Elimination of wild-type P53 mRNA in glioblastomas showing heterozygous mutations of P53

We screened 50 glioblastomas for P53 mutations. Five glioblastomas showed heterozygous mutations, while three were putatively heterozygous. Six of these eight glioblastomas showed

elimination of wild-type P53 mRNA. These results strongly suggest that some sort of mechanism(s) favouring mutated over wild-type P53 mRNA exists in glioblastoma cells with heterozygous

mutations of this gene.

A majority of tumour suppressor genes present homozygous or hemizygous mutations (Sherr, 2004). Intriguingly, in the P53 gene, heterozygous mutations have also been detected. Typical

mutations of this gene are of the missense type, leading to P53 protein gain of function (Nigro et al, 1989; Dittmer et al, 1993). However, the effects of at least some heterozygous

mutations cannot be explained only by the gain of P53 function (Park et al, 1994). In case of P53 mutations such as R249S or R273H, at least three mutated monomers per tetramer appeared to

be required to inactivate the transactivation of MDM2 and p21 CIP1/WAF1 promoters (Chan et al, 2004). In case of R280T mutations, heterotetramers consisting even of three mutated and one

wild-type P53 monomer showed partially but not completely abolished activity compared to P53 homotetramers consisting of wild-type monomers only (Sun et al, 1993). In this context, the

occurrence of heterozygous mutations of P53 remains enigmatic, leading to a question of whether mechanisms other than P53 mutations or deletions are involved in the elimination of the

wild-type P53 protein. Several nongenomic mechanisms of protein elimination or aberration have been described, including processes operating at the level of transcription (e.g., methylation)

or translation (e.g., miRNA) (Voorhoeve et al, 2006; Watanabe et al, 2007). We examined whether glioblastoma cells with heterozygous mutations of P53 contained a mixture of wild-type and

mutated P53 mRNA, or predominantly the mutated P53 mRNA. Additionally, we also checked the methylation status of the P53 promoter.

The study included 50 cases of glioblastoma, diagnosed at Department of Pathology, Medical University of Lodz, according to the World Health Organization criteria for classification of brain

tumours (Louis et al, 2007). The group consisted of 25 females and 25 males, aged from 15 to 76 years (median 59.5).

The investigations were performed using snap-frozen tissues stored at −80°. DNA was isolated from tumour tissues and blood samples from each patient. DNA and RNA were coextracted by means of

Macherey-Nagel DNA/RNA purification kit. RNA samples were treated with DNAase. RNA and DNA concentrations were measured spectrophotometrically. In all 100 ng of total RNA was

reverse-transcribed into single-stranded cDNA in a final volume of 40 μl containing 50 mM DTT, 1.5 μg oligo(dT), 0.5 mM dNTP, 40 units RNase inhibitor and 200 units M-MLV reverse

transcriptase (Promega).

Loss of heterozygosity (LOH) and microsatellite instability (MSI) analyses were performed using paired tumour specimens and corresponding peripheral blood samples, to recognise tumour

samples with minimal contamination by normal cells. The following LOH and MSI markers were used: D1S2734, D1S197, D1S162, D1S156, D9S319, D9S319, D9S162, D10S587, D10S1267, D17S1828, AFM119,

BAT25, BAT26, BAT40. Forward primers were 5′ end fluorescence-labeled. PCR was performed in thermocycling conditions individually established for each pair of primers. PCR products were

denatured and gel electrophoresis in LiCor automatic sequencer system was applied to the separation and analysis of PCR-generated alleles.

Exons 5–8 of the P53 gene were amplified by PCR as described before and sequenced using the dideoxy termination method and SequiTherm Excel DNA Sequencing Kit (Epicentre Technologies)

(Zakrzewska et al, 2005).

The primers used for the PCR amplification of cDNA sequences were: p53: 5′-GTGCAGCTGTGGGTTGATT-3′ (sense) and 5′ GCAGTGCTCGCTTAGTGCTC-3′ (antisense); annealing temperature was 53°C. The

sequencing primers were: p53 exon 5–8: 5′-GCCATCTACAAGCAGTCACA-3′ (sense), and p53 exon 8–5: 5′-CCCTTTCTTGCGGAGATTCT-3′ (antisense); annealing temperature was 55°C. LiCor automatic sequencer

system was applied to the separation and analysis of PCR-sequencing products.

To verify the results, a semi-quantitative densitometric analysis was performed in which wild and mutated band intensity was estimated, and then compared to a neighbouring band in the same

sequencing lane for reference.

Sodium bisulphite modification of genomic DNA was performed using the CpGenome Universal DNA Modification Kit (Chemicon International, Temecula, CA, USA). CpGenome Universal Methylated DNA

(Chemicon International) was used as a methylation-positive control for the methylated P53 promoter, and DNA from peripheral blood leukocytes was used as the control for unmethylated alleles

of P53. The MSP was performed as previously described (Amatya et al, 2005).

Genomic DNA and cDNA obtained from fifty glioblastoma samples were sequenced for P53 mutations. Mutations of P53 were detected in 16 cases, eight of these being heterozygous (showing a weak

mutated band or a mutated band as strong as the wild band; Figure 1B). Five of these eight cases were indeed confirmed as heterozygous when LOH and MSI analyses showed no or negligible

contamination of the tested samples by normal cells (cases 1–5, Table 1; Figure 1A). In three additional cases (6–8, Table 1), sequencing results suggested heterozygous mutations of P53.

