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From the Department of Molecular Oncology,*
John
Wayne Cancer Institute, Santa Monica; and the Department of
Pathology,
Saint Johns Health Center, Santa
Monica, California
| Abstract |
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| Introduction |
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Treatment of this disease form is difficult as patients are plagued with locally recurrent, chronic, and medically refractory lesions that may number anywhere from one to >100. In addition, in-transit recurrence is often indicative of occult systemic disease progression and therefore suggests why more aggressive forms of locoregional therapy (ie, limb perfusion, amputation) are for the most part ineffective in prolonging overall patient survival.7-10 Because of the cutaneous nature of in-transit recurrence these tumors are quite readily accessible even at small sizes (<1 cm). This unique type of metastatic disease recurrence provides an excellent in vivo model to study molecular events associated with locoregional tumor metastasis, a phenomenon in melanoma that is often a harbinger of systemic disease progression. Many common genetic aberrations such loss of heterozygosity (LOH) of DNA microsatellites have been reported in melanoma.11-14 Numerous studies have shown that primary melanomas most frequently demonstrate LOH on chromosome 9 in the region of the p16INK4 gene, a tumor suppressor gene involved in the development of melanoma.15,16 Some have noted these findings to occur in primary tumors of all depths of invasion suggesting this event as an early occurrence in the tumor progression sequence.13 In addition, LOH on chromosome 10q in the region of the potential tumor suppressor gene PTEN/MMC1 was also noted to occur commonly in thin primary melanomas suggesting that this was an early event as well.12 However, others have demonstrated that LOH in this same region occurs more commonly in advanced stage tumor samples or more aggressive primary tumors, suggesting a later role in tumor progression.17,18 Another contentious tumor suppressor gene locus has been confined to a narrow region on 6q where significant LOH has been found to occur commonly in metastatic tumors and to a lesser degree in primary lesions >1.5 mm thick suggesting a relationship to melanoma progression.12,19
Although a model of melanoma tumorigenesis based on allelic losses has been proposed, clinicopathological correlations are lacking.12,20 For the most part, many of these studies are small and the tumors evaluated were either primary lesions or advanced metastasis (from random sites) obtained arbitrarily to perform genetic studies.19,21,22 The extensive diversity of tumor samples assessed among these studies often varied by stage as well as their sites of metastasis limiting any correlation of these molecular events to clinicopathological factors of disease. This may be particularly relevant in malignant cutaneous melanoma as the staging system was recently amended to reflect the impact site of metastasis has on survival.23,24 Furthermore, because advanced metastasis may contain additional LOH events (ie, distal arm of 1p and 11q23) not identified or infrequent in primary tumors, the role of these findings is unknown.25,26 Particularly, of interest is at which point in the course of tumor progression do these events occur and are they clinicopathologically relevant. Identification of those genetic events associated with early stages of metastasis offers the advantage of establishing potential tumor markers to assess patient risk and monitor subclinical disease. To date, no study has assessed the genetic changes specifically associated with in-transit. The present study was undertaken to identify incidence and location of allelic loses in in-transit metastasis, a specific clinical entity associated with an early and aggressive form of melanoma progression.
In this report, we analyzed 79 paraffin-embedded in-transit melanoma tumors from 25 patients for LOH using eight microsatellite markers on six different chromosomes. In addition, in 10 patients matched primary tumor paraffin-embedded blocks were available for DNA analysis. Results were assessed for molecular clonality. Patient tumors discordant for LOH genotyping were assessed for intratumor heterogeneity using laser capture microdissection (LCM).
| Materials and Methods |
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Seventy-nine in-transit melanoma tumors from 25 patients (range, 2 to 9 lesions per patient; average, 3) diagnosed with AJCC stage III in-transit melanoma were collected from the Department of Pathology at the St. Johns Health Center. Anatomical locations of the in-transit tumors in evaluated patients were as follows: two trunk, five head and neck, and 18 extremity. Tissues were selected from patients seen at the John Wayne Cancer Institute from 1991 to 2000 who had paraffin blocks available for at least two or more in-transit melanoma tumors. In addition, 10 patients had matched primary tumor paraffin-embedded blocks available for assessment.
