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Molecular and Cellular Biology, October 2001, p. 6626-6639, Vol. 21, No. 19
0270-7306/01/$04.00+0 DOI: 10.1128/MCB.21.19.6626-6639.2001
Silencing of Wnt Signaling and Activation of
Multiple Metabolic Pathways in Response to Thyroid Hormone-Stimulated
Cell Proliferation
Lance D.
Miller,1
Kyung Soo
Park,2
Qingbin M.
Guo,1,
Nawal W.
Alkharouf,1
Renae L.
Malek,3
Norman H.
Lee,3
Edison T.
Liu,1 and
Sheue-yann
Cheng2,*
Section of Molecular Signaling and
Oncogenesis, Medicine Branch, Division of Clinical
Sciences,1 and Laboratory of Molecular
Biology,2 National Cancer Institute, National
Institutes of Health, Bethesda, Maryland 20892, and The
Institute for Genomic Research, Department of Functional Genomics,
Rockville, Maryland 208503
Received 6 February 2001/Returned for modification 9 May
2001/Accepted 2 July 2001
 |
ABSTRACT |
To investigate the transcriptional program underlying
thyroid hormone (T3)-induced cell proliferation, cDNA
microarrays were used to survey the temporal expression profiles of
4,400 genes. Of 358 responsive genes identified, 88% had not
previously been reported to be transcriptionally or functionally
modulated by T3. Partitioning the genes into functional classes
revealed the activation of multiple pathways, including glucose
metabolism, biosynthesis, transcriptional regulation, protein
degradation, and detoxification in T3-induced cell proliferation.
Clustering the genes by temporal expression patterns provided further
insight into the dynamics of T3 response pathways. Of particular
significance was the finding that T3 rapidly repressed the expression
of key regulators of the Wnt signaling pathway and suppressed the
transcriptional downstream elements of the
-catenin-T-cell
factor complex. This was confirmed biochemically, as
-catenin
protein levels also decreased, leading to a decrease in the
transcriptional activity of a
-catenin-responsive promoter. These
results indicate that T3-induced cell proliferation is accompanied by a
complex coordinated transcriptional reprogramming of many genes in
different pathways and that early silencing of the Wnt pathway may be
critical to this event.
 |
INTRODUCTION |
Thyroid hormone
(3,3',5-triiodo-L-thyronine [T3]) receptors (TRs) are
ligand-dependent transcription factors which are members of the steroid
hormone/retinoic acid (RA) receptor superfamily. Two TR genes, TR
and TR
, located on chromosomes 17 and 3, respectively, give
rise, by alternative splicing, to three T3-binding TR isoforms,
1,
1, and
2 (reviewed by Cheng [12]). TRs
mediate the biological activities of T3 by binding to specific
DNA sequences known as the T3 response elements present in
the promoter regions of T3 target genes (reviewed by Cheng
[12]). The transcriptional regulatory activity of TRs
depends not only on T3 and the types of T3 response elements
but also on a host of coregulatory proteins, including corepressors, coactivators, and the tumor suppressor p53 (3, 38).
The growth-stimulatory effect of T3 has long been recognized. In
humans, lack of T3 during development leads to growth retardation and
cretinism. Growth retardation is also evident in patients with
resistance to T3, a genetic disease due to mutations in the TR
gene
(54). TR
1 mutants act in a dominant negative fashion to
cause growth retardation and delayed bone maturation (54). Moreover, mutant mice harboring a potent dominant negative mutant TR
1 also exhibit a similar phenotype (25, 60).
GC is a rat pituitary cell line that expresses functional TRs and has
long been used as a model cell line to understand the mechanisms of T3
action. Previously we have shown that GC cells are induced to
proliferate by T3 in cultured medium containing 10% T3-depleted (Td)
serum (2, 27). This induction is T3 specific, because the
inactive T3 analogs, L-thyronine and reverse T3, failed to
stimulate proliferation of GC cells in the same culture medium
(27). Recently, we showed that the growth-stimulatory effect of T3 was mainly due to a shortening of
G0/G1 phase of the cell
cycle (2). T3 induces G1 progression
by increasing the mRNA and protein levels of two key
regulators of G1 progression, cyclins D1 and E,
as well as those of cdk2. These increases lead to hyperphosphorylation
of the retinoblastoma proteins, resulting in transcriptional activation
of growth-promoting genes (2). Thus, by both direct and
indirect means, TRs control specific transcriptional cassettes
associated with a host of cellular functions.
cDNA microarrays are capable of profiling gene expression
patterns of thousands of genes in a single experiment. Microarray analysis in time course studies has been particularly fruitful in
elucidating underlying biological and biochemical mechanisms in
cellular processes and responses such as the diauxic shift in yeast
(14), sporulation in budding yeast (13),
serum stimulation of human fibroblasts (24), and
phytohemagglutinin stimulation of human peripheral blood mononuclear
cells (58). Despite the diversity in biological
investigations that have utilized microarray strategies, few have
sought to study the effects of hormone action on cells and tissues. In
the present study, we used cDNA microarrays consisting of
4,400 rat cDNAs to identify genes associated with T3-induced
cell proliferation in a time-dependent fashion. Approximately 88% of the genes were not previously known to be T3 responsive, and 36% are uncharacterized genes. We demonstrate that T3-induced cell
proliferation is associated with the activation of various metabolic
pathways and the immediate silencing of the Wnt signaling pathway.
 |
MATERIALS AND METHODS |
GC cells and T3 treatment.
GC cells were plated at a density
of 107/superdish (600 cm2)
in Dulbecco's modified Eagle medium (DMEM) containing 10% calf serum. After 2 days, the medium was changed to DMEM containing 10% Td
calf serum (27). Forty-eight hours later, cells were incubated without or with T3 (100 nM) for 1, 3, 6, 12, 24, and 72 h. Addition of T3 to plated cells was staggered so that all plates in
the time course were harvested simultaneously to prevent gene
expression artifacts owing to length of time in culture conditions and
differences in cell density. In some experiments, after cells were
cultured for 2 days in DMEM containing 10% calf serum, the medium was
changed to DMEM containing 0.1% Td calf serum. Cells were treated
without or with T3 (100 nM) for 1, 6, and 12 h. At each time
point, cells were harvested for total RNA preparation for microarray
analyses as shown below.
RNA preparation and labeling.
Total RNA from GC cells with
or without T3 treatment was prepared using RNeasy Midi kit (Qiagen
Inc., Valencia, Calif.). The RNA was further purified using TRIzol
(Life Technologies, Rockville, Md.). For fluorescence labeling of
cDNAs, 30 µg of total RNA from untreated cells and 50 µg
of total RNA from T3-treated cells were reverse transcribed in the
presence of Cy3-dUTP and Cy5-dUTP (Amersham Inc., Piscataway, N.J.),
respectively. Labeled cDNAs were combined, concentrated, and
resuspended in microarray hybridization buffer as described previously
(17).
Microarray manufacture.
Rat cDNAs were assembled
at The Institute for Genomic Research (Rockville, Md.) and arrayed at
the NCI Microarray Facility, Advanced Technology Center (Gaithersburg,
Md.). Briefly, rat 3' expressed sequence tags (3'-ESTs) were derived
