MSH6 germline mutations in early-onset colorectal cancer patients without family history of the disease

Abstract

Germline MLH1 and MSH2 mutations are scarce in young colorectal cancer patients with negative family history of the disease. To evaluate the contribution of germline MSH6 mutations to early-onset colorectal cancer, we have analysed peripheral blood of 38 patients diagnosed with this disease before 45 years of age and who presented no family history of hereditary nonpolyposis colorectal cancer-related cancers. Blood samples from 108 healthy volunteers were analysed for those genetic alterations suspected to affect the function of MSH6. Of the seven (18.4%) MSH6 alterations found, we have identified three novel germline mutations, one 8 bp deletion leading to a truncated protein and two missense mutations resulting in the substitution of amino acids belonging to different polarity groups. High-frequency microsatellite instability was found in the patient with the MSH6 deletion, but not in the other 27 carcinomas analysed. No MLH1 promoter methylation was detected in tumour tissue. Our findings suggest that germline MSH6 mutations contribute to a subset of early-onset colorectal cancer. Further studies are warranted to understand the genetic and environmental factors responsible for the variable penetration of MSH6 germline mutations, as well as to identify other causes of early-onset colorectal cancer.

Main

Germline mutations in mismatch repair (MMR) genes (mostly in MLH1 and MSH2) are associated with hereditary nonpolyposis colorectal cancer (HNPCC), a highly penetrant autosomal-dominant syndrome characterised by several affected individuals with colorectal cancer (CRC) or extracolonic tumours of the endometrium, stomach, small bowel, ureter, renal pelvis, ovary, and hepatobiliary tract (Lynch and de la Chapelle, 2003). Hereditary nonpolyposis colorectal cancer accounts for about 3–5% of all CRC, including a large proportion of those with a young age of diagnosis, representing the most common hereditary colon cancer syndrome (Petersen et al, 1999; Umar et al, 2004). Hereditary nonpolyposis colorectal cancer carriers are usually heterozygous for the mutant allele, retaining a functional copy of the gene that is apparently sufficient for DNA repair (Parsons et al, 1993). A subsequent somatic mutation, leading to inactivation of the wild-type allele, results in a mutator cancer phenotype named ‘high-frequency microsatellite instability’ (MSI-H), characterised by a high rate of base substitutions, as well as small insertions and deletions in mono- and dinucleotide repeats (Ionov et al, 1993). High-frequency microsatellite instability phenotype has also been reported in sporadic CRC (10–15%), but somatic mutations in MMR genes are rare in these cases (Peltomaki et al, 1993; Kuismanen et al, 2000; Kamory et al, 2003). MLH1 promoter region methylation, leading to silencing of this gene, is an alternative mechanism to mutation underlying MSI-H in sporadic CRC (Toyota et al, 1999). Genetic testing for hereditary predisposition is therefore critical for effective management of suspected HNPCC kindreds (de la Chapelle, 2004; Lynch et al, 2004; Hampel et al, 2005).

The identification of hereditary predisposition is not always easy based on clinical and familial data. Some CRC patients are diagnosed at a very young age, but do not show a family history of cancer indicative of HNPCC. The relative contribution of environmental and genetic factors for the development of the disease in this subset of patients is unknown, but previous investigations have shown that germline mutations in MLH1 and MSH2 genes are scarce (Southey et al, 2005). MSH6 germline mutations have been mostly observed in atypical HNPCC families presenting a weaker family history, possibly caused by lower penetrance of mutations in this gene (Hendriks et al, 2004; Plaschke et al, 2004), and tumours in these families may be ‘microsatellite stable’, may present ‘low-frequency microsatellite instability’ (MSI-L), or may be MSI-H (Wu et al, 1999; Plaschke et al, 2000; Berends et al, 2002). We therefore aimed to evaluate the contribution of germline MSH6 mutations for early-onset CRC in patients without a family history of HNPCC-related cancer.

Materials and methods

Patients, samples, and DNA extraction

After written informed consent, DNA was isolated from peripheral blood samples of 38 individuals who developed CRC before the age of 45 years and had negative family history of the disease (or other HNPCC-associated cancers; Table 1), using the salt–chloroform extraction method (Müllenbach et al, 1989). DNA extraction was also performed from paraffin-embedded tumours available from 28 of the patients (Lungu et al, 1992), as well as from peripheral blood of 108 healthy volunteers. The study was approved by the Institution Review Board.

