(Circulation. 2001;103:1396.)
© 2001 American Heart Association, Inc.
Clinical Investigation and Reports |
From Micromet AG (D.Z., A.M., T.N., P.A.B.); 1 Medzinische Klinik (D.Z., A.S., F.-J.N.), Pathologisches Institut (T.R.); Abteilung für Gefäßchirurgie (R.B.), Technische Universität München; and the Institut für Immunologie (C.A.K.), Ludwig-Maximilian-Universität, München, Germany.
Correspondence to Dr Dietlind Zohlnhöfer, 1 Medizinische Klinik und Deutsches Herzzentrum, Technische Universität München, Lazarettstr. 36, D-80636 München, Germany. E-mail d_zohlnhoefer{at}yahoo.com
| Abstract |
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Methods and ResultsWe retrieved tissue specimens from patients with symptomatic in-stent restenosis using a novel helix cutter atherectomy device. cDNA samples prepared from neointima (n=10) and, as a control, from the media of normal arteries (n=14) were amplified using a novel polymerase chain reaction protocol and hybridized to cDNA arrays. Immunohistochemistry characterized the atherectomy material as neointima. cDNA arrays readily identified differentially expressed genes. Some of the differentially expressed genes complied with expected gene expression patterns of neointima, including downregulation of desmin and upregulation of thrombospondin-1, cyclooxygenase-1, and the 70-kDa heat shock protein B. Additionally, we discovered previously unknown gene expression patterns, such as downregulation of mammary-derived growth inhibitor and upregulation of FK506-binding protein 12 (FKBP12). Upregulation of FKBP12 was confirmed at the protein level in neointimal smooth muscle cells.
ConclusionsGene expression patterns of human neointima retrieved by helix-cutter atherectomy can be reliably analyzed by cDNA array technology. This technique can identify therapeutic targets in patients, as exemplified by the findings regarding FKBP12. FKBP12 is the receptor for Rapamycin (sirolimus), which in animal models reduced neointima formation. Our study thus yields a rationale for the use of Rapamycin to prevent restenosis in patients.
Key Words: genes restenosis stents molecular biology polymerase chain reaction
| Introduction |
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30%.1
More than 90% of the late lumen loss after stent implantation is
caused by neointima
formation.2 Neointima
formation is considered an arterial healing response that is initiated
by dedifferentiation of vascular smooth muscle cells (SMCs), followed
by emigration and proliferation with subsequent elaboration of abundant
extracellular
matrix.3 4 Because of the limited availability of human neointima, our current understanding of neointima formation is based almost exclusively on animal models. However, therapeutic concepts for the prevention of neointima formation derived from animal models have not been successful in clinical practice.5 This suggests major differences in neointima formation between animals and humans. Accordingly, molecular studies in patients are needed to develop novel treatment strategies.
This study sought to establish a method for profiling gene expression in human in-stent neointima and to identify differentially expressed genes that may serve as novel therapeutic targets. We applied differential gene expression screening using cDNA array technology to probe microscopic specimens of human neointima. A previous hurdle of this method was the need for micrograms of mRNA from samples that are usually composed of 105 to106 cells. Here, we used a novel polymerase chain reaction (PCR) technology allowing the generation of representative cDNA amplificates from basically a single cell in quantities sufficient for comprehensive cDNA array hybridization.
| Methods |
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The control group consisted of 7 specimens of
gastrointestinal arteries from 7 patients and 7 specimens of coronary
arteries from 4 patients who underwent cardiac transplantation. Before
mRNA preparation, we examined the control arteries for atherosclerotic
changes. Specimens (
1 mm3) without
visible atherosclerotic changes were used as controls. The
Table
shows pertinent characteristics of the study and control groups.
Immunohistochemistry of FK506-binding protein-12 (FKBP12) was performed
on neointima samples from carotid restenotic arteries (n=3) that were
obtained by surgical atherectomy.
|
Isolation of mRNA and Global Reverse
Transcription PCR
Atherectomy specimens were snap-frozen and kept in
liquid nitrogen. mRNA isolation, cDNA synthesis, and PCR amplification
were performed as described by Klein (C.A. Klein, MD, unpublished data,
2000). Frozen tissue was lysed, and Dynabeads Oligo
(dT)25 were added for 30 minutes. Afterward,
beads were alternately washed in wash buffer-1 (50 mmol/L Tris-HCl [pH
8.3], 75 mmol/L KCl, 3 mmol/L MgCl2, 10 mmol/L
dithiothreitol [DTT], and 0.5% Igepal) and wash buffer-2 (50
mmol/L Tris-HCl [pH 8.3], 75 mmol/L KCl, 3 mmol/L
MgCl2, 10 mmol/L DTT, and 0.5% Tween-20). mRNA
was reverse-transcribed in First Strand Buffer (Gibco), 0.01 mol/L DTT,
0.25% Igepal, 50 µmol/L CFL5c-Primer
[5'-(CCC)5 GTC TAG A
(NNN)2-3'], 0.5 mmol/L dNTP, and 200 U
Superscript II (Gibco) in 20-µL reactions. After 45 minutes at
44°C, beads were washed with tailing wash buffer (50 mmol/L
KH2PO4 [pH 7.0], 1
mmol/L DTT, and 0.25% Igepal), and the tailing reaction was performed
in a volume of 10-µL containing 4 mmol/L
MgCl2, 0.1 mmol/L DTT, 0.2 mmol/L dGTP, 10
mmol/L KH2PO4, and 10 U
terminal deoxynucleotide transferase (MBI Fermentas).
