, and DHPLC Injection Temperatures for MEN1 and HRPT2

 
DHPLC
DHPLC was performed on a WAVE System for Mutation Detection 2100 (Transgenomic Inc., Omaha, NE) as previously described.35 In brief, a 5-µl aliquot of heteroduplex enhanced PCR product was injected into the mobile phase in the direction of the flow path of the DNASep cartridge (Transgenomic Inc.). The conditions for each amplicon are listed in Table 3Go . The results were analyzed using Navigator software (Transgenomic Inc.). For each amplicon, the chromatograms were normalized against the wild type, and resulting peaks were assessed both visually and by the software using the scattergraph function.


    Results
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
MEN1 Mutation Detection
DHPLC mutation scanning of MEN1 was developed to span the nine coding exons and flanking intronic regions. The final set of 10 different amplicons resulted in the successful detection of all 46 samples that made up the training set (Table 1Go , Figure 1Go ) as well as six unknown samples with different MEN1 sequence variants (Table 1Go , Figure 2Go ). There was decreased sensitivity of mutation detection for amplicons greater than 550 bp. Only five of seven mutations in exons 2 and 4 of 10 mutations in exon 10 were detected within large amplicons (data not shown). The somatic mutations in eight of the 11 tumor samples (all of which had previously identified LOH) were detected without mixing with wild-type DNA (data not shown). These tumor samples therefore contained greater than 0% but less than 50% nontumor cell DNA.


Figure 1
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Figure 1. DHPLC results for MEN1 exon 9 amplicon at 62°C. A: Discriminant analysis using the scattergraph function of Navigator software of exon 9 wild type, D418D (c.1364C>T) heterozygous, and unknown samples at 62°C. Scattergraph grouped the chromatograms into three different clusters, labeled 1 to 3 (B), and matched the three different genotypes determined by subsequent sequencing. The clusters are shown in three-dimensional space with clear separation between the clusters. C: Chromatograms for the remaining seven MEN1 mutations assessed for exon 9. All were distinguishable from the polymorphism (A), and the mutation c.1458C>T was discernible in the presence of the polymorphism.

 

Figure 2
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Figure 2. MEN1 test set analysis. Six samples known to harbor a MEN1 mutation were analyzed in a blinded manner, along with 19 to 20 control DNA samples from a panel of healthy volunteers. Scattergraph plots identified mutations (circled) in exons 3 (A), 4 (B), 8 (C), and 10 (D). The results for the exon 9 unknown sample are shown in Figure 1Go .

 
Concurrent Detection of Common Polymorphisms and Mutations in MEN1 Exon 9
The presence of common polymorphisms can reduce the efficiency of DHPLC mutation scanning. The exonic MEN1 polymorphism c.1364C>T (D418D) has a reported heterozygous frequency greater than 29%.36 Comparative analysis of wild-type known c.1364C>T heterozygous and unknown samples using the scattergraph function of the Navigator software was important for accurate assessment of unknown MEN1 exon 9 samples (Figure 1 A and B)Go . The polymorphism presented as a subtle broadening peak and did not interfere with mutation detection within exon 9. The pattern for this polymorphism was different to the polymorphism in combination with a nearby missense mutation (c.1354G>C + c.1364C>T) as well as to another base substitution on the same codon (c.1362G>C, D418H) (Figure 1C)Go .

HRPT2 Mutation Detection
Mutation scanning of the HPT-JT gene HRPT2 was developed to screen three exons (1, 2, and 7) that together harbor 80% of mutations detected in this gene to date. In total, 15 genomic or tumor DNA samples harboring HRPT2 mutations or putative polymorphisms were successfully assessed: one mutation and one polymorphism in exon 1 (Figure 3A)Go , five mutations and one polymorphism (as well as one sample heterozygous for both a mutation and polymorphism) in exon 7 (Figure 3B)Go , and four mutations and two polymorphisms in exon 2 (Figure 4)Go . The tumor DNA sample c.165delC, which had previously been shown to have LOH, was successfully detected without mixing with wild-type DNA (Figure 4)Go .


Figure 3
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Figure 3. DHPLC results for HRPT2 exon 1 and exon 7 amplicons. A: Chromatograms for the exon 1 wild type, polymorphism c.33C>T, and mutation c.76delA at 62°C. B: Chromatograms for the exon 7 samples at 56°C, and the wild type and mutation c.636delT also at 57°C, at which temperature this mutation was more readily detected.

 

Figure 4
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Figure 4. DHPLC results for HRPT2 exon 2. A: Navigator software generated melt curves for the exon 2 amplicon at 53°C and 57°C. The exonic region of the amplicon is shaded, and the numbers above the curves indicate the locations of the mutations as listed in (B). B: Chromatograms for the exon 2 samples run at both 53°C and 57°C. At 53°C, the two IVS2 polymorphisms have markedly aberrant chromatograms, whereas two mutations (c.191T>C and c.165delC) show only subtle changes from the wild-type peak. At 57°C, the chromatograms for the two IVS2 polymorphisms are indistinguishable from the wild-type sample, whereas the two mutations c.191T>C and c.165delC are now easily discernible as having aberrant chromatograms. The remaining two mutations displayed aberrant chromatograms at both temperatures.