from single-pass sequencing of the 3' ends of randomly selected,
directionally cloned cDNA clones from 12 libraries (10 normalized and 2 nonnormalized) representing 10 different tissues and 2 developmental states (fetus and adult). The normalized libraries were
from rat fetus, placenta, ovary, heart, lung, liver, spleen, kidney,
skeletal muscle, and adult brain. The nonnormalized libraries were from
a clonal cell line treated with and without growth factor
(30). The 3'-ESTs were assembled into approximately 22,000 distinct tentative consensus sequences (i.e., overlapping
consensus sequences representing nominally unique genes), and a minimal
clone set was sequenced at the 5' end to provide clone verification and
gene identification. A subset of the minimal clone set was selected for
inclusion on the 4,400-element rat cDNA microarray and can be
viewed at http://www.tigr.org/tdb/ratarrays/. The arrays were printed
using an OmniGrid Microarrayer (GeneMachines, San Carlos, Calif.) on
poly-L-lysine-coated glass slides prepared essentially as
previously described (17).
Hybridization, scanning, and analysis.
Labeled
cDNAs were hybridized to the arrays overnight at 70°C. The
arrays were washed as previously described (17), dried by
centrifugation, and scanned on a GenePix 4000A microarray scanner (Axon
Instruments, Foster City, Calif.) to generate 16-bit TIFF images of Cy3
and Cy5 signal intensities. The images were analyzed using GenePix Pro
3.0 microarray analysis software (Axon Instruments) to measure
fluorescence signals and format data for database deposition. All of
the array data were deposited in the NCI-CIT microarray database
(http://nciarray.nci.nih.gov), where Cy3 and Cy5 signals were
normalized and expression ratios (Cy5/Cy3) were calculated. Multiarray
analytical tools available on the database were used to apply the
selection criteria. Agglomerative clustering by Euclidean distance
measurement was accomplished using S-PLUS 5.1 software (MathSoft,
Inc., Cambridge, Mass.), and the clustered data were visualized
using Eisen Treeview software (18)
Selection of T3-responsive genes.
The time course expression
data were initially distilled to the set of array features having
signal-to-background ratios of
2.0 in both channels at at least five
of the six time points between 1 and 72 h. Within this data set,
T3-responsive genes were identified as those with temporal expression
profiles demonstrating the greatest magnitude and consistency of
change. This set of outliers was composed of genes demonstrating a
twofold or greater change at two or more time points and showing a
1.8-fold change at at least two consecutive time points. To eliminate
outliers potentially owing to experimental technique, a control screen was performed in which two reference RNA samples (i.e., RNA from cells
grown in Td medium) were isolated in parallel from separate tissue
culture plates, used to generate labeled cDNA, and hybridized against each other on three separate microarrays. Genes identified in
this control screen with expression ratios of
2.0 in any one experiment or
1.7 in two of three experiments were excluded from the
final set of T3-responsive genes. Five array features were excluded
based on these criteria. The complete list of T3-responsive genes,
GenBank accession numbers, and corresponding time course expression
ratios can be downloaded at
http://nciarray.nci.nih.gov/publications.
Northern blot analysis.
GC cells were plated (3.5 × 106/15-cm dish) and cultured as described above.
Total RNA was isolated from cells treated with T3 for 3, 12, and
24 h and from cells grown in Td medium using the RNeasy Midi kit
(Qiagen Inc.) according to the manufacturer's protocol. Total RNA (10 µg) from each time point was separated on a 1% agarose-formaldehyde
gel and transferred to a Hybond membrane (Amersham Inc.). The blots
were probed with purified [
-32P]dCTP-labeled
cDNA fragments of adenine nucleotide translocator, Na+/K+ ATPase
subunit, transforming growth factor
2, regulator of G-protein
signaling 2, GADD45, and the unknown EST AW144553 derived from PCRs.
The same blots were stripped and rehybridized with
[
-32P]dCTP-labeled cDNA encoding
glyceraldehyde-3-phosphate dehydrogenase. The intensities of the bands
were quantified by Eagle Eye II (Stratagene, La Jolla, Calif.) and were
normalized to the glyceraldehyde-3-phosphate dehydrogenase internal
control. Expression ratios were determined at each time point by
dividing the band intensities of mRNA derived from T3-treated
cells by those from cells without T3 treatment in the same experiments.
Western blot analysis.
Western blot analyses of
-catenin
and axin were carried out as described previously (5).
Briefly, GC cells treated with or without T3 in medium containing 10%
Td calf serum were lysed, and the proteins were separated by sodium
dodecyl sulfate-gel electrophoresis. The proteins were transferred to
blots, which were blocked, washed, and reacted with primary antibodies.
The concentrations of the primary antibodies for the detection of
-catenin (Transduction Lab, Lexington, Ky.) and axin (R-20; Santa Cruz Biotechnology, Inc., San Diego, Calif.) were 0.5 and 1 µg/ml, respectively. Signals were developed using an enhanced
chemiluminescence detection kit.
Transient-transfection assay.
GC cells were plated at a
density of 3.5 × 105 cells/35-mm dish and
cultured overnight. Cells were transfected with the T-cell factor (TCF)
reporter plasmid (pGL3-OT; 1 µg) and
-galactosidase expression
plasmid (pCH110; 0.5 µg) using FuGene6 (Boehringer Mannheim,
Indianapolis, Ind.) according to the manufacturer's protocol. Briefly,
3.8 µl of FuGene6 was mixed with 1.5 µg of DNA in 1 ml of Opti-Mem1
(GIBCO-BRL, Rockville, Md.) and added to cells which had been washed
twice with phosphate-buffered saline. After 24 h, cells were
cultured in medium containing 10% Td calf serum with or without 100 nM
T3 for 24 or 48 h. The luciferase and
-galactosidase activities
of cell lysates were determined according to the manufacturer's
procedures (PharMingen, Santa Cruz, Calif., and Roche, Indianapolis,
Ind., respectively). The luciferase activity was normalized against the
-galactosidase activity for transfection efficiency.
 |
RESULTS |
Microarray analysis identifies genes responsive to T3-induced cell
proliferation.
Because GC cells are induced to proliferate
specifically by T3 (2, 27), we used this cell line to
profile T3-induced changes in gene expression. Rat-derived
cDNA microarrays were used to monitor the temporal changes in
mRNA levels of 4,400 genes at 1, 3, 6, 12, 24, and 72 h
after T3 treatment and time zero (in medium containing Td medium only).
At each time point, total RNA was isolated and reverse transcribed into
Cy5-labeled cDNA. This cDNA was hybridized to the
microarrays against Cy3-labeled cDNA derived from the total
RNA of cells that received no T3 treatment (Td medium only). Using
rigorous selection criteria (see above), we identified 358 distinct
genes (outliers) demonstrating time-dependent changes in mRNA
level during T3-induced cell proliferation (Fig. 1A). The majority of
genes were either only induced or only repressed; only a few genes
showed biphasic expression patterns (Fig. 1B, cluster 6). One-hundred
thirty genes (36%) were represented by unnamed ESTs, and 228 were
named genes. In total, 203 genes (57%) were up-regulated and the
remainder (155 genes; 43%) were down-regulated by T3.

