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Molecular Regulation and Neuroendocrinology Section Clinical
Endocrinology Branch (X.F., P.M.Y.) National Institute of Diabetes
and Digestive and Kidney Diseases
Cancer Genetics Branch
(Y.J., P.M.) National Human Genome Research Institute National
Institutes of Health Bethesda, Maryland 20892
| ABSTRACT |
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| INTRODUCTION |
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and ß) and are expressed as several isoforms (TR
,
TRß1, and TRß2) (2 3 ). TRs bind to thyroid hormone-response
elements in the promoters of target genes. Interestingly,
T3 can positively and negatively regulate
transcription of target genes (2 3 4 ); however, only a few of the
approximately 30 known target genes are negatively regulated. Moreover,
most of these negatively regulated target genes are expressed in the
pituitary or hypothalamus (2 3 4 ) rather than peripheral tissues. The liver is a major target organ of thyroid hormone. It has been estimated that approximately 8% of the hepatic genes are regulated by thyroid hormone in vivo (1 ), and thus the liver is an ideal tissue to study gene regulation by thyroid hormone. Although a limited number of individual target genes in the liver have been studied, a large-scale profile of the target genes regulated by thyroid hormone has not been undertaken. cDNA microarray hybridization is a powerful tool to study hormone effects on cellular metabolism and gene regulation on a genomic scale as it enables simultaneous measurement and comparison of the expression levels of thousands of genes (5 6 ). Recently, cDNA microarrays have been used to study the gene expression due to fibroblast differentiation; oncogenesis; aging and caloric restriction of mouse muscle; cell cycle in yeast; and differentiation in Drosophila (7 8 9 10 11 12 13 ). They also have been used in drug development programs to monitor changes in gene expression due to drug treatment (14 ). Additionally, two groups recently have used microarrays to examine broad patterns of gene regulation in leukemias and lymphomas and correlate the pattern with clinical outcome (15 16 ). Thus far, microarrays have not been used to assess hormonal regulation of target genes and their patterns of expression.
We have used a cDNA microarray to study the hepatic gene expression in hypothyroid mice treated with T3. We have identified 55 target genes, with 14 up-regulated and 41 down-regulated by T3. Most of these genes have not previously been described to be regulated by thyroid hormone. Analyses of their expression profile revealed thyroid hormone effects on multiple cellular pathways. This study also is the first application of cDNA microarray technology to study hormonal regulation of target genes in vivo.
| RESULTS AND DISCUSSION |
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myosin heavy chain, and myelin
basic protein) have been described previously to be regulated by
T3 but did not show significant induction in our
studies even though they were contained on the microarray. The latter
two genes are predominantly expressed in heart and brain, respectively,
and not significantly expressed in liver (19 ). Weiss et al.
(17 ) recently treated a different strain of mice for 4 days with
T3 and observed induction of malic enzyme mRNA
(17 ). The observed lack of T3-induction of malic
enzyme mRNA may be due to delayed time course of induction (6 h
vs. 4 days) or differences in mouse strains.
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subunit and
adaptin mRNA which encode proteins that are involved in the
redistribution and internalization of the liganded insulin receptor
(30 31 ). In this connection, it recently was reported that there is
decreased endocytosis of insulin receptors in hepatocytes of diabetic
rats (32 ). T3 also increased insulin-like growth
factor (IGF) binding protein-1 mRNA, which inhibits IGF-I signaling as
reported previously (33 ).
It previously has been shown that thyroid hormone can mimic or enhance
the glycogenolytic and gluconeogenic effects of epinephrine and
glucagon in hepatocytes, and increase intracellular cAMP (21 34 35 36 ).
Consistent with these findings, we observed induction of
ß2-adrenergic receptor mRNA and repression of inhibitory G protein
(Gi) mRNA of the adenylate cyclase cascade (Table 1
). Thus,
T3 has complementary effects on two opposing
pathways that regulate intracellular cAMP. Additionally,
T3 may have other effects on this signaling
cascade as T3 has been reported to redistribute
Gs
from cytosol to the plasma membrane, up-regulate Gs
, and
down-regulate Gi
expression in the plasma membrane, as well as
modulate the activity of phosphodiesterase (37 38 ).