Table 1 Clinicopathologic features of the 38 early-onset CRC patients

Screening for germline MSH6 mutations

DNA from the 38 CRC patients were screened for MSH6 mutations by denaturing gradient gel electrophoresis (DGGE) using primers and conditions described previously (Wu et al, 1999). Exon 1 and the acceptor splice site of exon 10, as well as samples with abnormal DGGE patterns, were analysed by direct sequencing in an ABI PRISM 310 automatic sequencer using Big Dye Terminator Chemistry (Applied Biosystems, Foster City, CA, USA), according to the manufacturer's recommendations. Whenever necessary, exon 7 was resequenced using different set of primers to exclude or confirm the presence of a polymorphism at the initial primer-annealing site (Kolodner et al, 1999).

MSI analysis

Of the 38 cases, DNA from 28 paraffin-embedded tumours and paired lymphocyte samples were evaluated for MSI. We analysed the Bethesda marker panel (Boland et al, 1998), which includes two mononucleotide repeats (BAT25 and BAT26) and three dinucleotide repeats (D2S123, D5S346, and D17S250). Another three mononucleotide repeat markers (BAT34C4, BAT-RII, and BAX) were also analysed, as MSI in MSH6 carriers has been mainly observed in this type of markers (Verma et al, 1999; Wijnen et al, 1999). DNA was amplified by PCR using fluorescence-labelled 5′ primers, as described previously (Oliveira et al, 1998; Zhou et al, 1998; Pyatt et al, 1999; Loukola et al, 2001), and analysed in an ABI PRISM 310 automatic sequencer. Cases were considered MSI-H when ⩾30% of the markers were positive. The MSI-H case (see below) was routinely analysed for MLH1 and MSH2 germline mutations, using multiplex ligation-dependent probe amplification (MRC-Holland, Amsterdam), DGGE, and direct sequencing with primers and conditions described previously (Wu et al, 1997, 1998), and no pathogenic mutation was detected in these two genes.

MLH1 promoter methylation analysis

MLH1 promoter methylation status was evaluated in MSI-positive cases (both MSI-H and MSI-L), using methylation-specific PCR with primers and conditions described by Fleisher et al (2001).

Results

Seven of the 38 patients (7/38; 18.4%) presented germline MSH6 changes (Table 2), six of them not described previously. One patient had the deletion c.3558_3565delTGAAAGTA (p.G1186fsX1190), two patients presented the missense mutations c.2633T>C (p.V878A) and c.3961A>G (p.R1321G), two patients had the silent mutations c.2272C>T (p.L758L) and c.2319C>A (p.L773L), one patient showed the intronic alteration c.3439-16C>T, and another patient had a silent mutation and a missense mutation, c.[648A>T; 649G>T] (p.[T216T; D217Y]), in the same allele (Table 2).

Table 2 MSH6 germline alterations (and respective MSI status) detected in 38 early-onset CRC patients and in healthy blood donors

In cases in which changes were suspected to affect the function of MSH6, namely, the deletion, the missense, and the intronic alterations, we looked for these nucleotide changes in blood samples from 108 healthy volunteers. The p.G1186fsX1190 and the c.3439-16C>T alterations were detected once and p.V878A in another two controls (Table 2). The p.G1186fsX1190 mutation was initially detected in apparent homozygosity (Figure 1) in the CRC patient and in the control using primers described by Wu et al (1999). Direct sequencing with additional primers demonstrated that these cases were in fact heterozygous for this mutation and that an insertion polymorphism in intron 7 located in the primer-annealing region had not allowed the amplification of one allele with the initial set of primers (data not shown). The p.G1186fsX1190 mutation was subsequently identified in the healthy 54-year-old father of the proband (Figure 2).

Figure 1

Possible disease-causing MSH6 mutations (arrows) identified in early-onset CRC patients. Denaturing gradient gel electrophoresis patterns and the nucleotide sequences (reverse) are shown for cases 2 (A), 37 (B), and 14 (C). Negative control sequences are shown to the right.

Figure 2

Family pedigree of patient nr. 2. Filled symbol (arrowed) represents the affected proband harbouring the heterozygous mutation p.G1186fsX1190 and the symbol with a black circle represents a carrier. Numbers below the symbols indicate age at cancer diagnosis or age at last observation if unaffected. CRC: colorectal cancer.

High-frequency microsatellite instability and MSI-L was found in one and two of the 28 tumours, respectively. The MSI-H patient was positive only for the mononucleotide markers BAT25, BAT26, and BATRII and presented the p.G1186fsX1190 mutation. The two MSI-L patients were positive only for one marker and had no germline mutations in the MSH6 gene. None of these three cases showed MLH1 promoter hypermethylation in the tumour (data not shown).

