p150 ADAR1 isoform involved in maintenance of HeLa cell proliferation
© Wang et al; licensee BioMed Central Ltd. 2006
Received: 22 September 2006
Accepted: 08 December 2006
Published: 08 December 2006
RNA-specific adenosine deaminase ADAR1 is ubiquitously expressed in a variety of mammalian cells and tissues. Although its physiological importance in non-nervous tissues has been confirmed by analysis of null mutation phenotypes, few endogenous editing substrates have been identified in numerous peripheral tissues and biological function of ADAR1 has not been fully understood.
A conditional site-specific, ribozyme-based gene knock-down strategy was utilized to study the function of full-length isoform of ADAR1 (p150 protein) in HeLa cell. Double-stable HeLa cell lines were developed by transfecting HeLa Tet-On cells with a pTRE-derived plasmid that can express a hammerhead ribozyme against mRNA of p150 ADAR1 isoform under induction condition. Semi-quantitative RT-PCR and Western blotting were performed to measure the expression of p150 in selected cell clones. Cell proliferation was evaluated by means of MTT assay and growth curve analysis. Cellular morphological changes were observed under light microscope. Flow Cytometry was used for cell cycle analysis. Growth rate of cell transplants in BALB/c nude mice was also investigated.
Both HeLa cell proliferation in vitro and the growth rate of transplanted HeLa cell-derived tumors in nude mice in vivo were significantly inhibited due to reduced expression of ADAR1 p150. Additionally, cell cycle analysis showed that cell progression from G1 phase to S phase was retarded in the ADAR1 p150 suppressed cells.
Our results suggest that normal expression and functioning of p150 ADAR1 is essential for the maintenance of proper cell growth. The mechanisms underlying ADAR1's action might include both editing of currently unknown double-stranded RNAs and interacting with other cellular dsRNA-related processes.
Adenosine (A) to inosine (I) conversion catalyzed by adenosine deaminases acting on RNA (ADAR) is an evolutionally conserved process, occurring in organisms from unicellular protozoa to humans [1, 2]. Through site-specific modification of pre-mRNAs, this process provides an important post-transcriptional mechanism for expanding the functional diversities of RNA and protein products, such as those that encode the glutamate receptors and serotonin receptors [3, 4]. In contrast, nonspecific editing is more frequent and has been considered mainly implicated in host defense mechanisms .
Due to the use of different promoters, human ADAR1 has two major variants: The full-length form p150 is expressed from an interferon (IFN) -inducible promoter and predominantly localizes to cytoplasm. Use of a constitutive promoter, in contrast, produces an N-terminally truncated, predominantly if not exclusively nuclear p110 protein that is not induced by IFN [6, 7]. Owing to its special cytoplasmic location and elevated deaminating activity during infection, IFN-inducible p150 is believed to play a role in antiviral defense against viruses that replicate in the cytoplasm [8, 9].
The physiological importance of ADAR1 has been confirmed by phenotypic analysis of null mutants in previous studies. Inactivation of ADAR1 gene has been reported to cause lethality in ADAR1+/- chimeric mice and ADAR1-/- embryos, along with severe impairment of liver structure and reduced hepatocyte cell density [10–12]. The remarkable observation that among many ADAR1 deleted embryonic tissues that underwent apoptosis, the highest level of apoptosis was within the liver and regions exhibiting excessive apoptosis in ADAR1-/- embryos corresponded to tissues expressing the highest levels of ADAR1 in wild-type embryos indicated an essential role of ADAR1 in the normal development of non nervous tissues . Moreover, compared with wild-type MEF (mouse embryonic fibroblasts) cells, ADAR1-/- MEF cells were prone to apoptosis when subjected to serum deprivation, and expression of ADAR1 p150 increased significantly in wild-type MEF cells during serum deprivation , perhaps indicating a special requirement of ADAR1 p150 for cell survival.
Recently, Samuel and his colleagues reported that small amount of ADAR1 p150 could be detected in almost all tissues of healthy adult mice . Expression of p150 was found to be least abundant in brain tissue of normal mice, and this seems somewhat correlated with the previous observation that no abnormality was detected in ADAR1-deleted embryonic brain [10–12]. They also found that p150 is most abundant in liver of mice infected with Salmonella and where it is also the major form of ADAR1. Taken together, these data suggest that endogenous ADAR1 p150 protein may play a critical role in the normal development and maintenance of bodily tissues, especially for liver. However, despite the ubiquitous expression of ADAR1 and the correlated large amount of I-containing mRNA (I-mRNA) throughout the body [1, 14, 15], as of yet, only a few genes with editing sites in coding regions have been identified as endogenous substrates of ADAR1 [3, 4, 16].
The expression and regulation of ADAR1 p150 in human tissues has not been fully characterized thus far. In HeLa cells, the simultaneous presence of two forms of ADAR1 has been confirmed by both Western-blotting and immunofluorescence analysis [17, 18]. In the present study, by using a method based on hammerhead ribozyme technique, we specifically knocked down the expression of mRNA for p150 ADAR1 isoform in HeLa cells and first revealed that endogenous p150 is necessary for the proper control of cell proliferation.