Microdissection and DNA Isolation
Ten-µm sections were cut from paraffin-embedded tumors and floated onto glass slides. Tumor lesions were microdissected from adjacent normal tissue to avoid contamination. Pathological review was performed on all specimens using matching hematoxylin and eosin-stained slides for comparison.
DNA was extracted using QIAamp tissue kit (Qiagen, Valencia, CA). Control DNA was obtained from either peripheral blood lymphocytes (PBLs) using the QIAamp blood kit or from histologically confirmed normal tissue from the same surgical specimen.
Microsatellite-Polymerase Chain Reaction (PCR) LOH Analysis
Eight primer sets on six different chromosomes were selected for
PCR amplification. These markers were selected because they showed a
high incidence of LOH either in primary melanoma tumors and/or advanced
metastasis.13,14,22
The following FAM-labeled
microsatellite markers were used in this study: D1S214 at 1p36.3,
D1S228 at 1p36, D3S1293 at 3pter-3p24.2, D6S264 at 6q25.2-q27, D9S157
at 9p23-p22, D9S304 at 9p21, D10S212 at 10q26.12-q26.13, and D11S2000
at 11q22-q23. PCR primer sets for specific allele loci were obtained
from Research Genetics, Inc. (Huntsville, AL). Genomic DNA (
50 ng)
extracted from paraffin-embedded tumors and matching PBLs was amplified
using PCR in a 25-µl reaction volume, containing 10 mmol/L Tris-HCl,
pH 8.3, 10 mmol/L KCl, 1.5 mmol/L MgCl2, 200
µmol/L deoxynucleotide-triphosphates, 0.25 µmol/L forward primer,
0.25 µmol/L reverse primer and 0.5 U of AmpliTaq Gold DNA polymerase
(Perkin Elmer, Norwalk, CT). PCR cycles consisted of 30 seconds at
94°C, 30 seconds at 50 to 56°C depending on the primer sets, and 90
seconds at 72°C for a total of 40 cycles. This was followed by a
5-minute final extension at 72°C. PCR products were electrophoresed
on a 6% denaturing polyacrylamide gel. The gel was scanned by a
fluorescent/optical GenomyxSC scanner (Beckman Coulter, Inc.,
Fullerton, CA). Densitometry was performed on the gel images and
analyzed using ClaritySC 3.0 software (Media Cybernetics, Silver
Spring, MD). The tumor was scored as exhibiting LOH if there was a 50%
or greater reduction in signal intensity of one allele when compared to
the respective allele in the corresponding normal DNA.14
LCM and DNA Extraction
Patients demonstrating discordant LOH profiles were assessed for
intratumor heterogeneity using LCM. Three random and discrete regions
from each tumor were selected for LCM and DNA extraction. Amplitude,
pulse duration, and number of hits were adjusted to capture
4
x 106
µm3
of tissue. DNA
was isolated with 100 µl of Proteinase K (0.04% of Proteinase K, 10
mmol/L of Tris-HCL, pH 8.0, 1 mmol/L of 1% Tween) at 42°C overnight,
followed by heat-denaturing of Proteinase K at 95°C for 10 minutes.
PCR and LOH analysis was performed as previously described.
| Results |
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Microsatellite analysis of DNA isolated from 79 in-transit
melanoma lesions obtained from 25 patients was performed using eight
microsatellite markers on six chromosomes. In 19 of 25 patients (76%)
LOH was demonstrated for at least one microsatellite marker. In the
informative cases, D9S157 showed the highest LOH frequency (56%)
followed by D9S304 (47%), D11S2000 (39%), D10S212 (35%), and D1S214
(32%) (Table 1)
. Representative LOH in
in-transit melanoma lesions as compared with respective control
lymphocyte DNA is shown in Figure 1
.
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Only six of the 79 lesions (7.6%) analyzed demonstrated different
LOH profiles as compared to other lesions from the same patient.