However, we could not exclude a possible contamination of the tumour specimens with normal cells in this instance because no LOH/MSI was detected in them. We defined these cases as

presenting putative heterozygous mutations of P53. In six cases (including heterozygous as well as putative heterozygous mutations), cDNA sequencing revealed a decreased amount, or lack of,

the wild (nonmutated) template when compared to the genomic DNA sequencing (cases 1–4, 6–7, Table 1; Figure 1C). A densitometric analysis of the wild and mutated bands confirmed the above

observations (data not shown).

Molecular analyses of glioblastomas. (A) example of LOH analysis showing a minimal contamination of the tumour sample with the normal cells (case 4; only a trace of the lost allele is

observed in the tumour sample). The lost allele is marked with an arrow. (B, C) P53-sequencing results. The mutated nucleotide (p53 Exon 8; codon 273; CGT>TGT; Arg>Cys) is marked with

arrows. (B) genomic DNA sequencing (case 3): C and T nucleotides are both detected, representing a heterozygous mutation. (C) cDNA sequencing (case 3): no wildtype, only mutated mRNA is

detected. (D) MSP result representing a lack of P53 promoter methylation (case 3). T, tumour sample; N, a corresponding normal tissue (blood); −, negative control; +, positive control; M,

methylated; UM, unmethylated.

MS-PCR revealed P53 promoter methylation (Figure 1D) in only three cases. One had a heterozygous mutation, while another had a putative heterozygous mutation of the P53. However, in both of

these cases no wild-type cDNA template was detected (case 4 and 7). The third case also presented a heterozygous mutation of P53 – but without any decrease in the amount of wild-type cDNA

template – as shown by cDNA vs genomic DNA sequencing (case 5, Table 1).

Heterozygous mutations of P53 have been widely described (Dittmer et al, 1993). In this study we show that a majority of glioblastomas presenting heterozygous mutations of P53 gene presented

no wild-type P53 mRNA. These results strongly suggest that glioblastoma cells may have the ability to develop a mechanism(s) which would allow for either (1) the silencing of wild-type P53

transcription, (2) the degradation of wild-type P53 mRNA, or (3) the selective overproduction of mutated P53 mRNA. Moreover, our results show that heterozygous mutations of P53 gene,

elimination of wild-type P53 mRNA, or selective production of mutated mRNA can occur during glioblastoma tumorigenesis. An extremely important question thus arises – that is, ‘what

mechanism(s) is (are) responsible for favouring the mutated P53 mRNA over the wild-type ones?’

A methylation of DNA regulatory elements – mainly promoters, is one of the mechanisms of tumour suppressor genes silencing (Watanabe et al, 2007). It was shown that a similar proportion of

gliomas with and without P53 mutation present P53 promoter methylation (Amatya et al, 2005). Indeed, the lack of wild-type mRNA – despite the presence of wild-type DNA observed by us, could

be explained by a selective methylation of DNA regulatory element of nonmutated P53 allele. The primers we used in methylation-specific PCR have already been successfully used by the Ohgaki

group in analysing P53 promoter methylation in gliomas (Amatya et al, 2005). Nevertheless, we observed that no P53 promoter methylation was detectable with this set of primers in the

majority of cases analysed in this study. Collectively, these results suggest that identification of mechanism(s) responsible for the elimination of wild-type P53 mRNA requires more

research. Obviously, the elimination of wild-type P53 may have resulted from a mechanism other than epigenetic changes of P53 DNA regulatory elements. Nonetheless, uncovering of this

mechanism can be very important for the development of new anti-tumour therapeutics.

In conclusion, we show in this article that glioblastomas presenting heterozygous mutations of P53 employ some sort of mechanism(s) to positively select mutated P53 mRNA. We offer a

relatively easy procedure for determining whether similar situations also occur in other cancers. The precise mechanism(s) for favouring the mutated type of P53 mRNA – however, still remains

to be discovered.

This paper was modified 12 months after initial publication to switch to Creative Commons licence terms, as noted at publication

Amatya VJ, Naumann U, Weller M, Ohgaki H (2005) TP53 promoter methylation in human gliomas. Acta Neuropathol (Berl) 110: 178–184, doi: 10.1007/s00401-005-1041-5

This work was supported by Medical University of Lodz Grant no 502-11-442 and Ministry of Scientific Research and Information Technology Grant no 2P05A 7929. Mr Giac Nguyen from the Medical

University of Lodz is kindly acknowledged for language assistance.

Department of Pathology, Medical University of Lodz, Paderewskiego 4, Lodz, 93-509, Poland

Department of Molecular Pathology and Neuropathology, Medical University of Lodz, Czechoslowacka 8/10, Lodz, 92-216, Poland

I Zawlik, E Golanska, R Stawski, S Piaskowski, E Bieniek, M Zakrzewska, P P Liberski & P Rieske

Department of Radiology, Medical University of Lodz, Czechoslowacka 8/10, Lodz, 92-216, Poland

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