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Vol. 20, Issue 14, 3170-3177, July 15, 2009
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*Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115;
Section on Developmental and Stem Cell Biology, Joslin Diabetes Center, Boston, MA 02115; and
Department of Stem Cell and Regenerative Biology, Harvard University, and Harvard Stem Cell Institute, Cambridge, MA 02138
Submitted December 9, 2008;
Revised March 26, 2009;
Accepted May 13, 2009
Monitoring Editor: Marianne Bronner-Fraser
| ABSTRACT |
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| INTRODUCTION |
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Pax3 and Pax7 are members of the Pax transcription factor family and contain both paired (PD) and homeodomain (HD) DNA binding motifs. Pax3 and Pax7 can bind to DNA sequences containing either a consensus paired domain binding site (GTCAC A/G C/G A/T T/C) or a homeodomain binding site (ATTA) (Chalepakis et al., 1994
; Chalepakis and Gruss, 1995
). Pax3 and Pax7 activate MyoD expression (Maroto et al., 1997
; Tajbakhsh et al., 1997
; Relaix et al., 2003
, 2004
), and recently Pax3 has been shown to directly bind sequences that regulate the expression of either MyoD in C2C12 cells (Hu et al., 2008
) or Myf-5 during development of hypaxial muscle (Bajard et al., 2006
). Although it is clear that Pax3/7 can directly induce the expression of Myf5 (Bajard et al., 2006
), MyoD (Hu et al., 2008
), and fibroblast growth factor receptor 4 (Lagha et al., 2008
), other relevant targets for Pax3/7 in satellite cells have yet to be identified. To identify potential targets for Pax3/7 in satellite cells, we examined the transcriptional profile of genes induced by these transcription factors in the C2C12 muscle cell line. Of the genes identified, we found that a subset were also expressed in quiescent satellite cells and therefore they could potentially be direct targets of Pax7 in these cells. In this report, we focus on two such putative Pax3/7 transcriptional targets, inhibitor of DNA binding (Id) 2 and Id3, which we found to be expressed in quiescent satellite cells. We report that Pax3/7 can drive expression of both Id2 and Id3 in C2C12 cells under low serum conditions, that the Id3 promoter contains a conserved Pax3/7 binding site, and that Pax3/7 can activate expression of a reporter construct driven by the Id3 promoter. In addition, we demonstrate that Pax7 is normally bound to the Id3 promoter in quiescent satellite cells and that short hairpin RNA (shRNA)-mediated knockdown of Pax7 expression in cultured satellite cells coordinately decreases both Id2 and Id3 expression. Together, these findings suggest that Id2 and Id3 are both transcriptional targets of Pax7 and that Id3 is a direct transcriptional target of Pax7 in satellite cells. Because the Id gene family contains key negative regulators of positively acting basic helix-loop-helix (bHLH) proteins (reviewed in Ruzinova and Benezra, 2003
; Perk et al., 2005
), our findings suggest that Pax7-induced expression of Id family members in quiescent satellite cells may act to block myogenic bHLH function in these cells.
| MATERIALS AND METHODS |
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Cell Culture and Transient Transfection
CSM4B cells were isolated from 2-mo-old C57BL/6 mice as described previously (Cerletti et al., 2008
). The cells were grown in F-12 media supplemented with 20% horse serum, 50 U/ml penicillin, and 50 µg/ml streptomycin. C2C12 cells were grown in DMEM supplemented with 10% fetal bovine serum, 50 U/ml penicillin, and 50 µg/ml streptomycin. For differentiation, the media were changed to DMEM supplemented with 2% horse serum, 50 U/ml penicillin, and 50 µg/ml streptomycin. FuGENE 6 (Roche Diagnostics, Indianapolis, IN) was used for transient transfection per the manufacturer's directions.
