Overexpression of p49/STRAP alters cellular cytoskeletal structure and gross anatomy in mice
© Zhang et al.; licensee BioMed Central Ltd. 2014
Received: 8 April 2014
Accepted: 4 August 2014
Published: 2 September 2014
The protein p49/STRAP (SRFBP1) is a transcription cofactor of serum response factor (SRF) which regulates cytoskeletal and muscle-specific genes.
Two conserved domains were found in the p49/STRAP protein. The SRF-binding domain was at its N-terminus and was highly conserved among mammalian species, xenopus and zebrafish. A BUD22 domain was found at its C-terminus in three sequence databases. The BUD22 domain was conserved among mammalian p49/STRAP proteins, and yeast cellular morphogenesis proteins, which is involved in ribosome biogenesis that affects growth rate and cell size. The endogenous p49/SRAP protein was localized mainly in the nucleus but also widely distributed in the cytoplasm, and was in close proximity to the actin. Transfected GFP-p49/STRAP protein co-localized with nucleolin within the nucleolus. Overexpression of p49/STRAP reduced actin content in cultured cells and resulted in smaller cell size versus control cells. Increased expression of p49/STRAP in transgenic mice resulted in newborns with malformations, which included asymmetric abdominal and thoracic cavities, and substantial changes in cardiac morphology. p49/STRAP altered the expression of certain muscle-specific genes, including that of the SRF gene, which is a key regulator of cardiac genes at the developmental, structural and maintenance level and has two SRE binding sites.
Since p49/STRAP is a co-factor of SRF, our data suggest that p49/STRAP likely regulates cell size and morphology through SRF target genes. The function of its BUD22 domain warrants further investigation. The observed increase in p49/STRAP expression during cellular aging may contribute to observed morphological changes in senescence.
KeywordsTranscription cofactor Homology Subcellular localization Cell morphology Transgenic mice CMV promoter reactivation
The protein p49/STRAP was identified in our laboratory in search of proteins that regulate cytoskeletal genes related to cardiac function . Our initial observations indicated that p49/STRAP is a cofactor of serum response factor (SRF), contributing to the regulation of SRF target genes. This gene was later named by The Human Genome Organization (HUGO) as SRFBP1, based on our initial finding that p49/STRAP binds to SRF.
Serum response factor is an important transcription factor that regulates a number of immediate-early genes, cytoskeletal and muscle-specific genes. SRF has been reported to exhibit functional interactions with a number of SRF cofactors and/or binding proteins in the regulation of SRF target genes [2–6]. These interactions likely modulate SRF function and may also enable SRF to mediate tissue-specific regulation of its target genes at different developmental stages [6, 7]. A model of transcriptional regulation by SRF and its binding proteins has been proposed, in which the interaction of multiple proteins (including p49/STRAP) affects the outcome of the expression of SRF target genes . SRF has two functional domains. The N-terminus is a DNA binding domain that binds to the serum response element or CArG box and the C-terminus is a transactivation domain . The p49/STRAP protein interacts directly with the SRF transcriptional activation domain. Therefore, the level of p49/STRAP expression and its affinity to SRF protein may have a significant impact on SRF activation .
The p49/STRAP mRNA and protein are expressed in multiple tissues, including heart, brain, liver, skeletal muscle and kidney . An increase of p49/STRAP expression has been observed in the myocardium of adult human and mouse with advancing age, and also in transgenic mouse models of cardiomyopathy [1, 9]. However, the functional domains of the p49/STRAP protein and the effect of increased in-vitro and in-vivo p49/STRAP expression remain to be defined. In the present study, the p49/STRAP protein sequence was analyzed for conserved domains. A SRF-binding domain was found at the N-terminus of the p49/STRAP proteins of mammals and vertebrates; and a BUD22 domain was found at the C-terminus of the p49/STRAP proteins and the yeast cellular morphogenesis protein (also known as BUD22). When p49/STRAP gene was overexpressed in cultured cells and in transgenic mice, morphological alterations were observed, both at the cellular and whole organ, structural level.
Bioinformatics analysis of p49/STRAP protein
The p49/STRAP protein sequences were compared against the “Conserved Domain Database” at the National Center for Biotechnology Information (NCBI), the “Pfam” and the InterPro databases. The C-region of p49/STRAP matched an existing conserved domain in all three databases, specifically the BUD22 domain of the cellular morphogenesis protein that regulates yeast budding selection, polarity and RNA biogenesis (Figure 1B) [10–12]. Each database showed a slightly different length of BUD22 domain in p49/STRAP protein. As for the human p49/STRAP (UniProtKB/Swiss-Prot ID: Q8NEF9), the BUD22 domain was at amino acid 399–428 in the NCBI Conserved Domain database; amino acid 329–428 in the Pfam database, and amino acid 360–428 in the InterPro database, respectively.
Alignment of the BUD22 sequence of 8 yeast strands revealed that there was a conserved domain at the C-terminus (C-region), ranging from amino acid 375 to the end of the sequences (Additional file 1: Figure S2). When the p49/STRAP protein sequences of 13 mammalian species were compared with the 8 yeast BUD22 proteins, it was found that only part of sequences at the end of C-region, approximately 29 amino acids, was homologous among the 21 sequences (Additional file 1: Figure S3), indicating that those sequences represented a highly conserved region in the BUD22 domain (Figure 1B and Additional file 1: Figure S3).