Results were repeated to confirm the findings. This lack of
heterogeneity among in-transit lesions occurred in six patients. There
was no specific microsatellite marker associated with this intertumor
heterogeneity. Four of six patients demonstrated a differential loss or
retention of one microsatellite marker per lesion in comparison to
their other lesions. In two patients, two additional LOH events
occurred: one patient demonstrated allelic loss at loci D1S214 and
D1S228, most likely indicating a large deletion on the short arm of
chromosome 1 and the other patient demonstrated allelic loss at two
different chromosomal markers (D6S264 and D11S2000) (Table 3)
. Interestingly, in both patients, the
additional LOH occurred in the same in-transit lesion. To determine
whether these in-transit tumors were composed of cells with LOH
genotypes matching either of the differing in-transit tumors,
intratumor heterogeneity analysis was performed using LCM.
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Intratumor heterogeneity was assessed among the 26 lesions in the
six patients who demonstrated intertumor heterogeneity. Tumor cells
were captured from three different regions for each tumor, DNA was
extracted, and PCR was performed to assess for LOH at the discordant
microsatellite markers (Figure 2)
. These
findings were then compared to the original LOH status of the tumor
obtained from whole tumor DNA analysis. Six of 26 (23%) in-transit
lesions demonstrated intratumor heterogeneity for at least one
microsatellite marker (Table 4)
. All
patients, except one, in which intertumor heterogeneity was identified
maintained one in-transit metastasis that when assessed, demonstrated
intratumor heterogeneity for the allele in question. In the two
patients demonstrating intertumor heterogeneity for two LOH markers,
intratumor heterogeneity was identified in the same in-transit
metastasis for each marker. In general, minimal intratumor
heterogeneity was noted for those in-transit metastases demonstrating
intertumor heterogeneity.
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In 10 patients corresponding primary tumor blocks were available
for LOH assessment. Five patients (50%) demonstrated the acquisition
of an additional LOH in an in-transit metastasis not noted in the
primary tumor (Table 5)
. In four of these
patients, in-transit tumors demonstrated LOH at one additional marker,
and one patients tumor for two additional markers. No intratumor
heterogeneity was noted in any of the three primary tumors
(patients 7, 18, and 20) where the corresponding metastasis
demonstrated intertumor heterogeneity.
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| Discussion |
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Currently most studies assessing tumor genetics often infer findings of chromosomal alterations identified from primary tumors or more advanced metastatic lesions with a tumors metastatic potential. At present however, correlation with clinical disease progression and stage are lacking in melanoma. Significant heterogeneity may exist among primary tumors whereby, only a minority of cells possesses the metastatic phenotype. Furthermore, studies often evaluated a small number of tumors, which were arbitrarily obtained at different stages of disease, and/or from different organ sites of metastasis. There are limited studies assessing specific pathological stages of melanomas with regards to genotype and their progression.
In this study, LOH analysis was performed to identify those genetic events associated with in-transit metastasis, a clinicopathological marker of early-stage disease progression. Because in-transit tumors are locally recurrent lesions that clinically seem to have a similar biological behavior to treatment and/or progression, LOH assessment offers the opportunity to identify those genotypic events associated with this disease phenomenon and determine whether molecular clonality exists for this metastatic phenotype. This modality allows for molecular assessment of these lesions through an additional dimension by determining whether there is significant intratumor heterogeneity present among lesions that appear clinicopathologically identical.
In this study, 62 in-transit lesions in 19 patients demonstrated LOH for at least one microsatellite marker. Furthermore, only six tumors (one tumor from each of six patients) demonstrated additional LOH as compared to other lesions from the same patients. This study demonstrates the relatively conserved LOH pattern among the multiple sets of in-transit melanoma lesions analyzed, confirming a molecular clonality to an individual patients tumor metastasis.
To assess intratumor heterogeneity among the six patients who had at least one lesion with a discordant LOH genotype all 26 in-transit lesions were microdissected by LCM for DNA isolation from three different regions within each tumor. LOH from these areas was compared to that obtained from the total tumor, in each instance, the LOH status of the total tumor (retained or lost) was reflected by the majority of the microdissected region. These findings demonstrate that the LOH profile of a primary tumor reflects that of the majority of cells composing an individual tumor and that no allele status (retained or loss) was dominant. Our assessment of in-transit metastasis demonstrates minimal intratumor heterogeneity.