Hepatic lipogenesis is regulated by dietary substrates and hormones such as insulin and thyroid hormone, which control fuel metabolism and biosynthesis (1 ). We observed increased mRNA expression of spot 14 (S14), a key protein that regulates lipogenesis that previously was shown to be induced by T3 (39 ). We also saw induction of fatty acid transport protein mRNA, which encodes a plasma membrane protein that is highly expressed in liver that mediates the transport of long chain fatty acids into cells (40 ). We did not observe induction of malic enzyme mRNA, which is known to be stimulated by T3 (17 39 41 ). It is possible that malic enzyme may have a delayed response to T3 or may be regulated by Spot 14 (39 42 ). Recently, it has been reported that T3 also can down-regulate cytochrome p450 4A3 (Cyp4A3) mRNA (43 ) and that Cyp4A10 mRNA is increased in diabetic rats (44 ). We observed that T3 decreases mitochondrial acyltransferase Cyp4A10 mRNAs, which, in turn, could reduce fatty acid oxidation acutely and increase lipogenesis.
T3 also decreased another downstream insulin signaling component, PHAS (phosphorylated heat-and acid-stable protein), which is the 4E(eIF-4E)-binding protein that complexes with the eukaryotic initiation factor, eIF4E, and inhibits eIF-4E-dependent translation. Phosphorylation of PHAS by insulin signaling causes dissociation of PHAS from the PHAS-eIF-4E complex, and leads to increased translation (45 46 ). Since T3 down-regulated PHAS, it is possible that T3, a known hepatic mitogen, may have an insulin-mimetic effect with respect to protein synthesis. On the other hand, T3 decreases Akt2 mRNA expression and increases intracellular cAMP, which may decrease phosphorylation of PHAS (46 47 ) and thus inhibit translation. Despite studies of thyroid hormone regulation of protein synthesis (48 49 ), neither the detailed mechanism nor the net effects of T3 on translation are known.
Previous reports have shown that T3 has complex
effects on hepatocyte proliferation and cell survival (50 51 52 ).
Consistent with these effects, we observed changes in genes involved in
apoptosis and cell cycle progression. In particular, genes involved in
cell proliferation such as Bcl3, B61, and kinesin-like protein (Kip1p)
were induced by T3. Bcl3 is an I
B-related
protein that behaves differently than I
B as it can act as a
coactivator for nuclear factor (NF)
B homodimers (53 54 55 ). It
also functions as a coactivator for AP-1 complexes and retinoid X
receptors (56 ) and thus potentially may serve as a coactivator for TR
itself. B61 is a glycosylphosphatidylinositol-linked protein, which
serves as a ligand for Eck receptor protein-tyrosine kinase (57 ) and
may act as a hepatic mitogen. Kip1p participates in the segregation of
chromosomes during mitosis by modulating the movement of spindle
assembly and chromosome distribution (58 ). Recent studies suggest that
T3 stimulation of proliferation may be of
clinical importance in gene therapy as it may promote the transfection
of viral vectors into liver (59, 60).
Although T3 stimulates hepatocyte proliferation,
it also can stimulate apoptosis in hepatocytes in which proliferation
is pharmacologically blocked, and in amphibian tails during
metamorphoses (52 61 ). In this connection, we found that several genes
involved in apoptosis were regulated by T3, as
T3 decreased expression of Akt2 and protein
kinase C (PKC)
mRNA, and increased expression of the PKC inhibitor,
(PKCi) mRNA. Akt2 can induce phosphorylation of caspase-9 to inhibit
its protease activity, as well as activate NF
B (62 ). PKC
, an
atypical form of PKC, has been shown to be critically involved in
important cell functions such as proliferation and cell survival.
PKC
activates I
B kinase B, which then can activate NF
B (63 ).
Additionally, PKCi opposes the action of PKC, so induction of PKCi
would promote apoptosis (64 ).
In our microarray studies, T3 negatively
regulated several genes involved in glycoprotein synthesis such as
ß-galactoside
2,6-sialyltransferase, and
-2,3-sialyltransferase. Of note, hypothyroidism has been shown to
induce
-2,3-sialyltransferase expression in pituitary thyrotrophs
(65 ). The sialyltransferases catalyze the transfer of sialic acid from
cytidine 5'-monophospho-N-acetylneuraminic acid (CMP-NeuAc)
to terminal positions on sugar chains of glycoproteins and glycolipids
(66 ) and are markers for many tumors (67 68 ). Finally,
T3 negatively regulated genes involved in
cellular immunity, cell matrix, cell structure, endocytosis, and
mitochondrial function which, in turn, may represent novel areas of
T3 action (Table 1
).