Bioinformatic analysis of three p49/STRAP proteins and two BUD22 proteins
BUD22 (B. Yeast)
BUD22 (S. Pombe)
ER membrane retention signal
4.3% vesicles of secretory system
4.3% vesicles of secretory system
4.3% vesicles of secretory system
4.3% endoplasmic reticulum
4.3% plasma membrane
4.3% plasma membrane
Intracellular distribution of p49/STRAP
The p49/STRAP protein is known to be highly expressed in multiple tissues based on Western blotting . To better understand the intracellular distribution of the endogenous p49/STRAP protein, an affinity-purified antibody against a p49/Strap epitope was used for immunochemistry staining of H9C2 cells. As shown in Figure 2G, the endogenous p49/STRAP protein was present in both the nucleus and cytoplasm. In addition, the p49/STRAP protein was widely distributed within the cell in close proximity to the actin fibers (Figure 2J); some of the p49/STRAP proteins appeared to form a “tail” that was co-located at the end of the actin fibers, close to their attachment sites to the inner wall of the cell membrane (Figure 2J and K). These findings suggest that p49/STRAP may play a role in cellular cytoskeletal structure and function via its presence in the cytoplasm.
p49/STRAP overexpression affects cell morphology
p49/Strap modulated SRF gene expression
Generation of p49/STRAP transgenic mouse lines
The p49/STRAP mRNA/protein is well expressed in multiple tissues, including brain, heart, skeletal muscle, kidney, liver and testis . To test the hypothesis that increased expression of p49/STRAP in vivo may alter the expression of SRF-target genes and affect the morphology of mouse cells and tissues, we generated transgenic mouse lines containing a DNA construct with p49/STRAP cDNA under the transcriptional control of the CMV promoter.
After multiple microinjections and screenings, three transgenic (p49Tg) founder mice were identified. The founder mice were bred to non-transgenic (non-Tg) mice, and three p49Tg lines were thus established. Both Southern blotting and quantitative PCR analysis were used for the detection of the transgene copy number of the three p49Tg lines. Each line was found to have only one transgene copy.
Death of some p49/STRAP transgenic newborn mice
In the present study, we found that the p49/STRAP protein has a SRF-binding domain at the N-terminus and a BUD22 domain at the C-terminus. The N-terminal domain containing the SRF-binding domain was highly conserved among mammalian species, xenopus and zebrafish. The C-terminal domain containing the BUD22 domain was conserved not only among mammalian p49/STRAP proteins, but also conserved among yeast cellular morphogenesis proteins that regulate cell morphology and polarity. In addition, overexpression of p49/STRAP in vitro and in vivo indeed changed the cell actin content, cell size and cell polarity.
P49/STRAP is one of the SRF-binding proteins/cofactors that participate in the regulation of cytoskeletal and muscle-specific genes . The SRF protein is a major transcription factor in regulating cardiac, skeletal and smooth muscle genes . SRF has a DNA binding domain at the N-terminus that binds to the SRE (CArG box) DNA sequence, and a transcriptional activation domain at the C-terminus that is required for serum induction . SRF and its cofactors usually form a protein complex which binds to SRF target gene promoters and consequently activates or represses the target genes . Therefore, SRF cofactors play an important role in assisting SRF to conduct tissue-specific and development stage-specific regulation of its target genes . Among SRF cofactors, the TCF cofactor, myocardin and MRTFs bind to the SRF N-terminus, while p49/STRAP protein has been shown to bind to the SRF transcriptional activation domain [1, 5, 17]. It has been shown that the p49/STRAP protein is usually located within a protein complex containing the SRF and myocardin proteins. Therefore, p49/STRAP is able to modulate the SRF transcriptional activation .
The localization of p49/STRAP protein has been studied experimentally, either through transfection assays or proteomic analyses [1, 13, 19–21]. For instance, Lamond’s group has reported that p49/STRAP (SRFBP1) (ID # Q96DK2, or IPI00304493) is among a number of proteins, including Werner syndrome helicase, Bloom’s syndrome helicase and nucleolin, that are localized in the nucleolus [20, 21]. Recently, Tafforeau et al. demonstrated that p49/STRAP (SRFBP1) is in the nucleolus and serves as a pre-rRNA processing factor which regulates ribosome biogenesis . The authors stated that p49/STRAP did not have a yeast homologue . However, we have now observed that p49/STRAP does in fact, have a yeast homologue, namely BUD22 based on the domain search in NCBI, Pfam and InterPro databases. In addition, we observed that p49/STRAP is localized in both the nucleus and the nucleolus, which is similar to what has been reported for BUD22. BUD22 is one of the proteins that regulate yeast bud site selection and polarized cell growth in response to both external and internal stimuli . Polarized cell growth is a phenomenon that occurs in virtually all cells and it is essential for many important cellular events such as multicellular organ development and cell movement.
In addition, cell size and morphology are impacted by ribosome biogenesis which affects growth rate and cell size [24, 25]. Cell morphology is also regulated by various BUD proteins. It has been shown that BUD22 is involved in ribosome biogenesis, which affects both cell growth rate and cell size [10, 12]. Therefore, it is likely that p49/STRAP may regulate cell size and morphology through its partnership with SRF in regulating cytoskeletal genes, and may also regulate cell morphology and polarity with its BUD22 domain.
