Strict control of telomerase activation using Cre-mediated inversion
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Human cells appear exquisitely sensitive to the levels of hTERT expression, the telomerase reverse transcriptase. In primary cells that do not express hTERT, telomeres erode with each successive cell division, leading to the eventual loss of telomere DNA, an induction of a telomere DNA damage response, and the onset of cellular senescence or crisis. In some instances, an average of less than one appropriately spliced hTERT transcript per cell appears sufficient to restore telomerase activity and telomere maintenance, and overcome finite replicative capacity.
To underscore this sensitivity, we showed that a widely used system of transcriptional induction involving ecdysone (muristerone) led to sufficient expression of hTERT to immortalize human fibroblasts, even in the absence of induction. To permit tightly regulated expression of hTERT, or any other gene of interest, we developed a method of transcriptional control using an invertible expression cassette flanked by antiparallel loxP recombination sites. When introduced into human fibroblasts with the hTERT cDNA positioned in the opposite orientation relative to a constitutively active promoter, no telomerase activity was detected, and the cell population retained a mortal phenotype. Upon inversion of the hTERT cDNA to a transcriptionally competent orientation via the action of Cre recombinase, cells acquired telomerase activity, telomere DNA was replenished, and the population was immortalized. Further, using expression of a fluorescent protein marker, we demonstrated the ability to repeatedly invert specific transcripts between an active and inactive state in an otherwise isogenic cell background.
This binary expression system thus provides a useful genetic means to strictly regulate the expression of a given gene, or to control the expression of at least two different genes in a mutually exclusive manner.
KeywordsTelomere Length Internal Ribosome Entry Site loxP Site Telomere Repeat Amplification Protocol hTERT mRNA
The observation that DNA polymerases synthesize DNA in a unidirectional manner (5'-3') and do not completely replicate the 5' end of a linear DNA template, led Olovnikov and Watson to independently speculate that linear chromosomes would undergo a gradual loss of terminal DNA with each round of DNA replication [1, 2, 3]. Subsequently, telomere DNA was indeed found to erode upon continuous cell culture of human fibroblasts [4, 5]. Combined with the observation that human somatic cells have a limited replicative capacity in culture that is inversely proportional to the age of the donor , it was proposed that telomere attrition was responsible for this so-called 'Hayflick limit' [4, 7]. In accord with this hypothesis, the average telomere length in a primary fibroblast population is a stronger predictor of the number of remaining cell doublings than donor age [4, 7, 8].
Human telomerase contains two essential subunits, an RNA component, hTR , which serves as the template for de novo telomere synthesis, and hTERT, the telomerase reverse transcriptase [10, 11, 12, 13], which was cloned based on sequence similarity with the telomerase reverse transcriptase subunit identified in ciliates and yeast [14, 15, 16]. The first functional evidence that TERT comprised the telomerase core was that wild-type hTERT is necessary for telomerase activity in cell extracts , and that recombinant hTR and hTERT are necessary and sufficient to reconstitute telomerase activity in vitro and in cells [17, 18, 19]. While hTR is expressed in most cells, hTERT transcription is often repressed in many normal human cell types, however its expression can be detected in some dividing human cells, and hTERT mRNA expression is often increased in cancer cells [reviewed in [20, 21]]. Some telomerase-positive cell populations have been estimated to average less than one functional hTERT mRNA per cell [22, 23].
The ectopic expression of hTERT is sufficient to immortalize several cell types [reviewed in [20, 21]]. In these cell populations, the immortalization does not necessarily correlate with telomerase activity levels or telomere length; in some cases, immortalization can be achieved despite very short average telomere lengths [24, 25, 26]. In addition, unlike human tumor cell lines that possess multiple karyotypic abnormalities, primary cells immortalized via hTERT do not usually display overt chromosome rearrangements [27, 28, 29, 30]. However, genetic rearrangements have been documented in hTERT-immortalized epithelial cells or fibroblasts, especially after prolonged periods of culture, suggesting that telomerase expression may be permissive for events that promote cellular transformation [31, 32, 33, 34, 35, 36]. Further, not all cells that express telomerase become immortalized, and in these populations ploidy changes can occur, and are apparently resolved with continued culture without resulting in a transformed phenotype [37, 38].
In an effort to better understand the reversible and/or emergent properties of cells immortalized with hTERT, we developed a system to allow the reversible and well-controlled expression of hTERT in a cell line that would allow an isogenic comparison between telomerase-positive and telomerase-negative cell populations. Previous studies have established methods for the introduction [27, 39, 40, 41, 42, 43], and subsequent removal of hTERT cDNA [25, 44, 45, 46], however no system allowed for efficient and repeated reversion between the two states, nor allowed transcriptional regulation of hTERT (as opposed to complete excision of hTERT). Biochemical induction of hTERT might be used for this purpose, however this method proved incapable of sufficient repression in the absence of induction. Thus, we adopted a method of reversible transposition of a defined DNA sequence flanked by two loxP sites in opposing orientations, using Cre recombinase.