Design and construction of recombinant vector
Based on the previously reported method , a hammerhead ribozyme was designed to target the human ADAR1 mRNA (Genbank ACCESSION NM_001111.3 GI: 7669471) at position 206, which is included in coding sequence of p150 ADAR1 protein but absent in that of p110 protein. Consequently, cellular phenotypes associated with induced-expression of this specific ribozyme would be absolutely caused by deficiency of p150 ADAR1 isoform. The designed ribozyme oligonucleotide 5'- TGAGGGAA CTGATGAGTCCGTGAGGACGAA ACCCCTGC 3' (The underlined are nucleotides complementary to the substrate) and the corresponding reverse complementary strand were synthesized and annealed after heating to 100°C for 2 min followed by a slow cooling to room temperature. For inducible ribozyme expression in mammalian cells, the double-stranded DNA fragments were subcloned into the Tet-On pTRE plasmid (Clontech, Palo Alto, CA, USA) to form a vector designated as pTRE-ADAR1-Rz, which would release free ADAR1-Rz transcripts in the presence of doxycycline (Dox). The integrity of the constructs was confirmed by enzymatic digestion and DNA sequencing.
Cell cultures and stable transfection
HeLa Tet-On cells (Clontech, Palo Alto, CA, USA) were cultured in DMEM medium (Gibco, Gaithersburg, MD, USA) supplemented with 10% fetal bovine serum, 100 IU/mL penicillin and 100 μg/mL streptomycin. Cells grown in 10 cm dishes were co-transfected with pTRE-ADAR1-Rz and pTK-Hyg plasmids, or pTRE and pTK-Hyg plasmids, using Lipofectamine 2000 (Gibco, USA) transfection method. Transfected cells were screened for hygromycin (Hyg) resistance. The selected clones were designated as HeLa-Rz cells (carrying both pTRE-ADAR1-Rz and pTK-Hyg) or HeLa-p cells (carrying both pTRE and pTK-Hyg). Positive clones were further analyzed for the expression of p150 ADAR1 isoform in the absence/presence of Dox at a final concentration of 2 μg/ml by using RT-PCR and Western blotting methods, respectively.
RNA isolation and RT-PCR
Total RNA was extracted using the TriZol reagent (Invitrogen, Carlsbad, CA, USA) and reverse transcribed using random hexamer primers and reverse transcriptase (Superscript II, Invitrogen) at 43°C for 1 h. The cDNAs prepared with RNAs obtained from different cell clones were PCR-amplified using Taq DNA polymerase (Invitrogen) and the following ADAR1 specific primer pairs: 5'- AGAAGGGCAAGCTACAGA -3' (nucleotides 742–759) and 5'- AATTCAGGGCAGAGGAG -3' (nucleotides 1136–1152) that flank exons 1–2 and capable of detecting transcripts of ADAR1 p150 (Genbank ACCESSION NM_001111.3 GI: 70166851) only. β-actin was also PCR-amplified and used as an internal control. The PCR step was performed for 23–32 cycles of denaturizing at 94°C for 60 s, annealing at 55°C for 1 min, primer extension at 72°C for 1 min, and a final extension at 72°C for 10 min. PCR products were analyzed by gel (1% agarose) electrophoresis analysis.
Total protein extracts of cultured cells obtained by using Trizol reagent was prepared in SDS sample buffer and used for Western-blotting analysis . Samples containing 25 μg of total protein were fractionated by SDS-PAGE on a 10% acrylamide gel and transferred onto a nitrocellulose membrane. ADAR1 immunoreactivity was detected using rabbit antiserum specific for the human ADAR1 protein (provided by Dr. Michael F. Jantsch of Department of Chromosome Biology at University of Vienna) as primary antibodies. Detection of antigen-antibody complex formation was with HRP (horseradish peroxidase) – conjugated goat anti-rabbit secondary antibody using an ECL detection kit (Amersham Biosciences, Piscataway, NJ).
Cell viability was assessed using 3-(4, 5-dimethylthiazol-2-yl)-2, 5-diphenyl tetrazolium bromide (MTT) dye conversion. Following Dox (2 μg/ml) exposure, MTT was added to the wells to a final concentration of 1 mg/mL and incubated at 37°C for 2 h. The reaction products were solubolized overnight using 50 % dimethylformamide/20 % sodium dodecyl sulfate, and 96-well plates were read on a plate reader (Molecular Probes, Sunnyvale, CA, USA) at 590 nm. Viability was determined by comparison to untreated cells. Cells were counted daily with a Coulter Counter (Beckman Coulter, Fullerton, CA, USA). Mean cell count data were then used to construct a growth curve and the population doubling time was calculated as reported previously . The assessments were conducted in triplicate.