Cytoskeletal and muscle-specific genes are key components of cell morphology. Many of these genes are regulated by SRF and its cofactors. In the present study, p49/STRAP has been found to reduce actin fiber content and change cell morphology in cultured cells. Interestingly, the effect of p49/STRAP transfection on reducing cellular actin correlated with reduced actin expression in the malformed p49Tg newborns. The widespread structural and especially cardiac abnormalities in the dead newborns could be the consequence of altered expression of important cytoskeletal genes such as actin and other cardiac muscle-specific genes which include α-MHC and β-MHC, ANF and SRF itself. The p49/STRAP protein, as a co-factor of SRF, might be involved in the regulation of cytoskeletal and muscle-specific genes through potentially two different but related mechanisms. First, p49/STRAP may interact with SRF protein in the promoter of various cytoskeletal and muscle-specific genes and modulate their expression; second, p49/STRAP may indirectly modulate cytoskeletal and muscle-specific genes via regulating the expression of the SRF gene itself, which is a major regulator of many other SRF-target genes [14, 26]. The altered cellular actin dynamics may also indirectly regulate SRF activation [27–29].
In the transgenic mouse lines which were created in the present study, the p49/STRAP transgene expression was under the control of a CMV promoter, which is widely used to drive the ubiquitous expression of a transgene. Since the transgene overexpression can sometimes cause artifacts such as transcriptional squelching and may change balanced gene dosage and affect downstream regulation, it is also possible that the experimental results may not reflect the real function of a transgene. This could happen when the overexpression of a transgene is very high [30, 31]. However, in the present study, all three p49Tg lines each has only one transgene copy, and none of them had high transgene expression level. Therefore, the phenotypes observed in the present study are most likely to be the result of p49/STRAP overexpression instead of artifacts.
The p49Tg mice appeared to separate into two different groups, those with severe defects that died at birth, and those without apparent defects/abnormality at birth and continued to live in the absence of noticeable phenotype. The main difference between these two groups of p49Tg offspring in terms of gene expression was in the level of p49/STRAP transgene expression: the p49Tg with anatomical defects had elevated p49/STRAP gene expression, while the p49Tg mice without defects had no significant elevation in p49/STRAP expression and their levels were similar to that of non-Tg littermates. These findings suggest that p49/STRAP overexpression clearly plays a critical role in the manifestation of the abnormal phenotype observed in the p49Tg mice. The finding that sodium butyrate-induced reactivation of p49/STRAP transgene mRNA expression occurred in isolated aortic smooth muscle cells of the NA-p49Tg mice supports the notion that CMV promoter silencing most likely contributed to the repression of p49Tg transgene expression in the subset of the p49Tg mice that were without elevated p49/STRAP expression and without abnormal phenotype [32, 33].
The CMV promoter has been reported to have one CpG island with 14 CpG sites, which are subjected to DNA methylation or hypermethylation. Consequently, the CMV promoter is sometimes repressed by DNA methylation, which results in the decline, or complete silencing of the transgene expression [15, 16, 32, 33]. The CMV promoter that was used in the present p49Tg study is 654 bp long, which is part of the pcDNA3-p49/STRAP expression plasmid . The web-based software “CPGPLOT” was used to scan the sequence , and a CpG island was found in the CMV promoter that could potentially be methylated (figure not shown), which may have silenced the p49/STRAP transgene in some mice. CMV promoter methylation could occur both in vitro and in vivo . The degree of repression may vary from mouse to mouse, and may even be different among organs within a given animal . Furthermore, the degree of CMV promoter repression could be related to the length of the promoter and the GC content in the CMV promoter sequence which is used in the given DNA construct; it is also related to the transgene integration site .
In addition to DNA methylation, which may have occurred in the CMV promoter, it is known that histone deacetylation may also affect the CMV promoter activation . Previously, we observed that overexpression of p49/STRAP itself altered the intracellular level of NAD, reduced the NAD/NADH ratio, and also induced the deacetylation of the SRF protein . It is therefore plausible that overexpression of p49/STRAP itself could also change the acetylation status of other proteins, such as histones, and/or cause other epigenetic changes, including CMV promoter silencing. Epigenetic stability is important for the oocyte-to-embryo transition. Disruption of epigenetic stability could result in embryos displaying a large variety of phenotypes and growth defects during mouse embryogenesis ; perhaps similar to what was observed in some of the malformed p49Tg mice with elevated p49/STRAP expression. Similar to the reversal of other epigenetic modifications, DNA methylation at the CMV promoter could also be reversed by means of pharmacological intervention. It is plausible that reversing CMV methylation could potentially reactivate the transgene expression . Future studies to test these possibilities will be of interest.