cDNA was amplified by PCR in buffer 1 (Expand Long Template, Roche), 3% deionized formamide, 1.2 µmol/L CP2-Primer [5'-TCA GAA TTC ATG (CCC)5-3'], 350 µmol/L dNTP, and 4.5 U DNA-Polymerase-Mix (Roche) in a total volume of 50 µL. The PCR reaction was performed for 20 cycles of 94°C for 15 s, 65°C for 30 s, and 68°C for 2 minutes; followed by 20 cycles of 94°C for 15 s, 65°C for 30 s, 68°C for 2 minutes and 30 s plus 10 s per cycle; and a final extension of 68°C for 7 minutes.
Labeling of cDNA Probes and Hybridization to
cDNA Arrays
Aliquots of 25 ng of each amplified cDNA were labeled
with digoxigenin-11-dUTP (Roche) during PCR in the presence of 50
µmol/L digoxigenin-11-dUPT, 300 µmol/L dTTP, and other dNTPs at a
final concentration of 350 µmol/L.
Atlas human cancer 1.2, human 1.2, cardiovascular, and stress arrays (Clontech) were prehybridized overnight in the presence of 50 µg/mL Escherichia coli DNA, 50 µg/mL pbluescript, and 15 µg/mL herring sperm DNA in DigEasyHyb buffer (Roche) at 44°C. Denatured, labeled probes were added to the hybridization solution and incubated for 48 hours. Arrays were washed according to the manufacturers protocol and then adding 2 final washes in 0.1xsaline-sodium citrate/0.1% sodium dodecyl sulfate for 30 minutes at 68°C. Detection of filter-bound probes was performed according to the digoxigenin detection system (Roche).
Developed films were scanned and analyzed using the Vision software array (Imaging Research Inc). Background was subtracted, and signals were normalized to 9 housekeeping genes present on each filter, whereby the average of the signals of the housekeeping genes was set to 1 and the background to zero.
A selection of differential hybridization signals was confirmed by gene-specific PCR. Amplification was performed using 2.5 ng of each cDNA in a 25-µL reaction containing PCR buffer (Sigma), 200 µmol/L dNTPs, 0.1 µmol/L of each primer, and 0.75 U Taq Polymerase (Sigma). PCR products were subjected to electrophoresis on a 2% agarose gel containing ethidium bromide (0.5 µg/mL).
Immunohistochemistry
For histology and immunohistochemistry, the coronary
atherectomy specimens were fixed in 4% formaldehyde (pH 7.0) and
embedded in paraffin. Serial paraffin sections (3 µm) were
deparaffinized, dehydrated and, for antigen retrieval, pressure-cooked
for 4 minutes in citrate buffer (10 mmol/L; pH 6.0); this was followed
by blocking endogenous peroxidase (1%
H2O2/methanol for 15
minutes) and preincubation with 4% dried skim milk in Antibody Diluent
(Dako). Immunostaining employed the streptavidin-alkaline phosphatase
technique for
-actin and the streptavidinhorseradish peroxidase
technique (Dako ChemMate Detection Kit) for the lymphocyte marker CD3,
the monocyte marker MAC387, and FKBP12. Primary antibodies
against smooth muscle actin (M0635, Dako, 1:300), CD3 (A0452, Dako,
1:80), and MAC387 (E026, Camon, 1:20) were used. Frozen sections (3
µm) of carotid neointima specimens were fixed in 4% formalin (pH
7.0) for 4 minutes at 4°C and blocked. FKBP12 was detected using the
anti-FKBP12 antibody SA-218 (Biomol, 1:20).
Statistical Analysis
Results of the experimental studies are reported as
median expression values of the examined samples of each patient group.