Plasmids
Mouse Pax3 (Maroto et al., 1997
) or Pax7d (Seale et al., 2004
) cDNAs were polymerase chain reaction (PCR) amplified to remove stop codons and cloned in a retroviral vector (pOZ-FH-C-puro). pOZ-FH-C-puro vector was made by modifying the pOZ-FH-C vector (Nakatani and Ogryzko, 2003
). A PCR-amplified puromycin resistance gene (isolated from pBabe-puro) was cloned in place of interleukin-2R
using NcoI and BamHI site. pGL3-Id3(–934)-firefly luciferase and pGL3-Id3(–517)-firefly luciferase were made by PCR amplification of mouse Id3 proximal promoter fragments –934 to +13 and –517 to +13. These fragments were then ligated to KpnI–BglII cut pGL3-basic vector (Promega, Madison, WI). The HD and PD mutant Id3 reporters were made by PCR mutagenesis. The HD site (AATTAA) was mutated to an XhoI site (CTCGAG), whereas PD site (GTCACAAGAT) was mutated to create a NheI site (TTGCTAGCCC). The lentiviral vector expressing green fluorescent protein (GFP) shRNA was obtained from Addgene (Cambridge, MA) (deposited by Robert Weinberg, Massachusetts Institute of Technology, Cambridge, MA). The lentivirus packaging vector (psPAX2) and envelope vector (pMD2.G) were also obtained from Addgene (deposited by Didier Trono, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland). The lentiviral vector expressing Pax7 shRNA was purchased from Open Biosystems (Huntsville, AL). The sequence of the Pax7 shRNA target site was GCTGTTGATTACCTGGCCAAA.
Generation of Pax3- or Pax7-expressing C2C12 Cells
Murine retroviruses expressing either Pax3 or Pax7 were made as described in Nakatani and Ogryzko (2003)
. C2C12 cells were infected with either pOZ-FH-C-puro or with pOZ-Pax3-Flag/HA-puro or pOZ-Pax7-Flag/HA-puro. Twenty-four hours after infection, stable polyclones were selected using puromycin.
Reverse Transcriptase (RT)-PCR
RNA was harvested from samples using the RNeasy mini kit (QIAGEN, Valencia, CA) per the manufacturer's instructions. For semiquantitative reverse transcriptase-PCR, reverse transcription and PCR analysis were carried out as described previously (Munsterberg et al., 1995
). The primers used for PCR are described in Supplemental Table 2. The RT-quantitative (q)PCR was carried out using ABI Prism 7700 and SYBR Premix Ex Taq kit (Takara Bio USA, Madison, WI) per the manufacturer's instructions.
Immunostaining
Single myofibers were isolated from intact limb muscle and immunostained as described in Cerletti et al. (2008)
. In brief, myofibers were permeabilized with 0.2% Triton X-100 for 20 min, washed with phosphate-buffered saline, and then blocked for 1 h with M.O.M. Ig blocking reagent (Vector Laboratories, Burlingame, CA)/milk and 2% goat serum. Subsequently, myofibers were blocked with an avidin/biotin blocking kit (Vector Laboratories). The myofibers were then incubated overnight at 4°C with primary antibodies against Pax7 (mouse anti-Pax7) and Id3 (rabbit anti-Id3). After washing, the myofibers were incubated with goat anti-mouse Alexa 594 (Invitrogen, Carlsbad, CA) for Pax7 and biotinylated anti-rabbit IgG (Vector Laboratories) followed by streptavidin-Alexa 488 (Invitrogen) for Id3. Nuclei were stained with 4,6-diamidino-2-phenylindole (Vector Laboratories). Fluorescence images were acquired using an BX60 microscope with DPManager software (Olympus Optical, Center Valley, PA).
Electrophoretic Mobility Shift Assay (EMSA)
C2C12 nuclear extract was prepared using nuclear extract preparation kit (Active Motif, Carlsbad, CA) per the manufacturer's instructions. To make the probe, two complementary oligonucleotides, 5'-GCTTCACCGCAATTAATTTTTTCCCCCTCTGGTCACAAGATAATTCCTGA-3' and 5'-TCAGGAATTATCTTGTGACCAGAGGGGGAAAAAATTAATTGCGGTGAAGC-3', containing the HD and PD binding element of the Id3 promoter were annealed and radiolabeled using [
-32P]dATP. The nuclear extracts were incubated with radiolabeled DNA probe for 30 min at 25°C in a reaction mixture containing 10 mM Tris, pH 7.9, 50 mM NaCl, 2 mM MgCl2, 1 mM EDTA, 1 mM dithiothreitol, 5% glycerol (vol/vol), and 100 ng/ml poly(dI-dC). DNA–protein complexes were fractionated in a 6% nondenaturing polyacrylamide gel. For antibody interaction studies, nuclear extract was preincubated with antibody for 15 min.