Discussion

Molecular characterisation of early-onset CRC is important to clarify whether this clinical feature is caused by dominant germline mutations with variable penetrance or arising de novo, by recessive inheritance, or are merely sporadic events. Two groups have previously described one MSH6 germline mutation each in two young CRC patients without family history of the disease (Chan et al, 1999; Verma et al, 1999). We describe six previously unreported MSH6 genetic alterations in 38 early-onset CRC patients with negative family history of HNPCC-related cancer. Three of these six alterations are novel MSH6 germline mutations (three out of 38 mutations; 7.9%), namely, a deletion and two missense mutations, one of the latter occurring contiguously to a silent mutation (Figure 1).

The MSH6 mutation p.G1186fsX1190 is in all likelihood disease causing, as it leads to a premature stop codon at position 1190 and the predicted truncated protein looses one of the two MSH2- and the Mg²⁺-binding domains (Kariola et al, 2002). In addition, the patient's tumour presented MSI-H phenotype only in mononucleotide markers, a feature reported to occur preferentially in tumours associated with MSH6 germline mutations (Verma et al, 1999; Wijnen et al, 1999), and screening for MLH1 and MSH2 mutations was negative. On the other hand, neither the 54-year-old father (Figure 2) nor the 47-year-old healthy blood donor carrying this mutation presented clinical symptoms of CRC (they had never performed colonoscopy screening), suggesting variable penetrance of this mutation. The modifier factors originating early-onset CRC in this 27-year-old patient remain unknown, but some data suggest that multiple mutations in different genes may influence the penetrance of the disease (Scheenstra et al, 2003; Soravia et al, 2005; Okkels et al, 2006). For instance, Okkels et al (2006) reported an 18-year-old CRC patient with three mutations (one missense APC mutation and a nonsense and a missense MSH6 mutation), whereas none of the family members presenting only one or two of the three mutations presented colorectal neoplasms. Other authors have suggested that genetic and environmental factors may modify the risk conferred by mutations in cancer predisposition genes, as considerable inter-individual variation in age at cancer diagnosis has been observed in kindreds sharing the same genetic predisposition mutation (Heinimann et al, 1999; Bala and Peltomaki, 2001). Further studies are warranted to identify factors modulating the age of onset, penetrance, or tumour location in individuals with inherited MMR deficiency, as this knowledge may improve risk estimates and help identify individuals who are genetically susceptible to develop CRC at an early age.

The two missense mutations that were not detected in the normal population (Figure 1) result in a substitution of amino acids belonging to different polarity groups. The mutation p.R1321G occurred in a highly conserved region of the gene, the MSH2-binding domain, suggesting that it would affect MSH6 protein function. The p.[T216T; D217Y] mutation, although not located in a functional domain, results in the substitution of a negatively charged amino acid for a non-polar amino acid that may cause abnormal MSH6 protein function. As these two genomic alterations are likely to alter the function of the protein and were not found in the control population, it is likely that they are pathogenic mutations, but functional studies will be necessary to determine how each of these MSH6 mutations affects protein function.

Besides the three presumably pathogenic mutations, we also identified three novel polymorphisms in the MSH6 gene: the two silent mutations p.L758L and p.L773L and the intronic alteration c.3439-16C>T. On the other hand, the missense mutation p.V878A has previously been reported as a possible disease-causing mutation by some investigators (Wijnen et al, 1999; ICG-HNPCC database) and as a polymorphism by others (Peterlongo et al, 2003). Our finding of this alteration in the normal population corroborates that of Peterlongo et al (2003) and this change should now be classified as a polymorphism.

Of the 28 tumours that could be studied, MSI-H was found only in the case with MSH6 deletion. This tumour shows instability only in mononucleotide repeats, that is consistent with the higher incidence of MSI in this kind of markers in MSH6-deficient tumours described in the literature (Verma et al, 1999; Wijnen et al, 1999). The MSI-L phenotype has also been related to germline MSH6 mutations (Verma et al, 1999; Wijnen et al, 1999), but none of the two MSI-L tumours in this series showed MSH6 mutations or MLH1 promoter hypermethylation. The biological basis of the MSI-L phenotype is currently under debate. This phenotype could result from alterations in MMR proteins other than MSH2 and MLH1, from defects in genes not directly involved in MMR, or it could simply represent a ‘background’ level of genetic instability that may be detectable in all tumours if a sufficient number of markers is analysed (Lengauer et al, 1998).

We conclude that germline MSH6 mutations contribute to a subset of early-onset CRC patients without a family history of the disease. Further studies are warranted to understand the genetic and environmental factors responsible for the variable penetration of these germline mutations and to identify other causes of early-onset CRC, as this would help genetic counselling of these patients and their relatives.