Differences between the 2 groups were analyzed by Mann-Whitney-U test
(SPSS version 9.0). A descriptive
P<0.01 was regarded as
relevant.
| Results |
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-actin staining, we identified these cells as SMCs
(Figure 1B
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Comparative Gene Expression Profiling
To confirm successful cDNA preparation and
amplification, we performed PCR for the housekeeping genes ß-actin
and elongation factor-1
, as well as for the SMC marker
-actin
(Figure 2
). In all controls and in 10 of 13 atherectomy
specimens, we obtained PCR products of the correct size in
equivalent amounts. These samples were hybridized to cDNA arrays
analyzing the expression of 2435 known genes.
Figure 3
shows representative arrays for atherectomized
material and for control media. Spots of human genomic DNA, which were
used as a positive control, always showed strong hybridization signals
(Figure 3
). Likewise, spots of 8 housekeeping genes
consistently gave comparably positive signals
(Figures 3
and 4
). However, 3 negative control spots never
hybridized. Except for 2 weak spots, we did not obtain any
hybridization signal when a biological sample was omitted from cDNA
synthesis and PCR amplification.
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Visual inspection of the hybridization patterns
readily identified a number of signals differentially expressed between
normal and diseased tissue
(Figure 3
). Analysis of the median densitometric signal
intensity revealed that 201 genes differed between atherectomy
specimens and control media by a factor of 2.5 at a descriptive
P
0.01 (complete information
is available from the authors upon request).
Figure 4
shows the gene expression pattern for 6
differentially expressed genes with putative relevance to the
pathogenesis of neointima. Among those, upregulation was found for
thrombospondin-1 (TSP-1;
P=0.003), the 70-kDa heat shock
protein B (P<0.001),
cyclooxygenase-1 (P<0.001),
and FKBP12 (P<0.001), whereas
desmin (P<0.001) and
mammary-derived growth inhibitor (MDGI;
P=0.01) were
downregulated.
When comparing media specimens from coronary arteries and
gastrointestinal arteries, 23 of the 2435 examined genes (0.9%) met
the criteria for differential expression. We also performed separate
analyses of differences between coronary media and neointima or
gastrointestinal media and neointima, which essentially confirmed the
aggregate analysis. In these analyses, only 22 of the 201 genes with
differential expression in the aggregate analysis did not reach a
descriptive P
0.05; the
highest P was
0.154.
Validation of cDNA Array Data by
Gene-Specific PCR
For validation of hybridization signals through PCR
using gene-specific primers, we selected 6 genes with putative
relevance to the pathogenesis of neointima and ß-actin. All PCR
signals obtained had the predicted size
(Figure 5
). When comparing the 168 gene-specific PCR signals
(Figure 5
) with hybridization signals obtained from cDNA
arrays
(Figure 4
), we found that 160 signals matched with respect to
intensity. This corresponds to a 95% fidelity of hybridization signals
from cDNA arrays.
|
Validation of cDNA Array Data at the
Protein Level
cDNA array analysis of carotid neointima retrieved by
surgical atherectomy revealed similar gene expression profiles with
respect to genes of interest as coronary atherectomy specimens.
Specifically, we found robust upregulation of FKBP12 in carotid
neointima (n=3). As shown in
Figure 6
, we detected FKBP12 protein in the cytoplasm of
neointimal SMCs
(Figure 6B
), whereas no FKBP12 was detectable in SMCs from
control media
(Figure 6C
).
|
| Discussion |
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Characteristics of Atherectomized Material and
Control Media
The helix cutter atherectomy device enables the
retrieval of human in-stent restenotic tissue over conventional guiding
catheters, without the risk of entrapment of stent struts that limits
the use of directional atherectomy in this setting. Even in cases in
which effective debulking was impossible, the material retrieved was
suitable for gene expression analysis. In the 3 samples that we
analyzed histologically, the retrieved material clearly exhibited the
characteristics of human neointima as described by Komatsu et
al,6 whereas characteristics
of atherosclerotic plaque were missing. Because the cellular component
of human neointima consisted predominantly of SMCs, the majority of
gene expression signals of our neointima samples may be derived from
SMCs.
For control tissue, we chose apparently normal media, as
assessed by careful histological examination. Like neointima, normal
media is mainly composed of SMCs (albeit resting ones). We obtained
media from coronary arteries and from gastrointestinal arteries.
Comparison of gene expression profiles between these 2 types of
arteries revealed that <1% of the genes examined met the criteria for
differential expression. This proportion is in the order of the
probability of error, given that our criterion for putative
differential expression was a descriptive
P
0.01. Therefore, we
considered specimens from coronary and gastrointestinal arteries
together as controls.
Feasibility of Gene Expression Analysis in
Microscopic Samples
The amount of tissue retrieved was very scant and
contained
5x103 to
10x103 cells. To overcome technical
problems posed by the limited amount of mRNA in such a low number of
cells, we employed a new method of cDNA amplification.