Flow cytometry analysis
1 × 106 cells were harvested and resuspended in 100 μl of the kit reaction buffer containing 5 μg/mL of propidium iodide. After mixing, cells were incubated for 15 min in the dark. Cell cycle analysis was performed on a Model Coolper XL cytofluorimeter and analyzed by a Multicycle Software. Experiments were run in triplicate.
Growth of cell transplants
BALB/c nu/nu nude mice aged 6–8 wks were obtained from the Shanghai Institute of Materia Medica at the Chinese Academy of Sciences in China. The experimental protocol was approved by the Experimental Animal Center of Chinese Academy of Sciences (Identification No. Scfk11-6A-0006). HeLa-Rz cells were grown in monolayer culture, harvested, washed twice, resuspended in Hank's Balanced Salt Solution and implanted into the dorsal subcutaneous tissue of mice by injection at 0.2 mL (1 × 107 tumor cells for each animal). Animals were then randomly divided into two groups: the ADAR1 knockdown group (given drinking water containing 2.5 mg/mL of Dox) and the control group. The tumor size was measured twice a week with calipers and tumor volume was estimated by the formula: (length × width2)/2 .
Data are expressed as mean ± standard deviation (SD). Statistical comparisons were made using unpaired Student's t-tests. A difference was considered significant at a value of P < 0.05.
The sequences of ADAR1 from human, rat, and mouse are highly conserved, all having a unique N-terminus (containing two tandemly arranged Z-DNA-binding domains), three double-stranded RNA-binding domains (dsRBDs) and a conserved deaminase domain at the C-terminus . Its distinct structural architecture, tightly regulated expression and intracellular distribution set ADAR1 apart from other known ADAR gene family members, ADAR2 and ADAR3 [22–24]. Furthermore, the discrepancy between its widespread expression within the body and the few known substrates indicates that in vivofunction of ADAR1 may not be restricted to nuclear pre-mRNA editing [13, 15, 16].
Due to its interferon-inducible expression and its predominantly cytoplasmic localization, p150 isoform of ADAR1 has been considered involved in host defense mechanisms against viruses that replicate in the cytoplasm [8, 9]. More recently, the observation that serum deprivation significantly increased cytoplasmic level of p150 expression in MEF cells suggests that p150 might also play a role critical for the promotion of cell survival .
In the present study, by using RT-PCR and Western blotting methods, we demonstrated that endogenous p150 isoform (full-length isoform of human ADAR1) of ADAR1 is expressed abundantly in HeLa cells. In order to study its biological function, we specifically down regulated the level of mRNA for p150 protein by using a hammerhead ribozyme-based technique. Our results revealed that a several fold knockdown of ADAR1 p150 inhibited cell proliferation (by a maximum inhibitory rate of 38%) significantly. In addition, cell cycle progression of p150 suppressed cells was characterized by an excessive retention of cells in G1 phase and delayed transition into S phase. However, we did not find any obvious cellular morphological changes under the light microscope. In nude mice, the growth rate of transplanted HeLa cells was also significantly reduced by down-regulation of ADAR1 p150 expression.
The molecular mechanisms underlying the action of p150 ADAR1 protein to maintain cellular proliferation is still under investigation. In vitro, the enzyme can act on almost any double stranded substrate of sufficient length, showing little site selectivity . Secondly, because any RNA that is at least partially double-stranded represents a potential substrate for A-to-I editing, ADAR1 may interfere with other cellular processes that rely on dsRNA molecules, such as RNAi  and NF90 proteins (including NF110, NF90 and NF45) . Finally, supported by the observation that both expression and activity of ADAR1 p150 are elevated in lymphocytes in response to inflammation , it appears that cytoplasmic editing activity of ADAR1 p150 might also be involved in the regulation of gene expression under special pathological conditions.
Based on our study, endogenous expression of ADAR1 p150 protein is necessary for the proper control of cell growth. p150 protein is also capable of responding to "unfavorable stimulations" and thus involved in host defense mechanisms through its inducible expression, cytoplasmic accumulation and shuttling activity between the nuclear and cytoplasmic compartments [6, 9, 17, 22]. Recent bioinformatics analysis has revealed that A-to-I editing modification occurs in at least 30 different organs with different frequencies and most editing events are found within Alu elements embedded in the non-coding regions of human transcriptome, which is suggested to be engaged in the modulation of tumor cell growth and differentiation [28–32]. Further investigation is required to address the questions whether and which form of ADAR1 is associated with tumor development.
Our results suggest that normal expression and functioning of p150 ADAR1 isoform is essential for the maintenance of proper cell growth. The mechanisms underlying the action of ADAR1 p150 might include both cytoplasmic editing of currently unknown dsRNAs and interacting with other cellular dsRNA-related processes.
We thank Dr. GR Qi of Shanghai Biochemical Research Institute for generously providing the plasmid pRG523 and Dr. Michael F. Jantsch of Department of Chromosome Biology at University of Vienna for generously providing the rabbit anti-Human ADAR1 serum. We also thank Dr. ZG Liu for helpful comments.
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