The most frequently occurring and well-studied microsatellite loci in primary melanoma is 9p23.27,28 This was also the most common allelic loss noted in in-transit tumors. This event seems to occur early in the development of melanoma and its presence is conserved in in-transit disease as well. The next most frequent site of LOH was D9S304, also in the area of 9p23. This supports the finding that primary tumors with larger deletions in the 9p23 region have a higher risk of metastasis when compared to those with fewer losses.21,29 Our finding of substantial LOH in the 11q2123 region for in-transit lesions is in agreement with others suggesting this loss is a later event in tumor progression and may more likely be involved in tumor metastasis rather than cancer initiation.26,30 LOH on chromosome 1p in early stage tumors is a rare event.25 However, we found significant LOH in this region in in-transit metastasis. In our previous study we found an increased incidence of LOH in this region in metastatic lesions.14 Furthermore, we detected a trend between plasma DNA microsatellites with LOH in this region and clinical progression of disease. Our finding of a relatively lower incidence of LOH on chromosome 3 and 6 indicates that this event occurs much later during melanoma tumor progression or lesions with deletions in these regions metastasize preferentially through a hematogenous route and/or do not form stable cutaneous metastasis. Particularly, LOH at markers D1S228, D3S1293, and D6S264 occurred with a lower frequency (11%, 10%, and 22%, respectively) in in-transit tumors as compared to our findings from 24 tumors obtained from patients with stage IV disease (46%, 46%, and 50%, respectively) (unpublished data). Interestingly, only one of the 10 primary tumors in this study contained LOH for any of these three markers. This raises the question of whether the acquisition of LOH at any of these loci occurs much later in tumor progression.
In five of 10 patients with primary tumors available for analysis additional LOH events were noted to occur in the corresponding in-transit metastasis. Although the sample size is limited, this acquired LOH between the primary tumor and its in-transit supports the view that additional LOH may be required for a tumor to establish a successful metastasis. The low incidence of intertumor heterogeneity identified among in-transit lesions suggests that multiple viable metastasis to at least one organ site (in this instance skin) are clonal. This is the first study to demonstrate the molecular clonality of metastatic melanoma tumors in a clinically defined patient population (early stage III in-transit disease). This may account for the clinicopathological finding that many of these in-transit lesions behave similarly. Therefore, following occult metastasis progression using recently described methods to detect circulating serum/plasma microsatellites may be possible once the genetic profile of the metastatic clone is characterized.14
LOH at D10S212 occurred commonly in in-transit metastasis (35%) and was the most frequently lost allele in comparison to paired primary tumor samples. Only one primary tumor demonstrated LOH at this locus. This uncommon occurrence in our study may be because of the limited number of matched-pair primary tumors available for analysis. Similarly, others have reported an increased incidence of LOH on 10q in distant metastasis. Because no single molecular marker consistently demonstrated LOH for each patients in-transit tumor, combinations of markers may prove more useful in tumor profiling.
An additional issue we are currently investigating is whether site of metastasis selects for a particular tumor genotype. In no instance was LOH noted in the primary lesion but not present in the corresponding in-transit metastasis. This finding demonstrates the utility of LOH analysis as molecular markers for following tumor progression throughout a patients disease course.
In conclusion this study demonstrates the frequent occurrence of LOH in in-transit melanoma metastasis. Although primary tumors may be heterogeneous in nature, those cells that are successful in establishing clinically significant metastasis seem to have a homogenous genotype in in-transit melanoma. For each patient, identification of the genotypic profile of early stage metastasis can potentially be interpreted to more accurately stage tumor progression. Because melanoma metastasis can be dynamic and evolving the clinical significance of these genetic alterations requires prospective studies that are currently in progress.
| Footnotes |
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Supported in part by National Institutes of Health NCI PO1 grant CA-29605.
T. N. and B. T. contributed equally to this article.
Accepted for publication December 27, 2000.
| References |
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