Taken together, our findings indicate that p49/STRAP participates in the regulation of cytoskeletal gene expression and in the regulation of cell size as well as morphology/polarity. Elevated expression of p49/STRAP in P49Tg mice resulted in various organ defects, including asymmetric (or polarized) distribution of the vertebral spine and organs with altered expression of cardiac and skeletal muscle genes. Inasmuch as p49/STRAP is a SRF binding protein, and we have observed that it is also a homolog of the yeast BUD22 protein (which is known to regulate cell size and polarity), it is plausible that p49/STRAP may serve as a bridge that links two important pathways: the SRF-related pathway in transcriptional regulation of cytoskeletal genes and cell size (SRF mediates PTEN’s regulation of cell size), and the BUD22-related pathway that regulates cell size, cell morphology and polarity. We propose that the increased expression of p49/STRAP that is observed in aged human and rodent cells may mediate some of the observed changes in cellular morphology and the appearance of some of the markers of cellular senescence, including changes in actin structure and other intracellular-cytoskeletal proteins. Future studies in this area will likely yield substantial information.
The p49/STRAP sequences were analyzed using web-based and/or freely-downloaded bioinformatics tools, including “Conserved Domains” Blast , Pfam , SMART [40, 41], ExPASy , InterPro , NOD (Nucleolar localization sequence Detector) , PSORT II , iPSORT , and MultAlin . The CMV promoter sequence was analyzed using EMBOSS CpGPlot software .
For visualization of intracellular p49/STRAP and actin fibers, H9C2 cells were equally seeded onto six-well plates and grown in DMEM supplemented with 10% FBS at 37°C and 5% CO2 for 24 h. Upon attachment and ~80% confluence, H9C2 cells were infected with control adenovirus and recombinant p49/STRAP adenovirus for 24 h and 48 h, respectively. The cells were then fixed in 3.7% formaldehyde for 10 min at room temperature. The fixative was removed by washing with PBS and cells were permeabilized in 0.2% Triton X-100 for 5 min. Cells were washed with PBS blocked with 3% BSA for 1 h at room temperature. Samples were then incubated with primary rabbit p49/STRAP antibody (1:200) for 2 h at room temperature. Fluorescent secondary antibody signal was developed using Alexa Fluor 488 goat anti–rabbit (1:500) for 1 h at room temperature. F-actin was stained using rhodamine-phalloidin (1:200) for 20 min. Samples were then counterstained for 5 min with DAPI (1:1000) to label the nuclei. Images were examined with a 40× PLAN Fluor 1.3 objective (Nikon, Inc.) at room temperature using an Eclipse TI inverted fluorescence microscope (Nikon, Inc.) and captured and analyzed with Photometrics CoolSNAP HQ2 and NIS Elements AR software (v. 4.10.01 Nikon, Inc.). Images were exported as TIFF files.
Affinity-purified antibody against p49/STRAP protein
As described in our previous study, we generated a p49/STRAP antibody against a peptide (KSKKGTEDALLKNQRRAQ) of the p49/STRAP protein, which showed high specificity to the p49/STRAP protein . In the present study, the polyclonal antibody was commercially purified (Genemed Synthesis Inc.) using affinity chromatography with the same peptide that was used for the generation of the p49/STRAP polyclonal antibody.
Recombinant adenovirus infection
The p49/STRAP recombinant adenovirus was generated using the AdEasy system (a generous gift from Dr. Vogelstein, Johns Hopkins Oncology Center, MD) as was previously reported .
H9C2 cells were grown in 6-well plates and infected with control adenovirus and recombinant p49/STRAP adenovirus for 24 h and 48 h, respectively. Adenovirus treatment groups were performed in triplicate. After fixation, the cells were viewed using a 20× PLAN Fluor 0.5 objective (Nikon, Inc.) at room temperature, and the images were captured and analyzed. Post-treatment H9C2 cell size was determined using the measurement module in NIS Elements AR software (Nikon, Inc.). Cell size was measured through randomized field of view analysis for each treatment group in triplicate. For each viral infection treatment group (Ad-EGFP and Ad-p49/STRAP), a total of 500 cells were counted and analyzed. The nuclear to cytoplasmic ratio was measured using Nikon eclipse software.
Luciferase reporter assay
The plasmid DNA constructs used in the current study, including the p49/STRAP, SRF full-length cDNA and myocardin expression vectors, as well as the SRF gene promoter-luciferase vector, have been previously described [1, 48].
Generation of CMV-p49/STRAP transgenic mouse lines
The plasmid pcDNA3-p49/STRAP containing the mouse p49/STRAP cDNA (accession # AY611629) was constructed as previously described . Briefly, to make a transgenic DNA construct, a 2.7 kb DNA fragment containing CMV promoter, the mouse p49/STRAP cDNA and the BGH polyadenylation signal sequence was released from the plasmid pcDNA3-p49/STRAP using NruI and DraIII restriction enzymes, and was separated on a low melting gel and then isolated and purified as previously described [9, 49].
The microinjection of the DNA construct and generation of the transgenic mouse line were conducted at the Genetically Engineered Mouse Models (GEMM) Core of the University of Arizona. Three p49/STRAP transgenic (p49Tg) lines were generated. The TaqMan copy number assay was used for the determination of transgene copy number. The target gene was p49/STRAP (assay ID: Mm00488691) and the reference gene was Tfrc (Life technology). Southern blot analysis was also employed for the determination of the transgene copy number using the method previously described . In all experiments, age and sex-matched non-transgenic littermates were used for comparison with the p49Tg mice. For each time point, there were three independent biological replicates. The studies were conducted with the approval of the Institutional Animal Care and Use Committee (IACUC) at Central Arkansas Veterans Healthcare System (IACUC# 4-02-03) and in accordance with the NIH Guiding Principles for Research Involving Animals and Human Beings.