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FIG. 1.
(A) Expression dynamics of T3-responsive genes. Temporal
expression profiles of 387 arrayed features exhibiting change over time
in response to T3 were hierarchically clustered by Euclidean distance
measurement and visualized in a clustergram using Treeview software
(see Materials and Methods). Microarray experiments for each time point
are in columns; individual genes are in rows. Red indicates increasing
mRNA levels and green denotes decreasing mRNA
levels. The degree of color saturation reflects the magnitude of the
ratio (see color key at the bottom). (B) Cluster profiles. Gene
expression profiles were algorithmically subdivided into eight clusters
(shown to the right of the clustergram by colored bars). The average
expression profile of each gene cluster is shown in a line graph and is
colored according to the matching bars. n, number of
array features within each cluster. Error bars show standard
deviations. (C) Distribution of functional groups across clusters. The
number of individual genes comprising each functional group is
indicated for each cluster profile. The cluster sizes differ from those
in panel B because single genes having multiple expression profiles
owing to redundant spotting on the microarrays were counted only once
per functional group to prevent overrepresentation bias. For 5 of 19 redundant genes, two or more expression profiles fell into more than
one cluster. In three cases, the gene was counted in the cluster that
contained two of the three same-gene profiles, and in two cases where
two profiles fell into two clusters, the gene was placed in the cluster
whose mean had the smallest Euclidean distance from the two profiles.
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To confirm that the T3-responsive genes detected were indeed associated
with T3-induced cell proliferation, we uncoupled T3
signaling not
associated with proliferation from the proliferative
response. Minimal
serum (0.1% Td calf serum) was used to keep
cells viable, but without
proliferation. Cells treated with or
without T3 for 1, 6, and 12 h
remained quiescent throughout the
time course with no measurable
increase in proliferation (data
not shown). Microarray analysis
revealed very little T3-induced
expression response under these culture
conditions. For example,
at the 12-h time point, microarray analysis of
T3-stimulated proliferating
cells in normal culture conditions
demonstrated 171 genes with
expression ratios greater than threefold.
In contrast, T3-treated
quiescent cells showed no changes of threefold
or greater at the
same time point in replicate array experiments (data
not shown).
Only 2 of the 358 outlier genes identified in T3-induced
cell
proliferation (encoding cytochrome
c oxidase subunit 1 and ATP
synthase alpha) were also detected as reproducible outliers in
T3-treated quiescent cells at 12 h (each was induced by T3 with
average expression ratios between 2.1 and 2.7, the ratio range
observed
at 12 h in the proliferating cells). These results indicate
that
the genes identified under proliferating conditions are associated
with
T3-induced growth
response.
Microarray analysis identifies previously reported T3-responsive
genes.
To test the validity of the microarray results, six clones
were selected for Northern analysis across three time points of T3
treatment (3, 12, and 24 h). Three of these (encoding adenine nucleotide translocator,
Na+/K+ ATPase
subunit, and GADD45) had been previously implicated in T3 action (Fig.
2A, B, and E, respectively), while three
(those for transforming growth factor
2 and regulator of G-protein
signaling 2 and the unknown EST AW144553) had no previous association (Fig. 2C, D, and F, respectively). The intensities of mRNA
bands on the Northern blots were quantified (Fig. 2). The
time-dependent expression profiles of these six genes were consistent
with the temporal changes detected by the arrays. The six clones were
also resequenced, and their identities were confirmed.