 
Concurrent Detection of Common Polymorphisms and Mutations in HRPT2 Exon 2 Amplicon
The common HRPT2 polymorphisms IVS2+28C>T and IVS2+28del4 have distinct multipeak patterns that may interfere with mutation detection (Figure 4B)Go . By taking advantage of the different melt domains in the exon 2 amplicon (Figure 4A)Go , it was possible to determine the presence of these polymorphisms but also to melt these intronic variants and determine the presence of exonic mutations (Figure 4B)Go .


    Discussion
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 
In this study, we have determined DHPLC to be both efficient and sensitive for the detection of mutations in the putative tumor suppressor genes MEN1 and HRPT2 by the successful detection of all 52 MEN1 mutations and polymorphisms, and 10 HRPT2 mutations. To confirm good DNASep cartridge resolution, at least one wild-type sample and samples with mutations (where available) in each amplicon should be run in conjunction with the samples under investigation. To ensure sensitive detection of mutations, careful assessment of the resulting chromatograms is required. Although the majority of mutations present with overtly aberrant peaks, some mutant patterns are subtle and require rigorous comparison with wild-type samples. When analyzing tumor DNA samples for mutations in genes where LOH is suspected, prior knowledge of the presence or extent of LOH is not necessary. We observed that by running samples with and without mixing with normal DNA, all mutations in the tumor samples (n = 12) were detectable.

For DHPLC scanning of the nine coding MEN1 exons and flanking intronic regions, a 10-tube PCR protocol per patient, cycled under identical conditions, was established. This DHPLC assay enables amplicon localization of mutations, if present, in less than 24 hours. Subsequent identification of the mutation would require sequencing of one amplicon rather than all nine, although the presence and detection of rare polymorphisms would increase the number of amplicons requiring sequencing. DHPLC detection of MEN1 mutations has been previously reported with the successful detection of four mutations in three exons (exons 2, 7, and 9).28 However, the impact of the presence of the common D418D polymorphism in exon 9 was not addressed. The work in this study showed that the common MEN1 polymorphism, D418D, which has a reported frequency greater than 29%,36 can be identified by scattergraph analysis of multiple wild-type and D418D (c.1364C>T) heterozygous samples (Figure 1B)Go and did not confound mutation detection in the exon 9 amplicon (Figure 1 A and C)Go . Concurrent accurate DHPLC detection of mutations and polymorphisms has similarly been shown recently for other genes.37 It is however, conceivable that a mutation will present with the same pattern as this polymorphism. Ultimately, the approach taken for the exon 9 amplicon may be different for each unknown sample and will depend on the DHPLC findings in the other nine amplicons. For family studies of previously identified mutations, DHPLC offers an efficient alternative or adjunct to repeat sequencing.

To date, 45 HRPT2 mutations have been reported. Hotspot regions are evident, with 80% of mutations localized to exons 1, 2, and 7. A three-tube PCR protocol was established for DHPLC mutation scanning of exons 1, 2, and 7 and flanking intronic regions and involved analysis of chromatograms of one or two different temperatures per amplicon (Table 3B)Go . This assay demonstrated 100% sensitivity for the available 15 DNA samples with different HRPT2 genotypes (10 mutations, four polymorphisms, and one sample harboring both a mutation and polymorphism in the same amplicon) (Figures 3Go and 4)Go .

HRPT2 mutations have been found in ~60% of HPT-JT families. It remains to be determined whether the other 40% of HPT-JT families harbor currently undetected mutations. These families may carry large deletions spanning one or more exons as have been found recently in MEN1 and BRCA1.38, 39, 40 The two most common polymorphisms (IVS2+28C>T and IVS2+28del4), have a combined heterozygous frequency of ~60% in the general population.14 These polymorphisms are readily detected in the exon 2 amplicon, enabling confirmation of the presence of two HRPT2 alleles in the majority of individuals and eliminating the possibility of full gene or exon 2 deletion in the germline of these individuals. However, by adjusting the DHPLC running conditions, the interference by these two polymorphisms in mutation detection was able to be minimized (Figure 4)Go .

In conclusion, DHPLC mutation scanning is a rapid method for the detection of both known and unknown mutations. The amplicon sets developed in this study for MEN1 and HRPT2 have demonstrated a sensitivity approaching 100%. These assays are an efficient first step in the detection of germline mutations in MEN 1 or HPT-JT probands as well as a suitable alternative strategy to other mutation detection methodologies for screening of family members for previously identified mutations. This is especially true for laboratories for which sequencing is expensive and has a turn-around-time greater than 24 hours.


    Acknowledgments
 
We thank The Humpty Dumpty Foundation, Australia, for the donation of DHPLC equipment; and C.J. Haven and H. Morreau (Leiden University Medical Center, Leiden, The Netherlands) and R.T. Zori and H.J. Stalker (University of Florida, Gainesville, FL) for providing DNA samples with HRPT2 mutations.


    Footnotes
 
Address reprint requests to Dr. Deborah J. Marsh, Kolling Institute of Medical Research, Royal North Shore Hospital, St. Leonards, NSW 2065, Australia. E-mail: debbie_marsh{at}med.usyd.edu.au

Supported by the Australian National Health and Medical Research Council (grant 302161; and a Dora Lush Biomedical Scholarship to V.M.H.), and the Cancer Institute NSW (fellowship to D.J.M.).

Accepted for publication August 2, 2006.


    References
 Top
 Abstract
 Introduction
 Materials and Methods
 Results
 Discussion
 References
 

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