The bodies of stillborn mice and various tissue samples from euthanized newborn or stillborn mice were placed in 10% neutral buffered formalin overnight. After fixation, the samples were subjected to a dehydration series and embedded in paraffin. Sections (3–4 uM) were stained using standard hematoxylin and eosin (HE) or Masson trichrome staining protocols .
The histological images of the stained sections were obtained by scanning the microscope slides using a ScanScope Digital Slide Scanner at the magnification 40× (Aperio, Vista, CA).
All RNA samples were isolated from mouse tissues using the miRNeasy Mini kit and RNase-free DNase I (Qiagen) [50, 51]. The RT-PCR was carried out using reagents purchased from Applied Biosystems. The real-time RT-PCR was performed using the following primers: 1) p49/STRAP forward, 5′-gaggctttgagagtgtgaagca-3′ and reverse, 5′-cttcccaggacggatgca-3′; 2) SRF forward, 5′-accccaccacagaccagaga-3′ and reverse, 5′-ggtaggtgagatctggctcttca-3′; 3) ANF forward, 5′-tgggacccctccgatagatc-3′ and reverse, 5′-agcgagcagagccctcagt-3′; 4) α-MHC forward, 5′-tggtccacattcttcaggatt-3′and reverse, 5′-cctctaggcgttccttctctg-3′; 5) β-MHC forward, 5′-tcctgctgtttccttacttgc-3′ and reverse, 5′-ctgagccttggattctcaaac-3′; 6) cardiac actin forward, 5′-gctttggtgtgtgacaatgg-3′ and reverse, 5′-ctgtcccatacccaccatga-3′. The 5S RNA reference primers (Exiqon) that were used as endogenous control.
The PCR amplification was performed in a StepOnePlus Real-Time PCR System (Applied Biosystems). Relative expression values were obtained by normalizing CT values of the mRNA genes in comparison with CT values of the endogenous control (5S RNA) using the CT method [50, 52].
Isolation of mouse aortic smooth muscle cells and sodium butyrate treatment
All studies were conducted with IACUC approval. Following euthanasia as per approved protocol, the mouse aortic smooth muscle (ASM) cells were isolated from both normal-appealing p49Tg and their non-Tg littermate mice according to the method described by Ray et al. . Subsequently, the ASM cells were cultured in DMEM medium containing 15% fetal bovine serum, 100U/ml Penicillin, 100 ug/ml Streptomycin and 2.5 ug/ml Fungizone (Invitrogen). For treatment, the ASM cells were cultured in 6-well plates in the presence of sodium butyrate at 0.5 mM and 5 mM final concentration for 24 hours. The ASM cells cultured in the absence of sodium butyrate on the same plates were used as controls. After treatment, the cell in each well was washed with PBS and then subjected to total RNA isolation procedure using the miRNeasy Mini kit and RNase-free DNase I (Qiagen) [50, 51].
Data were analyzed by two independent observers, who were blind to the transgenic status of the mice. A two-tailed T-test was used to determine the differences between the two groups. Bonferroni correction was applied to multiple comparisons. A P value of <0.05 was considered to be statistically significant.
SRF-Dependent Transcription Regulation-Associated Protein
Serum response factor
SRF binding protein 1
Bud site selection protein 22
- Tg mouse:
Reverse transcription polymerase chain reaction.
This study was supported in part by NIH grants AG-018388, AG-026091 and AG-028718 from the Department of Health and Human Services, The Geriatric Research, Education, and Clinical Center (GRECC), and the Central Arkansas Veterans Healthcare System. No additional external funding received for this study. We thank E. Williams and J. James for their helpful input. We thank Kelly Pollnow for her expert manuscript preparation assistance. We thank the University of Arizona GEMM Core for transgenic mouse service.