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FIG. 2.
Concordance of gene expression patterns determined by
microarray and Northern blotting. Expression ratios of six genes
identified as outliers by microarray were determined by Northern blot
analysis at three time points following T3 exposure. Intensities of the
Northern bands were quantified (as described in Materials and Methods)
and used to calculate expression ratios, with the Td reference
intensity in the denominator. Ratios derived from Northern blots ( )
are compared to the microarray results ( ). Representative
mRNA bands are shown.
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We further assessed the ability of our microarrays to detect the
coordinate expression of known T3-responsive genes represented
on the
arrays (Fig.
3). In total, 44 of the 219 named gene outliers
(20%) were previously implicated in T3 action.
Twenty-five were
known to be transcriptionally regulated, 10 were known
to be modulated
by T3 at the protein level, and the gene products of 9 were known
to be associated with T3 processing or downstream
signaling pathways
(Fig.
3). Several of these genes (e.g.,
those encoding GADD45,
cytochrome
c, thioredoxin, hemoglobin
alpha, lactate dehydrogenase,
c-jun, p53, and cathepsin L) were
represented multiple times on
the microarray and showed concordant
expression profiles, further
validating the technique (Fig.
3).

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FIG. 3.
Clustergram of genes previously implicated in T3 action.
Each of the named outlier genes identified in our screen was searched
via PubMed for a reported association with T3. A clustergram of the
T3-associated genes is shown. T, gene shown to be regulated
transcriptionally by T3; P, gene whose product is reportedly modulated
by T3 (e.g., protein levels, activity, specific activity, and
posttranslational modifications); A, gene whose product is known to be
associated with T3 processing or signaling.
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Complex coordination of cellular pathways is associated with
T3-induced cell proliferation.
Of the 228 named outlier genes, 196 had known biological roles. These genes were therefore classified by
broad biological function to assess the involvement of cellular
pathways in T3-induced proliferation. Twelve functional groups were
identified, and each gene was assigned to a single group (Table
1). The other 32 genes that were named but without known functions are shown in Table 2. One of the largest functional groups
shown in Table 1 was that involved in energy metabolism. This set
contained 25 genes, most of which are involved in various aspects of
glucose metabolism and oxidative phosphorylation (Fig.
4A and B). Induction of these cellular
pathways is consistent with known biochemical and clinical manifestations of T3 effect. T3 increases respiration, heat production, and carbohydrate metabolism (40). Several key enzymes
involved in the metabolism of ATP, gluconeogenesis, and
glucose production, such as ATP synthase, adenine nucleotide
translocator, and
Na+/K+
ATPase, have been shown to be stimulated by T3 (40,
41). We found that these and other genes involved in glucose
metabolism and oxidative phosphorylation were transcriptionally
activated by T3 (Fig. 4A and B). Thus, the putative activation of these cellular pathways may be in response to increased physiologic need
during cell proliferation.