The high concordance between hybridization signals and gene-specific PCR signals and the homogeneity of signals from housekeeping genes indicates that differences in hybridization signal intensity reflect variations of gene expression rather than variations of the cDNA array procedure. In fact, the 95% fidelity of hybridization signals from cDNA arrays demonstrates that our gene expression profiling approach is comparable with respect to quality and sensitivity to gene-specific PCR.
Confirmation of Presumed Gene Expression
Patterns in Neointima
Our approach is further validated by our ability to
confirm presumed gene expression patterns of neointima. This includes
downregulation of desmin and upregulation of cyclooxygenase-1, the
70-kDa heat shock protein B, and TSP-1.
Examinations of coronary arteries after PTCA for expression of desmin demonstrated that desmin is highly expressed in quiescent, differentiated SMCs, whereas its expression is reduced in dedifferentiated, proliferating SMCs.7 Cyclooxygenase-1 upregulation is a known characteristic of SMCs that have been exposed to mechanical stress.8 Additionally, PTCA has been shown to induce the expression of heat shock protein 70 in vascular SMCs.9
Moreover, TSP-1 is involved in SMC proliferation and migration.10 Accordingly, antibody blockade of TSP-1 reduced neointima formation in a rat model of restenosis.11 Therefore, our data provide a rationale to test antibody blockade of TSP-1 in humans.
Upregulation of FKBP12 and Downregulation
of MDGI
To our knowledge, we describe for the first time the
upregulation of FKBP12 at the mRNA and protein level of human
neointima. FKBP12 is involved in controlling transforming growth factor
(TGF)-ß receptor I
signaling.12 It binds to the
TGF-ß receptor I and inhibits receptor-mediated
signaling.13 14
By this mechanism, FKBP12 may prevent TGF-ßmediated cell cycle
arrest.15
Silencing MDGI in the neointima was also previously unknown. MDGI is a potent tumor suppressor16 whose expression is generally associated with terminally differentiated cells.17 Its silencing may be caused by hypermethylation leading to loss of transcription, as shown in human breast cancer.18 Our findings raise the possibility that inherited cell- and gene-specific hypermethylation may contribute to the variability of restenosis formation after coronary interventions.
Limitations
In this study, we focused on the feasibility of gene
expression profiling and on genes that are involved in the presumably
principal mechanisms of neointima proliferation. In interpreting our
findings, we must consider the limitation that perfect comparison
between neointima and control are not achievable in a clinical study.
Coronary artery specimens could only be obtained from patients with
heart failure. We cannot exclude the possibility that the gene
expression profiles of these controls were influenced by the cytokine
and neuroendocrine changes of heart failure. These changes would not
have affected the specimens from gastrointestinal arteries. With these
controls, however, the difference in embryological origin may come into
play. Moreover, with regard to the restenosis specimens, we cannot
exclude the possibility that some of the gene expression patterns
reflect the underlying atherosclerosis.
Despite these limitations, several arguments suggest that our study yields valid information on the gene expression profiles of neointima. By histological examination, we demonstrated that the retrieved material exhibited the characteristics of human neointima, whereas changes characteristic of atherosclerotic plaques, like foam cells, were missing. Thus, our atherectomy specimens presumably reflect cellular changes due to neointima rather than a combination of neointima and atherosclerotic plaque formation. Likewise, the remarkable homogeneity in gene expression profiles between gastrointestinal and coronary arteries strongly suggests that the influence of embryological origin or of cytokine and neuroendocrine milieu was negligible. Therefore, we think the differences in the gene expression profiles of neointima and controls were largely specific for neointima. This interference is strengthened by our secondary analyses separating the 2 controls, which yielded results very similar to those from the primary aggregate analysis.
To identify the cellular source of differentially expressed
genes, immunohistological detection of protein is needed. Because the
cellular component of neointima consisted predominantly of SMCs, we
assume that the majority of gene expression signals of our neointima
samples is derived from SMCs. This was confirmed immunohistologically
for 2 proteins, FKBP12 and
-actin.
Future Prospects
Gene expression profiling of human neointima may break
ground for novel therapeutic strategies. Proteins encoded by
upregulated genes may serve as targets for the development of
small-molecule, immunotherapeutic, or biological drugs. In this
respect, FKBP12 deserves particular attention. Rapamycin (sirolimus)
binds to FKBP1219 and
thereby counteracts the TGF-ß-inhibitory activity of overexpressed
FKBP12. Accordingly, Rapamycin was shown to inhibit SMC migration and
proliferation and intimal thickening after balloon angioplasty in a
porcine model of
restenosis.20 Our discovery
of a significant upregulation of FKBP12 in human neointima may provide
a rationale for the use of Rapamycin to prevent restenosis in patients
with coronary stent
placement.
| Acknowledgments |
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Received October 17, 2000; revision received October 23, 2000; accepted November 21, 2000.
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