- Zhang X, Azhar G, Zhong Y, Wei JY: Identification of a novel serum response factor cofactor in cardiac gene regulation. J Biol Chem. 2004, 279 (53): 55626-55632. 10.1074/jbc.M405945200.View ArticlePubMedGoogle Scholar
- Morin S, Paradis P, Aries A, Nemer M: Serum response factor-GATA ternary complex required for nuclear signaling by a G-protein-coupled receptor. Mol Cell Biol. 2001, 21 (4): 1036-1044. 10.1128/MCB.21.4.1036-1044.2001.PubMed CentralView ArticlePubMedGoogle Scholar
- Muller JG, Thompson JT, Edmonson AM, Rackley MS, Kasahara H, Izumo S, McQuinn TC, Menick DR, O'Brien TX: Differential regulation of the cardiac sodium calcium exchanger promoter in adult and neonatal cardiomyocytes by Nkx2.5 and serum response factor. J Mol Cell Cardiol. 2002, 34 (7): 807-821. 10.1006/jmcc.2002.2019.View ArticlePubMedGoogle Scholar
- Groisman R, Masutani H, Leibovitch MP, Robin P, Soudant I, Trouche D, Harel-Bellan A: Physical interaction between the mitogen-responsive serum response factor and myogenic basic-helix-loop-helix proteins. J Biol Chem. 1996, 271 (9): 5258-5264. 10.1074/jbc.271.9.5258.View ArticlePubMedGoogle Scholar
- Wang Z, Wang DZ, Hockemeyer D, McAnally J, Nordheim A, Olson EN: Myocardin and ternary complex factors compete for SRF to control smooth muscle gene expression. Nature. 2004, 428 (6979): 185-189. 10.1038/nature02382.View ArticlePubMedGoogle Scholar
- Wang D, Chang PS, Wang Z, Sutherland L, Richardson JA, Small E, Krieg PA, Olson EN: Activation of cardiac gene expression by myocardin, a transcriptional cofactor for serum response factor. Cell. 2001, 105 (7): 851-862. 10.1016/S0092-8674(01)00404-4.View ArticlePubMedGoogle Scholar
- Du KL, Ip HS, Li J, Chen M, Dandre F, Yu W, Lu MM, Owens GK, Parmacek MS: Myocardin is a critical serum response factor cofactor in the transcriptional program regulating smooth muscle cell differentiation. Mol Cell Biol. 2003, 23 (7): 2425-2437. 10.1128/MCB.23.7.2425-2437.2003.PubMed CentralView ArticlePubMedGoogle Scholar
- Johansen FE, Prywes R: Identification of transcriptional activation and inhibitory domains in serum response factor (SRF) by using GAL4-SRF constructs. Mol Cell Biol. 1993, 13 (8): 4640-4647.PubMed CentralView ArticlePubMedGoogle Scholar
- Zhang X, Azhar G, Chai J, Sheridan P, Nagano K, Brown T, Yang J, Khrapko K, Borras AM, Lawitts J, Misra RP, Wei JY: Cardiomyopathy in transgenic mice with cardiac-specific overexpression of serum response factor. Am J Physiol Heart Circ Physiol. 2001, 280 (4): H1782-H1792.PubMedGoogle Scholar
- Ni L, Snyder M: A Genomic Study of the Bipolar Bud Site Selection Pattern in Saccharomyces cerevisiae. Mol Biol Cell. 2001, 12 (7): 2147-2170. 10.1091/mbc.12.7.2147.PubMed CentralView ArticlePubMedGoogle Scholar
- Park HO, Bi E: Central roles of small GTPases in the development of cell polarity in yeast and beyond. Microbiol Mol Biol Rev. 2007, 71 (1): 48-96. 10.1128/MMBR.00028-06.PubMed CentralView ArticlePubMedGoogle Scholar
- Huh WK, Falvo JV, Gerke LC, Carroll AS, Howson RW, Weissman JS, O'Shea EK: Global analysis of protein localization in budding yeast. Nature. 2003, 425 (6959): 686-691. 10.1038/nature02026.View ArticlePubMedGoogle Scholar
- Zhang X, Azhar G, Helms S, Zhong Y, Wei JY: Identification of a subunit of NADH-dehydrogenase as a p49/STRAP-binding protein. BMC Cell Biol. 2008, 9: 8-10.1186/1471-2121-9-8.PubMed CentralView ArticlePubMedGoogle Scholar
- Spencer JA, Misra RP: Expression of the serum response factor gene is regulated by serum response factor binding sites. J Biol Chem. 1996, 271 (28): 16535-16543. 10.1074/jbc.271.28.16535.View ArticlePubMedGoogle Scholar
- Choi KH, Basma H, Singh J, Cheng PW: Activation of CMV promoter-controlled glycosyltransferase and beta -galactosidase glycogenes by butyrate, tricostatin A, and 5-aza-2'-deoxycytidine. Glycoconj J. 2005, 22 (1–2): 63-69.View ArticlePubMedGoogle Scholar
- Chen WY, Bailey EC, McCune SL, Dong JY, Townes TM: Reactivation of silenced, virally transduced genes by inhibitors of histone deacetylase. Proc Natl Acad Sci U S A. 1997, 94 (11): 5798-5803. 10.1073/pnas.94.11.5798.PubMed CentralView ArticlePubMedGoogle Scholar
- Wang DZ, Olson EN: Control of smooth muscle development by the myocardin family of transcriptional coactivators. Curr Opin Genet Dev. 2004, 14 (5): 558-566. 10.1016/j.gde.2004.08.003.View ArticlePubMedGoogle Scholar