To confirm and extend our findings on newly discovered target genes, we
performed a separate time course experiment on T3
regulation of two newly identified target genes, Bcl-3 and
2,3
sialyltransferase. mRNA was measured by Northern blot analyses from
livers harvested from mice at various times after
T3 treatment. Bcl-3 mRNA levels were induced
approximately 10-fold 1 h after T3 treatment
and declined to 5-fold by 3 h (Fig. 4A
).
-2,3-Sialyltransferase mRNA
levels decreased 1 h after T3 treatment and
reached their nadir at 3 h. (Fig. 4B
). It is possible that
-2,3
sialyltransferase and some of the other negatively regulated target
genes identified by our microarray may serve as new markers of thyroid
hormone action outside the pituitary, as well as tools for
understanding the mechanism of negative regulation by nuclear hormone
receptors.
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In conclusion, we have used cDNA microarray technology to analyze gene expression changes in mouse liver after administration of thyroid hormone. We identified 55 target genes, most of which have not been described previously. Surprisingly, many of these target genes were negatively regulated. Two recent reports have demonstrated the broad patterns of gene expression that can occur in human disease (15 16 ). Similarly, we have observed changes in the patterns of gene expression at the genomic level after hormone stimulation. Thus, our findings have enhanced our awareness of the large repertoire of genes and the multiple cell processes and signaling pathways regulated by thyroid hormone. It is likely that such complex regulation of gene expression occurs in other target tissues regulated by thyroid hormone and by other hormones. The use of microarray technology in living animals is a powerful tool to study gene regulation in a physiological system. It will be useful in identifying novel pathways for hormone action and tumorigenesis. It also should prove valuable for drug design as it will enable characterization of agonist and antagonist properties of drugs as well as side effects based upon gene expression patterns.
| MATERIALS AND METHODS |
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RNA Preparation and Labeling
Total RNA was isolated from mouse livers by RNeasy kit
(QIAGEN, Chatsworth, CA) and further purified by TRIZOL
reagent (Life Technologies, Inc., Gaithersburg, MD). Total
RNA (100 µg) was converted to cDNA by using SuperScript II RNA
reverse transcriptase (Life Technologies, Inc.) as
previously described (10 ). RNA isolated from hypothyroid mice was used
to prepare cDNA probes labeled with Cy3-deoxyuridine triphosphate
(dUTP) dUTP (Amersham Pharmacia Biotech, Piscataway, NJ),
and RNA isolated from hyperthyroid mice was used to prepare cDNA
labeled with Cy5-dUTP (Amersham Pharmacia Biotech).
Labeled cDNA was purified using MicroCon 30 (Amicon, Inc., Beverly,
MA).
cDNA Microarray
The cDNA microarrays contained 2,225 elements derived from
murine EST clones obtained from Research Genetics, Inc.
(Huntsville, AL) as previously described (10 ). PCR products generated
from these clones were printed onto glass slides as previously
described (9 10 ).
Hybridization and Scanning
Labeled cDNA from the hypothyroid mouse and either
T3- or T4- treated mice
were hybridized to a 1.0-cm2 microarray under a
14 x 14 mm glass coverslip overnight at 60 C in a custom-built
hybridization chamber, and fluorescence intensities were analyzed by a
custom-designed laser confocal microscope as previously described (10 18 ). Image analysis was performed using DEARRAY software
(10 ).
Northern Blotting
Total RNA was prepared from mouse liver using TRIZOL reagent
(Life Technologies, Inc.) according to the manufacturers
instructions. Total RNA (20 µg) was separated on 1%
agarose-formaldehyde gel and then transferred to a nylon transfer
membrane (Schleicher & Schuell, Inc., Keene, NH). The
blots were probed with gel purified
-[32P]
dCTP-labeled fragments and exposed to a Biomax film(Eastman Kodak Co., Rochester, NY) at -70 C. mRNA signals were quantified
using ImageQuant software (Molecular Dynamics, Inc.,
Sunnyvale, CA), and normalized with corresponding thyroid
hormone-insensitive 36B4 signals. Fold-inductions were determined from
hyperthyroid mice signal values divided by hypothyroid mice signal
values within the same experiment.
| The European Journal of Endocrinology Prize |
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The prize consists of a certificate and Euro 7,250 plus travelling expenses and will be presented during the Vth European Congress of Endocrinology to be held in Turin, Italy from June 913, 2001. Nominations should be submitted to the Chief Editor of the European Journal of Endocrinology, Professor Paolo Beck-Peccoz, Istituto di Scienze Endocrine, Piano Terra, Padiglione Granelli, IRCCS, Via Francesco Sforza 35, 20122 Milan, Italy, by December 31, 2000. For more detailed information please check our website at: www.eje.org or contact our office at the following e-mail address: eie@nikotron.com.
| ACKNOWLEDGMENTS |
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| FOOTNOTES |
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Received for publication January 11, 2000. Revision received February 21, 2000. Accepted for publication February 24, 2000.