The Cre recombinase recognizes DNA sequences known as loxP sites, and specifically catalyzes recombination between them. Use of this system to excise and inactivate genes of interest by looping out the DNA between two parallel loxP sites on exposure to regulated Cre expression was first demonstrated in murine cells over a decage ago . The same principle has also been used to activate expression of a gene in vivo via excision of a "stop" sequence that otherwise blocked transcription . Upon excision, one loxP site is left in the genome, while the other remains in the excised DNA. Cre expression may be induced virally  or in a tissue-specific manner by crossing the mice with an appropriate strain expressing a Cre recombinase transgene under the control of a promoter specific to the tissue of interest . More recently, antiparallel loxP sites have been used to invert a specific sequence in mammalian cells, swapping the expression of one gene for another . Here, we show that human cells can be immortalized in a manner strictly dependent upon Cre-mediated inversion of an integrated hTERT cassette, and that inversion allows the strict and multiply reversible expression of transcriptional reporters.
Biochemical regulation of hTERTtranscription is insufficiently stringent
We explored the use of a commercially available biochemical induction system (see Materials and Methods) where the insect hormone ecdysone, or its analogs muristerone or ponasterone, is used to induce transcription of a gene of interest. In this system, constitutively expressed glucocorticoid receptor and retinoid X receptor form a heterodimer in the presence of the inducing agent, and subsequently bind a tandem array of response elements upstream of the exogenous gene, thereby activating transcription . This approach was considered because, in some systems, the absence of muristerone resulted in a very low or undetectable basal level of expression of the target gene. . However, cells containing inducible hTERT were rendered telomerase-positive, and the population became immortalized, even in the absence of induction (data not shown). This finding is consistent with the observation that very low levels of the TERT mRNA are sufficient to render a cell telomerase positive .
Development of a genetic switch for reversible gene expression
As the two loxP sites are in cis (on the same DNA molecule), the inversion reaction is expected to be iterative until Cre expression is lost, as the loxP target sites are not destroyed in the reaction [50, 53], thereby generating a racemic population of DNA cassettes in opposite orientations. By virtue of the coupled transcription of the target gene with an antibiotic resistance or fluorescence marker, it was hypothesized that each orientation could be specifically selected from the population. In order to behave as a reversible binary switch, the construct must be present at a single locus; otherwise, multiple copies of the construct could coexist within the same cell in different orientations.
Multiple inversion of the binary loxP cassette in human cells
Application of the binary system to hTERT
The binary system allows strict control of hTERTexpression
The use of drug selection via a bi-cistronic transcript
In the binary system, although we were able to successfully and strictly reverse hTERT expression, we were unable to select for one vector orientation over another based solely on the drug-resistance of the population (with either G418 or puromycin) when the gene conferring drug resistance was placed after the IRES. We hypothesize this difficulty arose as a consequence of the IRES, from which translation initiation is presumed less efficient. This observation is supported by another study, where the placement of a GFP-encoding cDNA after an IRES element resulted in undetectable GFP fluorescence .
Regulable gene function in a manner that is strictly controlled, and iterative, reversible switching between two expression states in an otherwise isogenic background represents a useful and broadly applicable research tool. In the case of introduced hTERT, where cells proved to be particularly sensitive to 'leaky' gene expression, we showed that the binary system could successfully switch from a non-immortalized, telomerase-negative population to an immortalized, telomerase-positive population. Moreover, we showed that EGFP fluorescence could be used to successfully select for the multiple inversion of sequences between two loxP sites in vivo. While one limitation remains to be overcome, notably the ability to simultaneously select for expression of a second gene following an IRES element, this binary expression system could be extended to any situation in which an integrated expression cassette would benefit from strict control of gene expression. Furthermore, the system possesses the distinct advantage that expression can be efficiently toggled between two genes. As one example, a mutant hTERT cDNA (initially in the 'OFF' state) could be placed in the opposite orientation to wild-type hTERT, and after selection of immortalized cells containing one copy of the cassette, Cre recombinase-induced switching would allow a comparison of cells containing either wild-type or mutant hTERT for the ability to sustain the immortalized phenotype. In addition, the technique might be further improved by replacing the constitutive transcriptional promoter with an inducible promoter, combining an extremely low background expression when in the 'OFF' state, and the ability to regulate expression levels once the gene has been inverted.
We have established a binary expression system in which two genes, in opposite orientation and flanked by loxP sites, can be toggled successively between an inactive and active transcriptional state. Using hTERT as a sensitive measure of strict gene expression, we showed that cellular immortalization could be achieved only when hTERT was placed in the 'active' orientation. This binary expression system promises broad application wherever strict and reversible transcriptional regulation is required.