- Johansen FE, Prywes R: Two pathways for serum regulation of the c-fos serum response element require specific sequence elements and a minimal domain of serum response factor. Mol Cell Biol. 1994, 14 (9): 5920-5928. 10.1128/MCB.14.9.5920.PubMed CentralView ArticlePubMedGoogle Scholar
- Lin JL, Liu FH, Wang C: Interaction of Hsp70 with p49/STRAP, a serum response factor binding protein. Biochem Biophys Res Commun. 2009, 389 (4): 607-611. 10.1016/j.bbrc.2009.09.031.View ArticlePubMedGoogle Scholar
- Leung AK, Trinkle-Mulcahy L, Lam YW, Andersen JS, Mann M, Lamond AI: NOPdb: Nucleolar Proteome Database. Nucleic Acids Res. 2006, 34 (Database issue): D218-D220.PubMed CentralView ArticlePubMedGoogle Scholar
- Ahmad Y, Boisvert FM, Gregor P, Cobley A, Lamond AI: NOPdb: Nucleolar Proteome Database–2008 update. Nucleic Acids Res. 2009, 37 (Database issue): D181-D184.PubMed CentralView ArticlePubMedGoogle Scholar
- Tafforeau L, Zorbas C, Langhendries JL, Mullineux ST, Stamatopoulou V, Mullier R, Wacheul L, Lafontaine DL: The complexity of human ribosome biogenesis revealed by systematic nucleolar screening of Pre-rRNA processing factors. Mol Cell. 2013, 51 (4): 539-551. 10.1016/j.molcel.2013.08.011.View ArticlePubMedGoogle Scholar
- Casamayor A, Snyder M: Bud-site selection and cell polarity in budding yeast. Curr Opin Microbiol. 2002, 5 (2): 179-186. 10.1016/S1369-5274(02)00300-4.View ArticlePubMedGoogle Scholar
- Thapa M, Bommakanti A, Shamsuzzaman M, Gregory B, Samsel L, Zengel JM, Lindahl L: Repressed synthesis of ribosomal proteins generates protein-specific cell cycle and morphological phenotypes. Mol Biol Cell. 2013, 24 (23): 3620-3633. 10.1091/mbc.E13-02-0097.PubMed CentralView ArticlePubMedGoogle Scholar
- Zhang Q, Shalaby NA, Buszczak M: Changes in rRNA transcription influence proliferation and cell fate within a stem cell lineage. Science. 2014, 343 (6168): 298-301. 10.1126/science.1246384.PubMed CentralView ArticlePubMedGoogle Scholar
- Li S, Czubryt MP, McAnally J, Bassel-Duby R, Richardson JA, Wiebel FF, Nordheim A, Olson EN: Requirement for serum response factor for skeletal muscle growth and maturation revealed by tissue-specific gene deletion in mice. Proc Natl Acad Sci U S A. 2005, 102 (4): 1082-1087. 10.1073/pnas.0409103102.PubMed CentralView ArticlePubMedGoogle Scholar
- Copeland JW, Treisman R: The diaphanous-related formin mDia1 controls serum response factor activity through its effects on actin polymerization. Mol Biol Cell. 2002, 13 (11): 4088-4099. 10.1091/mbc.02-06-0092.PubMed CentralView ArticlePubMedGoogle Scholar
- Posern G, Treisman R: Actin' together: serum response factor, its cofactors and the link to signal transduction. Trends Cell Biol. 2006, 16 (11): 588-596. 10.1016/j.tcb.2006.09.008.View ArticlePubMedGoogle Scholar
- Miralles F, Posern G, Zaromytidou AI, Treisman R: Actin dynamics control SRF activity by regulation of its coactivator MAL. Cell. 2003, 113 (3): 329-342. 10.1016/S0092-8674(03)00278-2.View ArticlePubMedGoogle Scholar
- Lin H, McGrath J, Wang P, Lee T: Cellular toxicity induced by SRF-mediated transcriptional squelching. Toxicol Sci. 2007, 96 (1): 83-91.View ArticlePubMedGoogle Scholar
- Gibson TJ, Seiler M, Veitia RA: The transience of transient overexpression. Nat Methods. 2013, 10 (8): 715-721. 10.1038/nmeth.2534.View ArticlePubMedGoogle Scholar
- Hsu CC, Li HP, Hung YH, Leu YW, Wu WH, Wang FS, Lee KD, Chang PJ, Wu CS, Lu YJ, Huang TH, Chang YS, Hsiao SH: Targeted methylation of CMV and E1A viral promoters. Biochem Biophys Res Commun. 2010, 402 (2): 228-234. 10.1016/j.bbrc.2010.09.131.View ArticlePubMedGoogle Scholar
- Kong Q, Wu M, Wang Z, Zhang X, Li L, Liu X, Mu Y, Liu Z: Effect of trichostatin A and 5-Aza-2'-deoxycytidine on transgene reactivation and epigenetic modification in transgenic pig fibroblast cells. Mol Cell Biochem. 2011, 355 (1–2): 157-165.View ArticlePubMedGoogle Scholar
- Rice P, Longden I, Bleasby A: EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000, 16 (6): 276-277. 10.1016/S0168-9525(00)02024-2.View ArticlePubMedGoogle Scholar
- Mehta AK, Majumdar SS, Alam P, Gulati N, Brahmachari V: Epigenetic regulation of cytomegalovirus major immediate-early promoter activity in transgenic mice. Gene. 2009, 428 (1–2): 20-24.View ArticlePubMedGoogle Scholar
- Kong Q, Wu M, Huan Y, Zhang L, Liu H, Bou G, Luo Y, Mu Y, Liu Z: Transgene expression is associated with copy number and cytomegalovirus promoter methylation in transgenic pigs. PLoS One. 2009, 4 (8): e6679-10.1371/journal.pone.0006679.PubMed CentralView ArticlePubMedGoogle Scholar