Chromatin Immunoprecipitation (ChIP) Assay
ChIP with C212 cells was carried out using the ChIP assay kit (Millipore, Billerica, MA) per the manufacturer's directions. ChIP on isolated CSM4B cells was performed as described in Attema et al. (2007)
. The immunoprecipitated DNA was recovered using a PCR purification kit (QIAGEN) and was used as template in PCR with specific primers spanning the HD and PD binding site of Id3 promoter. PCR products were run on 1% agarose gel and visualized by ethidium bromide staining. Primers used for amplification of mouse Id3 promoter were 5'-CCGGGCATACATTTAGTTCCT-3' and 5'-TCTCTCTCTCCTCTCTCTCTCTCAA-3'.
| RESULTS |
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Pax3 or Pax7 Induces the Expression of Id Family Members in C2C12 Cells and Id3 Protein Is Detectable in Quiescent Satellite Cells
To further analyze the ability of Pax3 or Pax7 to induce expression of Id proteins, we evaluated expression of Id1, Id2, and Id3 by RT-PCR in either parental C2C12 cells or in polyclones of C2C12 cells programmed to express exogenous Pax3 or Pax7. Both the parental C2C12 cells and the Pax3/Pax7-expressing C2C12 polyclones expressed approximately equivalent levels of Id1, Id2, and Id3 transcripts when the cells were cultured under high serum conditions (i.e., 10% fetal bovine serum) (Figure 2A, lanes 1–3). In striking contrast, when the cells were cultured under low serum conditions for 3 d (i.e., 2% horse serum), parental C2C12 cells down-regulated expression of Id1, Id2, and Id3, whereas the expression of these genes was maintained in the C2C12 polyclones programmed to express either Pax3 or Pax7 (Figure 2A, lanes 4–6).
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Pax7/Pax3 Can Bind to the Id3 Promoter and Induce the Transcriptional Activity of an Id3 Luciferase Reporter
To examine whether Id3 is directly regulated by Pax3 or Pax7, we analyzed the proximal promoter of the mouse Id3 gene for putative PD and HD binding sites. Interestingly, we identified putative PD and HD binding sites upstream of the Id3 proximal promoter in several mammalian species, including mouse, rat, human, orangutan, dog, and horse (Figure 3A). To determine whether Pax3/7 bind to Id3 regulatory sequences, we monitored whether Pax3/7 present in nuclear extracts made from C2C12 cells programmed to express these proteins would interact in vitro with an oligonucleotide containing the putative Pax3/7 binding site located upstream of the Id3 promoter. Nuclear extracts derived from either parental C2C12 cells or such cells infected with a retrovirus encoding either Pax3-FLAG or Pax7-FLAG were incubated with a radiolabeled oligomer containing the putative Pax3/7 binding site in the Id3 promoter (Figure 3B). The Pax3/7-DNA protein complexes were visualized by EMSA. Nuclear extracts derived from C2C12 cells programmed to express either FLAG-tagged Pax3 or FLAG-tagged Pax7 gave rise to a new DNA–protein complex on the Id3 oligo (Figure 3B, lanes 3 and 7, black arrow designates new gel shift) that was not present in extracts derived from parental C2C12 cells (Figure 3B, lane 2). Importantly, these DNA–protein complexes were shifted to a lower electrophoretic mobility by inclusion of either anti-Pax3, anti-Pax7, or anti-FLAG antibodies (Figure 3B, lanes 4, 5, 8, and 9; hollow arrow designates antibody supershifted complex). In contrast, a control anti-tubulin antibody did not affect the mobility of the Pax3/7-DNA complexes (Figure 3B, lanes 6 and 10). These findings indicate that Pax3 and Pax7 can bind to a conserved sequence located just upstream of the Id3 promoter in vitro.
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Pax7 Binds to the Id3 Promoter in Quiescent Satellite Cells
To evaluate whether Pax3/7 can bind to the Id3 promoter in vivo, we performed chromatin immunoprecipitation (IP) analysis with either parental C2C12 cells or C2C12 polyclones programmed to express either exogenous Pax3 or Pax7. Cells were cultured under low serum conditions, to stimulate Pax3/7-dependent induction of Id3 expression. After treatment of the cells with formaldehyde, chromatin was isolated, sheared by sonication, and regions of the genome bound by either Pax3 or Pax7 were immunoprecipitated. Both anti-Pax3 and anti-Pax7 antibodies precipitated chromatin encoding the Pax binding site located upstream of the Id3 transcription start site in C2C12 cells programmed to express either exogenous Pax3 or Pax7, respectively (Figure 4B). In contrast these antibodies did not precipitate the Id3 promoter in parental C2C12 cells (Figure 4B), which do not express detectable levels of Pax3 or Pax7 (Figure 2A).