The binary expression vector was generated using a combination of PCR and standard molecular cloning techniques. The hTERT cDNA (Genbank Accession AF015950) was obtained from previously published material . The EGFP gene derived from pEGFP-C2 and the IRES and associated antibiotic resistance markers were obtained from pIREShyg, pIRESneo, and pIRESpuro (BD Biosciences, Mississauga, ON). The loxP sequences and one of the polyadenylation sequences were inserted as de novo synthesized oligonucleotides. A triple polyadenylation sequence was a kind gift of Dr. Corrine Lobe. Prior to transfection of cells, the binary vector was linearized with the restriction enzyme SspI, which restricts the DNA outside the CMV promoter and loxP-flanked sequences, to minimize the loss of essential DNA sequences upon integration. Cre recombinase was introduced into cells via the transient transfection of a Cre recombinase expression vector (pMC-Cre, provided by Dr. Razqallah Hakem, Ontario Cancer Institute).
In vitroCre recombinase switching
In vitro Cre recombinase reactions were carried out using the Cre Recombinase kit (Novagen / VWR Canlab, Mississauga, ON) as per the manufacturer's instructions. In brief, after incubation of the binary expression vector with Cre recombinase in vitro, the reaction mixture was transformed into E. coli, and DNA prepared from single colonies to identify those clones that had undergone inversion between the two loxP sequences.
Initial characterization of the binary system was carried out in immortal, telomerase-positive 293 cells (Figure 3) [57, 58]. The biochemical induction and genetic binary expression of hTERT were carried out in HA-1 and HA-5 cells (kindly provided by Dr. Silvia Bacchetti), respectively, using growth conditions as described in .
Transfection of cells with various DNA samples was carried out using the Fugene-6 (Roche, Mississauga, ON), as per the manufacturers instructions.
Cells were trypsinized followed by addition of PBS with calcium and magnesium, counted and washed in ice-cold PBS without calcium or magnesium and resuspended in ice-cold PBS without calcium or magnesium at 2–5 million cells per mL. One mL was then mixed with 20 μg linearized plasmid DNA and electroporated at 400 V, 250 μF in a Bio-Rad Gene Pulser with Capacitance Extender (Bio-Rad Laboratories, Mississauga, ON).
Isolation of HA-5 single cell clones
Clonal populations of HA-5 cells were isolated manually, using a pasteur pipet, by removal of adherent colonies visualized under an inverted microscope, followed by placement into a new growth chamber.
Telomere Repeat Amplification Protocol
TRAP reactions were performed using the TRAPeze kit (Intergen, Purchase, NY, USA) as per the manufacturer's protocol.
15 micrograms of each genomic DNA sample, prepared using the DNAzol reagent (Invitrogen, Burlington, ON) following the manufacturer's protocol, was digested with XbaI and resolved by electrophoresis in a 0.8% w/v agarose gel. The DNA was then denatured, transferred to Hybond-N+ nylon membrane (Amersham Biosciences, Baie d'Urfé, QC) by capillary methods, and UV crosslinked (240 mJ in a UV Stratalinker 2400, Stratagene, La Jolla, CA, USA). The membrane was probed with radiolabelled DNA probe generated by random priming of a fragment corresponding to the CMV promoter (Figure 2), and washed in 1× SSC, 0.1% w/v SDS at increasing temperature, followed by a final wash in 0.1× SSC, 0.1% w/v SDS. The autoradiographic image was captured using a Storm Phosphorimager (Amersham Biosciences). The Southern blot in Figure 6 was carried out as described above, except that genomic DNA was digested with both HinfI and RsaI, resolved in a 0.5% w/v agarose gel, transferred, and the membrane was probed with a 5' 32P-labelled oligonucleotide, (C3TA2)3,.
Funding was provided to L.H. by the National Cancer Institute of Canada (NCIC 13164), with funds raised through the Terry Fox Run. MU acknowledges the support of a Doctoral Research Award from the Canadian Institutes of Health Research. We thank Claude Cantin at the University Health Network FACS Facility for performing the cell sorting analysis (Figure 3, panels E and F). We thank David Sealey and Jennifer Cruickshank for critical comments on the manuscript, Denis Bouchard for assistance with flow cytometry, Wen Zhou and Murray Robinson for providing the hTERT cDNA, Michael Reth for sharing unpublished data and providing a CRE-expression plasmid (that was not ultimately used in this study), Silvia Bacchetti and Maria Cerrone for providing the HA-5 cell line and cell electroporation protocols, Dr. Razqallah Hakem for pMC-Cre, and Corrinne Lobe for providing plasmids containing polyadenylation sequences used in the generation of the binary expression plasmid.
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