- Messerschmidt DM, de Vries W, Ito M, Solter D, Ferguson-Smith A, Knowles BB: Trim28 is required for epigenetic stability during mouse oocyte to embryo transition. Science. 2012, 335 (6075): 1499-1502. 10.1126/science.1216154.View ArticlePubMedGoogle Scholar
- Marchler-Bauer A, Lu S, Anderson JB, Chitsaz F, Derbyshire MK, DeWeese-Scott C, Fong JH, Geer LY, Geer RC, Gonzales NR, Gwadz M, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Lu F, Marchler GH, Mullokandov M, Omelchenko MV, Robertson CL, Song JS, Thanki N, Yamashita RA, Zhang D, Zhang N, Zheng C, Bryant SH: CDD: a Conserved Domain Database for the functional annotation of proteins. Nucleic Acids Res. 2011, 39 (Database issue): D225-D229.PubMed CentralView ArticlePubMedGoogle Scholar
- Finn RD, Mistry J, Tate J, Coggill P, Heger A, Pollington JE, Gavin OL, Gunasekaran P, Ceric G, Forslund K, Holm L, Sonnhammer EL, Eddy SR, Bateman A: The Pfam protein families database. Nucleic Acids Res. 2010, 38 (Database issue): D211-D222.PubMed CentralView ArticlePubMedGoogle Scholar
- Schultz J, Milpetz F, Bork P, Ponting CP: SMART, a simple modular architecture research tool: identification of signaling domains. Proc Natl Acad Sci U S A. 1998, 95 (11): 5857-5864. 10.1073/pnas.95.11.5857.PubMed CentralView ArticlePubMedGoogle Scholar
- Letunic I, Doerks T, Bork P: SMART 7: recent updates to the protein domain annotation resource. Nucleic Acids Res. 2012, 40 (Database issue): D302-D305.PubMed CentralView ArticlePubMedGoogle Scholar
- Artimo P, Jonnalagedda M, Arnold K, Baratin D, Csardi G, de Castro E, Duvaud S, Flegel V, Fortier A, Gasteiger E, Grosdidier A, Hernandez C, Ioannidis V, Kuznetsov D, Liechti R, Moretti S, Mostaguir K, Redaschi N, Rossier G, Xenarios I, Stockinger H: ExPASy: SIB bioinformatics resource portal. Nucleic Acids Res. 2012, 40 (Web Server issue): W597-W603.PubMed CentralView ArticlePubMedGoogle Scholar
- Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S, de Castro E, Coggill P, Corbett M, Das U, Daugherty L, Duquenne L, Finn RD, Fraser M, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J: InterPro in 2011: new developments in the family and domain prediction database. Nucleic Acids Res. 2012, 40 (Database issue): D306-D312.PubMed CentralView ArticlePubMedGoogle Scholar
- Scott MS, Troshin PV, Barton GJ: NoD: a Nucleolar localization sequence detector for eukaryotic and viral proteins. BMC Bioinformatics. 2011, 12: 317-10.1186/1471-2105-12-317.PubMed CentralView ArticlePubMedGoogle Scholar
- Nakai K, Horton P: PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem Sci. 1999, 24 (1): 34-36. 10.1016/S0968-0004(98)01336-X.View ArticlePubMedGoogle Scholar
- Bannai H, Tamada Y, Maruyama O, Nakai K, Miyano S: Extensive feature detection of N-terminal protein sorting signals. Bioinformatics. 2002, 18 (2): 298-305. 10.1093/bioinformatics/18.2.298.View ArticlePubMedGoogle Scholar
- Corpet F: Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res. 1988, 16 (22): 10881-10890. 10.1093/nar/16.22.10881.PubMed CentralView ArticlePubMedGoogle Scholar
- Zhang X, Azhar G, Zhong Y, Wei JY: Zipzap/p200 is a novel zinc finger protein contributing to cardiac gene regulation. Biochem Biophys Res Commun. 2006, 346 (3): 794-801. 10.1016/j.bbrc.2006.05.211.View ArticlePubMedGoogle Scholar
- Zhang X, Chai J, Azhar G, Sheridan P, Borras AM, Furr MC, Khrapko K, Lawitts J, Misra RP, Wei JY: Early postnatal cardiac changes and premature death in transgenic mice overexpressing a mutant form of serum response factor. J Biol Chem. 2001, 276 (43): 40033-40040. 10.1074/jbc.M104934200.View ArticlePubMedGoogle Scholar
- Zhang X, Azhar G, Wei JY: The expression of microRNA and microRNA clusters in the aging heart. PLoS One. 2012, 7 (4): e34688-10.1371/journal.pone.0034688.PubMed CentralView ArticlePubMedGoogle Scholar
- Zhang X, Azhar G, Helms SA, Wei JY: Regulation of cardiac microRNAs by serum response factor. J Biomed Sci. 2011, 18: 15-10.1186/1423-0127-18-15.PubMed CentralView ArticlePubMedGoogle Scholar
- Schmittgen TD, Livak KJ: Analyzing real-time PCR data by the comparative C(T) method. Nat Protoc. 2008, 3 (6): 1101-1108. 10.1038/nprot.2008.73.View ArticlePubMedGoogle Scholar
- Ray JL, Leach R, Herbert JM, Benson M: Isolation of vascular smooth muscle cells from a single murine aorta. Methods Cell Sci. 2001, 23 (4): 185-188. 10.1023/A:1016357510143.View ArticlePubMedGoogle Scholar
This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.