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FIG. 4.
Temporal profiles of genes involved in glucose
metabolism, oxidative phosphorylation, biosynthesis, and protein
degradation. Shown are the expression trajectories of genes comprising
the functional subgroups glucose metabolism (A), oxidative
phosphorylation (B), and protein degradation (D) and the functional
group biosynthesis (C). Each gene expression profile is the
log-transformed expression ratio (y axis) plotted
against hours post-T3 treatment (x axis).
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Figure
4C and D show that T3-induced cell proliferation is associated
with the transcriptional activation of genes involved
in biosynthesis
and protein degradation (a subgroup of the functional
protein
degradation and modification group). That T3 increases
the activity of
biosynthetic pathways is not unexpected. The role
of T3 in amino acid
incorporation and biosynthesis of DNA and
protein constituents has been
well studied (reviewed by Schwartz
and Oppenheimer
[
52]). T3 has also been shown to increase protein
turnover in both cardiac and skeletal muscle (
1,
10,
11).
In rats, skeletal muscle protein content following T3
administration
is reduced due to increased proteolysis
(
1). Thus, our data
are consistent with these earlier
biochemical findings in that
mRNAs of genes involved in
protein degradation (e.g., lysosomal
proteinases and proteasome
subunits) and stabilization (heat shock
proteins) were
increased.
When a group of genes involved in cellular detoxification were
examined, we found six antioxidant genes up-regulated after
T3
exposure. These included genes encoding thioredoxin,
thioredoxin-dependent
peroxide reductase, glutathione
S-transferase, superoxide dismutase,
Mer5
antioxidant protein, and the oxidative stress-inducible protein
tyrosine phosphatase (Table
1). The role of T3 in oxidative
stress
is not well studied. However, it has been reported that in rats,
T3 administration enhances the production of superoxide radicals
and
hydrogen peroxides (
56). Furthermore, T3 treatment of rats
has reportedly led to augmentation of lipid and protein peroxidation
and increased susceptibility to oxidative stress (
53,
55).
These observations suggest that the up-regulation of antioxidant
genes
is necessary to counteract the deleterious effect of oxidative
stress
induced by T3
exposure.
Another functional group we uncovered was composed of eight genes
involved almost exclusively in neuronal processes (Table
1). The
products of these genes have known roles in neuronal
signaling
(hippocalcin) and growth (neuropilin) and synaptic processes
(synaptophysin, synapsin IIb, and dendrin). T3 has long been studied
as
an important physiological regulator of brain development and
is known
to play key roles in neuronal growth, differentiation,
and migration
(
44). Specifically, T3 is known to control transcription
of nerve growth factor in the rat pituitary and forebrain (
8,
9) and brain-derived neurotropic factor in the developing rat
cerebellum (
28), and T3 deficiency is known to impair
development
of the rat cerebellar cortex (
42). Thus, the
discovery of this
T3-regulated neuronal cassette may provide insight
into the mechanism
by which T3 and its downstream effectors modulate
mammalian brain
development (
44; reviewed by Bernal and
Nunez [
4]).
Recent studies have shown that grouping of genes with similar
expression profiles may reveal the function of a coordinately
controlled gene cluster (
18). We therefore assessed the
temporal
pattern of gene expression by unsupervised (unbiased)
agglomerative
hierarchical clustering (Fig.
1A). Agglomerative
clustering begins
with single-object clusters that are recursively
merged into larger
clusters. In this analysis, the dendrogram of the T3
data was
partitioned into eight gene clusters with distinct mean
expression
profiles, three with different patterns of up-regulation,
four
with patterns of down-regulation, and one two-gene cluster with
biphasic expression (Fig.
1B). We next examined the content of
each
gene cluster with respect to the functional categories we
previously
identified (Fig.
1C). As defined above, genes involved
in
biosynthesis, energy metabolism, and protein fate were largely
up-regulated, falling into clusters 1, 2, and 3. In addition,
we found
that genes involved in protein synthesis, transport and
binding, cell
structure, and DNA and RNA regulation were also
primarily up-regulated
(Fig.
1C). In contrast, slightly more than
half of the genes in the
outlier list with primary roles in signal
transduction were repressed
(clusters 4 to 8). This finding is
provocative in that it suggests that
T3 activates cellular biosynthesis
and remodeling yet may act to block
other incoming
signals.
Genes were also segregated according to the timing of their peak
expression levels. This has been the manner by which viral
genes have
been historically classified. We grouped the gene outliers
into early
(peak at

6 h), intermediate (peak at 12 h), and late
(peak at

24 h) temporal expression groups (Fig.
5A). One hundred
two genes (28%)
responded rapidly, with peak responses at 6 h
or earlier. The
majority of the genes (217 genes; 61%) reached
the peak response at
12 h, and 39 genes (11%) reached the peak
response at 24 or
72 h. For Fig.
5B, the genes comprising each
functional group were
separated into their temporal groups. In
this way we were able to
approximate and compare the relative
timing of the functional gene
sets. This analysis revealed that
genes involved in transcription,
biosynthesis, cell structure,
and protein degradation and modification
made up the majority
of the early gene responses, whereas genes
associated with energy
metabolism and intracellular transport and
binding reached peak
ratios primarily at the intermediate and late time
points. This
finding is consistent with the view that transcription,
synthesis,
and remodeling of cellular constituents precede expenditure
of
energy in a proliferative response.