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shRNA-mediated Knockdown of Pax7 Expression in Satellite Cells Significantly Reduces the Expression of Id2 and Id3
To examine whether Pax7 was necessary to maintain the expression of either Id2 or Id3 in satellite cells, we infected CSM4B cells, isolated from skeletal muscle tissue, with lentiviruses programmed to express shRNAs directed against either green fluorescent protein (shGFP; as a control) or Pax7 (shPax7). Four days after infection, RNA was isolated from the infected CSM4B cells, and RT-qPCR was used to assay gene expression. Expression of Pax7 was reduced to 40% of control levels in cells expressing Pax7 shRNA (Figure 4D). Notably, the expression of Id2 and Id3 was similarly reduced to 61 and 52% of control levels, respectively, in cells expressing Pax7 shRNA (Figure 4D). The reduction in expression of both Id2 and Id3 following knockdown of Pax7 expression suggests that Pax7 is necessary to maintain high level expression of both Id2 and Id3 in satellite cells.
| DISCUSSION |
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Previous work has indicated that >90% of CSM4B cells isolated from skeletal muscle express Pax7 and that such cells exhibit the functional characteristics of quiescent skeletal muscle stem cells or satellite cells (Cerletti et al., 2008
). When freshly isolated, this cell population displays robust expression of Pax7, Myf5, and both Id2 and Id3, yet it does not express appreciable levels of Id1. Culturing these cells in vitro leads to both their entry into the cell cycle (Cerletti et al., 2008
), induction of MyoD expression, and subsequent loss of Pax7 expression (Figure 1A). The expression of Id2 and Id3 eventually declines in these cultures as well, in parallel with loss of Pax7 expression and induction of skeletal muscle differentiation. Previous work has indicated that expression of Id1 is high in proliferating C2C12 cells and significantly decreases when these cells are induced to differentiate in low serum-containing medium (Benezra et al., 1990
). The induction of Id genes by Pax3/Pax7 in C2C12 cells cultured in low serum, or expression of Id2 and Id3 in quiescent satellite cells, suggests that the expression of Id factors can be divorced from cellular proliferation. Interestingly, however, maximal induction of the Id3-luciferase reporter by cotransfected Pax3/7 required the presence of high serum.
Chromatin IP analysis demonstrated that Pax7 binds to a conserved binding site adjacent to the promoter of the Id3 gene in freshly isolated, quiescent satellite cells, and mutagenesis of the Id3 promoter has indicated that this Pax7 binding site is necessary for Pax7-mediated induction of an Id3-promoter-luciferase construct in transfected C2C12 cells. Based upon these findings, we propose that Pax7 may act to maintain the expression of Id3 (and potentially Id2) specifically in quiescent satellite cells (outlined in Figure 5). Once satellite cells are induced to enter the cell cycle and express MyoD, expression of Id2/3 may be maintained either by signaling pathways downstream of serum factors and/or by Pax7 that is also expressed in proliferating satellite cells. Indeed knockdown of Pax7 attenuated the expression of both Id2 and Id3 in cultures of proliferating satellite cells. Consistent with the notion that Pax7 may be necessary to maintain the expression of Id2/3 in growth arrested cells, expression of both Pax7 and Id2/3 is lost in differentiated myotubes.
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In addition to Id2 and Id3, we noted that several other genes induced by Pax7 in C2C12 cells were also specifically expressed in quiescent satellite cells. These genes include ITM2A, the chemokine receptor CXCR4, BMP4, the sugar binding protein chondrolectin, C1R, PTGIS, and MGP. Interestingly, the expression of many of these Pax7 inducible genes was greatest in quiescent satellite cells and expression of these genes was extinguished during either proliferation or differentiation of these cells. CXCR4 has already been demonstrated to play a crucial role in migration of skeletal muscle cells during embryogenesis (Vasyutina et al., 2005
). It will be interesting to determine the role of both Id2/Id3 and these other putative Pax7 transcriptional targets in quiescent satellite cells.
| ACKNOWLEDGMENTS |
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| Footnotes |
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Address correspondence to: Andrew B. Lassar (andrew_lassar{at}hms.harvard.edu)
Abbreviations used: C1R, complement component 1 R subunit; ChIP, chromatin immunoprecipitation; CSM4B, CD45– Sca-1– Mac-1– CXCR4+ β-1 integrin+; EMSA, electrophoretic mobility shift assay; HD, homeo domain; Id, inhibitor of DNA binding; ITM2A, integral membrane protein 2A; MGP, matrix gla protein; PD, paired domain; PTGIS, prostaglandin I2 (prostacyclin) synthase.
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