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J. M. Weitzel, C. Radtke, and H. J. Seitz Two thyroid hormone-mediated gene expression patterns in vivo identified by cDNA expression arrays in rat Nucleic Acids Res., December 15, 2001; 29(24): 5148 - 5155. [Abstract] [Full Text] [PDF] |
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A. Mansen, F. Yu, D. Forrest, L. Larsson, and B. Vennstrom TRs Have Common and Isoform-Specific Functions in Regulation of the Cardiac Myosin Heavy Chain Genes Mol. Endocrinol., December 1, 2001; 15(12): 2106 - 2114. [Abstract] [Full Text] [PDF] |
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A. J. Kreeft, C. J.A. Moen, M. H. Hofker, R. R. Frants, E. Vreugdenhil, M. J.J. Gijbels, L. M. Havekes, and N. A. Datson Identification of Differentially Regulated Genes in Mildly Hyperlipidemic ApoE3-Leiden Mice by Use of Serial Analysis of Gene Expression Arterioscler Thromb Vasc Biol, December 1, 2001; 21(12): 1984 - 1990. [Abstract] [Full Text] [PDF] |
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C. C. Pritchard, L. Hsu, J. Delrow, and P. S. Nelson Project normal: Defining normal variance in mouse gene expression PNAS, November 6, 2001; 98(23): 13266 - 13271. [Abstract] [Full Text] [PDF] |
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J. Dupont, J. Khan, B.-H. Qu, P. Metzler, L. Helman, and D. LeRoith Insulin and IGF-1 Induce Different Patterns of Gene Expression in Mouse Fibroblast NIH-3T3 Cells: Identification by cDNA Microarray Analysis Endocrinology, November 1, 2001; 142(11): 4969 - 4975. [Abstract] [Full Text] [PDF] |
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L. D. Miller, K. S. Park, Q. M. Guo, N. W. Alkharouf, R. L. Malek, N. H. Lee, E. T. Liu, and S.-y. Cheng Silencing of Wnt Signaling and Activation of Multiple Metabolic Pathways in Response to Thyroid Hormone-Stimulated Cell Proliferation Mol. Cell. Biol., October 1, 2001; 21(19): 6626 - 6639. [Abstract] [Full Text] [PDF] |
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N. Akutsu, R. Lin, Y. Bastien, A. Bestawros, D. J. Enepekides, M. J. Black, and J. H. White Regulation of Gene Expression by 1{{alpha}},25-Dihydroxyvitamin D3 and Its Analog EB1089 under Growth-Inhibitory Conditions in Squamous Carcinoma Cells Mol. Endocrinol., July 1, 2001; 15(7): 1127 - 1139. [Abstract] [Full Text] [PDF] |
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P. M. Yen Physiological and Molecular Basis of Thyroid Hormone Action Physiol Rev, July 1, 2001; 81(3): 1097 - 1142. [Abstract] [Full Text] [PDF] |
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R. Sudbrak, G. Wieczorek, U. A. Nuber, W. Mann, R. Kirchner, F. Erdogan, C. J. Brown, D. Wohrle, P. Sterk, V. M. Kalscheuer, et al. X chromosome-specific cDNA arrays: identification of genes that escape from X-inactivation and other applications Hum. Mol. Genet., January 1, 2001; 10(1): 77 - 83. [Abstract] [Full Text] [PDF] |
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D. Sharma and J. D. Fondell Temporal Formation of Distinct Thyroid Hormone Receptor Coactivator Complexes in HeLa Cells Mol. Endocrinol., December 1, 2000; 14(12): 2001 - 2009. [Abstract] [Full Text] |
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Y. Wu, B. Xu, and R. J. Koenig Thyroid Hormone Response Element Sequence and the Recruitment of Retinoid X Receptors for Thyroid Hormone Responsiveness J. Biol. Chem., February 2, 2001; 276(6): 3929 - 3936. [Abstract] [Full Text] [PDF] |
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X. Feng, Y. Jiang, P. Meltzer, and P. M. Yen Transgenic Targeting of a Dominant Negative Corepressor to Liver Blocks Basal Repression by Thyroid Hormone Receptor and Increases Cell Proliferation J. Biol. Chem., April 27, 2001; 276(18): 15066 - 15072. [Abstract] [Full Text] [PDF] |
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