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FIG. 5.
(A) Trend lines for early (E), intermediate (I), and
late (L) T3 response genes. Outlier genes were segregated into temporal
expression groups based on the timing (in parentheses) of their peak
ratios. The median expression ratio at each time point in each group is
plotted. n, number of genes in each expression group.
(B) Kinetics of T3 response pathways. Annotated genes were grouped
according to cellular function (Table 1) and partitioned into temporal
expression groups to visualize the T3-induced activation of cellular
pathways as a function of time. The pathways are in columns, and the
temporal expression groups are in rows. Each arrow represents a single
gene, and its direction reflects up- or down-regulation. (C) Early
repression of T3-responsive genes of the Wnt pathway. The kinetics of
Wnt pathway-associated genes (encoding -catenin, TCF4,
Dishevelled-1, Frizzled, axin, and APC) are shown.
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To gain a more detailed understanding of the molecular events
downstream of T3, we scanned the broad functional groups for
components
of specific signaling pathways. Intriguingly, several
members of the
Wnt signaling pathway were observed. Upon close
inspection of the
comprehensive array data set, we found six key
components of Wnt
signaling with expression profiles consistent
with inhibition of the
pathway. This response was quite rapid
in that five of six expression
patterns exhibited the early temporal
profile (Fig.
5C). The expression
of

-catenin, TCF4, Dishevelled-1,
and Frizzled was rapidly repressed
within 1 h upon T3 treatment,
with maximal inhibition occurring by
6 h (Fig.
6A). The expression
of
axin was steadily increased to about twofold by 6 h and remained
above the baseline during the course of T3 treatment (Fig.
6A).
The
expression of adenomatous polyposis coli (APC) was increased
~1.4-fold after treatment with T3 for 12 h and returned to basal
level after 24 h (Fig.
6A).

-Catenin, TCF4, Dishevelled-1, and
Frizzled are all agonists of Wnt signaling (reviewed by Peifer
and
Polakis [
46]), while axin and APC suppress the pathway
by
promoting degradation of

-catenin (
61). Thus, the
expression
profiles of these genes suggest that T3 acts to silence the
Wnt
signaling pathway. This notion was further supported by the
observation
that the expression of the c-jun transcription factor,
which is
induced subsequent to activation of Wnt signaling
(
36), was
also down-regulated by T3 (Fig.
6A).

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FIG. 6.
(A) Response of Wnt signaling genes to T3. Temporal
expression profiles of the six canonical Wnt signaling components
present on the microarray, a putative regulator of the pathway (IGF-1),
and one transcriptional target (c-jun) are shown. -Catenin, TCF4,
Dishevelled-1, IGF-1 and c-jun were selected in the initial
high-stringency screening procedure for T3-responsive genes. Axin, APC,
and Frizzled were not uncovered by the initial screen. Axin and APC did
not demonstrate expression ratios of twofold or higher at at least two
time points, and the Frizzled array feature failed to achieve a
signal-to-background ratio of 2.0 at more than one time point.
Despite these selection criterion discrepancies, both axin and Frizzled
displayed expression trajectories consistent with time-dependent
differential expression and further support the repression hypothesis.
APC showed a small increase but did not demonstrate a profile
consistent with sustained differential expression. c-jun, though not a
specific component of Wnt signaling, is a transcriptional target of
-catenin-TCF and is down-regulated in a fashion consistent with
repression of this pathway. The 12-h expression ratio for Dishevelled-1
was filter excluded in the initial screen due to a low
signal-to-background ratio and was therefore omitted from the line
graph. (B and C) Western blot analysis of -catenin and axin. After
cells were treated with T3 for the time indicated, 50 µg of cell
lysates were analyzed by sodium dodecyl sulfate-10% polyacrylamide
gel electrophoresis. Western blot analysis was carried out using
anti- -catenin or antiaxin antibodies as described in Materials and
Methods.
|
|
T3 suppresses Wnt signaling.
-Catenin is the major effector
of Wnt downstream transcription, and the stability of
-catenin
protein regulates Wnt signaling (26, 46). We therefore
evaluated the effect of T3 on the expression of
-catenin at the
protein level. Western blot analysis (Fig. 6B) showed that treatment of
cells with T3 led to a significant reduction of
-catenin protein,
with a half-life of ~24 h. The repression of the
-catenin protein
persisted, while
-catenin mRNA recovered. At the 72-h time
point,
-catenin protein was barely detectable under these
experimental conditions (Fig. 6B), whereas the
-catenin
mRNA had nearly recovered by 24 h (Fig. 6A). This
suggests that translational and posttranslational mechanisms may act
coordinately to down-regulate the expression of the
-catenin gene
during T3 treatment of GC cells. Axin is a negative regulator of the
Wnt signaling pathway (26) that forms a complex with APC
and glycogen synthase kinase 3
(GSK-3
), facilitating the phosphorylation and degradation of
-catenin (26, 46).
Western blot analysis showed that axin was increased about twofold by T3 treatment (Fig. 6C), similar to that detected by the microarrays (Fig. 6A). This finding suggests that another mechanism by which T3 may
decrease the stability of
-catenin is enhancement of the expression
of axin.
Recently, other signaling pathways have been shown to modulate

-catenin levels. Insulin-like growth factor 1 (IGF-1) is thought
to
stabilize

-catenin protein through tyrosine phosphorylation
(
47) and therefore will also augment Wnt signaling by a
posttranscriptional
mechanism. Our array results confirm that IGF-1
transcripts are
reduced within 1 h after T3 exposure (Fig.
6A).
Thus, this T3-associated
reduction in IGF-1 mRNA may further
contribute to the observed
attenuation of

-catenin protein
levels.
We further carried out functional assays to confirm that T3 suppresses
the transcriptional activity of

-catenin and TCF4.
To this end, we
used a

-catenin-TCF reporter assay to examine
whether treatment of
cells with T3 results in the repression of
the transcriptional activity
of the

-catenin-TCF complex. GC
cells were transfected with
pGL3-OT, a luciferase reporter previously
shown to be

-catenin-TCF4
responsive (
22,
29), which contains
the binding sequence
for the TCF transcription factor derived
from the c-myc regulatory
domain. Figure
7 shows that T3
administration
led to a time-dependent repression of its
transactivation activity.
After 24 h of T3 treatment, TCF-mediated
transactivation was consistently
reduced by ~50%, and after 48 h, the reduction was ~75%. The repression
in the transcriptional
activity of the

-catenin-TCF complex is
consistent with the
T3-induced reduction in the abundance of

-catenin
protein (Fig.
6B).
These results further support the hypothesis
that T3 represses Wnt
signaling activity.

View larger version (9K):
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|
FIG. 7.
Repression of -catenin-TCF transactivation activity
by T3. GC cells transfected with TCF reporter plasmid (pGL3-OT; 1 µg)
and -galactosidase expression plasmid (pCH110; 0.5 µg) were
treated with or without T3 (100 nM) as described in Materials and
Methods. Cell lysates were prepared, and the luciferase activities were
determined at the times indicated. The luciferase activities were
normalized against the -galactosidase activities. Control, Td
activity. Error bars reflect the standard deviations in triplicate
experiments.
|
|
 |
DISCUSSION |
Previously, the activity of T3 and its mechanisms of action have
been studied with much emphasis on its role in organismal development,
its physiologic effects on specific tissues, and its pathological role
in human disease. However, comparatively little is known about the
function of T3 in promoting cell growth and proliferation. With the
availability of cDNA microarrays, it has become possible to
explore the global changes in transcriptional programs during
T3-induced cell proliferation. Using a rat microarray consisting of
4,400 genes, we identified 358 T3-responsive genes that underwent
defined temporal changes in expression associated with cell
proliferation. About 43% of these genes were repressed by T3,
indicating that gene repression may be as important as the activation
of genes in cell proliferation induced by T3. About 46% of these genes
had unknown functions, underscoring the utility of the microarray
approach in discovering novel biological components of T3 action. Of
the 219 known genes identified, only 20% were previously reported to
be transcriptionally and/or functionally regulated by T3. Therefore, we
have significantly expanded the list of T3-regulated genes.
Close examination of the biological functions of the named responsive
genes revealed that many cellular processes contribute to T3-induced
cell growth. The involvement of gene groups functioning in energy
metabolism, biosynthesis, protein degradation and modification, detoxification, and neuronal processes concurs with historical findings
regarding T3 action. Analysis of pattern clustering and temporal
dynamics of gene expression provided a unique opportunity to assess the
biological coordination of cellular pathways in response to T3-induced
growth. Feng and coworkers recently identified 55 T3-responsive hepatic
genes following treatment of hypothyroid mice with T3 for 6 h
(19). A comparison with our data set showed an overlap
with the differentially expressed genes belonging to each functional
group identified by Feng and coworkers (i.e., glucose and fatty acid
metabolism, insulin action, cell proliferation, signal transduction,
glycoprotein synthesis, cellular immunity, and cytoskeleton). More
specifically, our two studies identified in common the down-regulation
of Akt-2 and
-galactoside
-2,6-sialyltransferase in the presence
of T3. Additionally, where Feng and coworkers identified T-complex
protein 1
subunit and endothelin-converting enzyme 1 as T3
responsive, we identified T-complex protein 1
subunit and
endothelin-converting enzyme 2 as T3 responsive. That two data
sets derived from highly disparate sources (i.e., rat pituitary and in
vitro compared to mouse liver and in vivo and using unrelated
microarrays) yielded overlapping results suggests that common pathways
are engaged after T3 stimulation that is independent of organ site.
The findings that the transcripts of key regulators in the Wnt
signaling pathway responded rapidly to T3 treatment prompted us to explore further the role of Wnt signaling in T3-induced cell proliferation. Wnt signaling is initiated by the binding of Wnt
ligands to the transmembrane receptors of the Frizzled family
(59). Signaling of Frizzleds through Dishevelled inhibits the kinase activity of a complex containing GSK-3
, APC, and axin which binds and phosphorylates
-catenin, thus targeting the protein for ubiquitination (7, 59). Hypophosphorylation enhances the stability of
-catenin. The accumulated
-catenin is
translocated to the nucleus and interacts with the TCF/LEF
family of transcription factors to regulate the expression of Wnt
target genes. In this model, central to the control of Wnt signaling is
the stability of the key signal transducer,
-catenin. During
T3-induced cell proliferation, we found both a temporal decrease in
-catenin protein level and an increase in axin protein level which
were accompanied by a reduction in the TCF transactivation activity. Though these data do not preclude the possibility that T3 evokes a more
general transcriptional repression than that limited to the TCF targets
such as the c-myc promoter, it is clear that the proximate components
of the Wnt/TCF/
-catenin pathway are affected by T3.
The present study indicates that silencing of Wnt is accompanied by
T3-induced cell proliferation. Paradoxically, activation of Wnt
signaling is known to stimulate cell proliferation in oncogenic systems
(reviewed by Peifer and Polakis [46]). That the same signaling pathway induces diametrically opposite phenotypes has precedence. Oncogenic forms of ras and myc can
either transform or immortalize cells or induce cell death
(6; reviewed by Fuhrmann et al. [20] and
Olson and Marais [45]). Thus, depending on the profile
of concurrent signals activating other pathways, the cellular outcome
may diverge.
It is possible that silencing of Wnt signaling could allow T3-induced
cell proliferation by turning down the expression or activity of
inhibitors for T3-induced growth. Alternatively, silencing of the Wnt
pathway may lead to the activation of genes and signaling events
required for T3-induced cell proliferation. The latter possibility is
supported by a recent report which shows that differentiation of
preadipocytes into adipocytes occurs when Wnt signaling is silenced
(50). The evidence suggests that Wnt signaling maintains preadipoctyes in an undifferentiated state through inhibition of the
adipogenic transcription factors CCAAT/enhancer binding protein
and peroxisome proliferator-activated receptor
(50).
It is possible that T3 suppression of the Wnt pathway has important
biological ramifications not directly related to cell growth and
proliferation. Both T3 and Wnt signaling factors play a critical role
in brain development. Specifically, T3 is known to promote neuronal
differentiation and migration (57; reviewed by Nunez et
al. [43]), and Wnt signaling induces axon and growth cone remodeling (21). Recent studies suggest that both
signaling pathways play a role in synapse formation (35,
51). This hypothesis is supported by the observation that both
T3 and Wnt7a (a Wnt family member that, like Wnt1, can inhibit GSK-3
activity) are capable of inducing expression of synapsin I, a
presynaptic protein involved in synapse formation and neurotransmitter
release (15, 33). In the present study, we identified
T3-induced expression of the synapsin IIb gene and the altered
expression of others involved in synaptic processes (synaptophysin and
dendrin) consistent with the hypothesized role for T3 in
synaptogenesis. Wnt7a, which induces axonal branching and spreading
(33), has been proposed to exert its effect through the
inhibition of GSK-3
, which in turn leads to decreased
phosphorylation of the GSK-3
substrate, microtubule-associated
protein 1B (MAP-1B), thereby decreasing the stability of axonal
microtubules (34). That both T3 and Wnt pathways modulate
synapsin I levels and that our study revealed the T3-induced
down-regulation of the MAP-1B gene strengthen the possibility that the
two pathways have intersecting roles in brain development.
Wnt signaling plays a critical role in carcinogenesis
(48). For example, in most human colon cancers, the Wnt
pathway is aberrantly activated. In most cases, mutated APC fails to
down-regulate
-catenin, leading to overabundance and mislocalization
of
-catenin (23, 29, 39). The finding that treatment of
cells with T3 results in silencing of Wnt signaling by lowering
-catenin level raises the possibility that T3, via its receptors,
may interfere directly and/or indirectly with the carcinogenesis
mediated by
-catenin. This possibility is not without precedent. RA
is a regulator of embryogenesis, cell proliferation, and
carcinogenesis. Its action is mediated by the RA receptor, a member of
the steroid/TR superfamily. It has recently been shown that RA also
decreases the activity of the
-catenin-LEF/TCF signaling pathway,
and this regulation may influence cell differentiation and cancer
development (16). At present, how T3, via TR, negatively
regulates the expression of
-catenin and other key regulators
of the Wnt signaling pathway is unknown. However, the possibility that
T3 may interfere with
-catenin associated carcinogenesis is
supported by reports of loss of TR
gene expression in human colon
carcinomas compared to normal colon mucosa (37), and
patients with hepatocellular carcinoma and kidney cancers have
mutations of TR
and TR
that interfere with T3 and DNA binding and
transactivation activities (31, 32, 49). Such
abnormalities of TRs could abolish the negative regulation of Wnt
signaling by T3, thereby contributing to the carcinogenesis of liver
and kidney cancers. This possibility will need to be addressed in
future studies.
 |
ACKNOWLEDGMENTS |
We thank Bert Vogelstein for the generous gift of the expression
plasmid pGL3-OT.
This work was supported in part by National Heart Lung and Blood
Institute grant HL59781 (to N.H.L.).
L.D.M. and K.S.P. contributed equally to this work.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Laboratory of
Molecular Biology, Building 37, Room 2D24, 37 Convent Dr., MSC 4255, National Cancer Institute, Bethesda, MD 20892-4255. Phone: (301) 496-4280. Fax: (301) 480-9676. E-mail:
sycheng{at}helix.nih.gov.
Present address: Division of Cancer Biology, Cancer Center, Johns
Hopkins University School of Medicine, Baltimore, MD 21205.
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0270-7306/01/$04.00+0 DOI: 10.1128/MCB.21.19.6626-6639.2001
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