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Journal of Virology, February 2008, p. 1399-1406, Vol. 82, No. 3
0022-538X/08/$08.00+0 doi:10.1128/JVI.02012-07
Copyright © 2008, American Society for Microbiology. All Rights Reserved.

Gene Therapy and Therapeutics Branch, National Institute of Dental and Craniofacial Research, National Institutes of Health, Bethesda, Maryland 20892
Received 11 September 2007/ Accepted 13 November 2007
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Because of this close relationship between AAV and its helper viruses, a number of different AAV isolates have been found in preparations of adenoviruses. AAVs have been detected in primate and nonprimate adenovirus stocks, including isolates from bovine, avian, ovine, and equine origins (1).
We recently reported the identification of several new isolates from adenoviral stocks held by the American Type Culture Collection (ATCC) with high sequence similarity to AAV1 and AAV6 (22). However, despite their close sequence similarity, they also display unique biologic activities. Characterization of several of these isolates identified differences in their responses to preexisting antibodies and entry pathways as well as kinetics of uncoating and transgene expression. Due to these differences in biologic activity, AAV vectors are considered a very diverse platform for gene transfer. For example, AAV1 vectors very efficiently transduce skeletal muscle and other tissues whereas AAV4 demonstrates very specific and high-level transduction of ependymal cells in the central nervous system (7, 8).
In part, this unique cell tropism can be attributed to the differences in cell attachment receptors used for AAV binding and entry. AAVs utilize a diverse array of cell surface carbohydrates for attachment and infection. AAV2 has been shown to bind heparan sulfate proteoglycans (HSPGs) on the cell surface (26). Competition experiments have demonstrated that soluble heparin can block virus binding and transduction. Furthermore, differentiated airway lung epithelial cells, which express very little HSPG on their apical surfaces, are poorly transduced. Not all AAVs interact with HSPGs. AAV4 and AAV5 both use different forms of sialic acid for cell attachment. While both AAV4 and AAV5 require
2,3-linked sialic acid for cell attachment and transduction, they differ in their linkage specificity. AAV4 preferentially attaches to
2,3 sialic acid present on the O-linked carbohydrate core, while AAV5 attached to the N-linked type (12, 28). AAV1 and AAV6 also have been reported to use either
2,3 or
2,6 N-linked sialic acid for binding (30). Bovine AAV also requires sialic acid for attachment but for cell entry requires a different form of sialic acid that is found in gangliosides, ceramide-based glycolipids containing one or more sialic acid groups (21).
In this report, we characterize a new AAV serotype, AAV12, which was isolated from a simian adenovirus 18 stock. The sequence of the rep gene places it in the AAV2 complementation group, but the capsid is only 60% identical to that of AAV2. Our characterization of this isolate revealed the unique biological and antigenic properties of recombinant AAV12 (rAAV12). Unlike those of all other described AAVs, rAAV12 cell attachment and transduction are independent of both HSPG and sialic acid, resulting in a unique transduction profile in vitro. The feasibility of rAAVs as vectors for in vivo gene transfer was demonstrated in a mouse model. These features of rAAV12, together with a high resistance to neutralization by human serum, render rAAV12 an interesting candidate for gene transfer applications.
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Subcloning of the AAV12 rep and cap genes. The complete coding regions of AAV12 rep and cap were PCR amplified and subcloned. DNA was isolated from lysates of simian virus 18-infected cells with a QIAprep Spin mini prep kit (Qiagen, Valencia, CA).The rep open reading frame (ORF) was PCR amplified from this DNA with the primers AAV225(+) (GCGACAKTTTGCGACACCAYGTGG) and UNI-NC (CCANNNGGAATCGCAATGCCAAT). AAV12 cap was amplified with the primers UNI-C (5'-ATGNTNATNTGGTGGGAGGAGGG-3') and AAV1-4 polyA4400(–) (5'-CGAATNAAMCGGTTTATTGATTAAC-3'). The PCR fragments were subcloned using a TOPO TA cloning kit (Invitrogen), resulting in the plasmids pAAV12Rep and pAAV12Cap. Three clones that were capable of generating recombinant virus were sequenced with an ABI Prism 3100 genetic analyzer (Applied Biosystems, Foster City, CA) and FS dye terminator chemistry (Applied Biosystems).
Sequence analysis. The sequences of AAV12 rep and cap were compared to sequences in GenBank by using BLAST. DNA alignments were performed using the ClustalW multiple sequence alignment tool of the Biology Workbench Web-based software at http://seqtool.sdsc.edu/ (SDSC) and MacVector 7 (Accelrys, Burlington, MA).
Generation of recombinant virus and transduction of NCI60 cells. AAV12 vectors expressing a nuclear-localized green fluorescent protein (GFP) (rAAV12-GFP) were produced as described earlier (23). Briefly, 293T cells were cotransfected with pAAV2-NLS-GFP, pAAV12Rep, and pAAV12Cap and the adenovirus helper plasmid 449B (25). Recombinant particles were purified by CsCl gradient centrifugation. Production of rAAV2-GFP, rAAV4-GFP, and rAAV5-GFP has been described earlier (13). The DNase-resistant genome copy numbers of the vector stocks were determined by quantitative real-time PCR using the TaqMan system (Applied Biosystems) with probes specific to the cytomegalovirus promoter. AAV12-Epo expressing human erythropoietin (hEPO) was generated accordingly by packaging pAAVhEPO (27) with pAAV12Rep and pAAV12Cap. Production of AAV2-Epo was previously described (27). NCI60 cancer cells were transduced by plating 1 x 104 cells/well in a flat-bottom 96-well plate. Twenty-four hours after seeding, cells were transduced with 2 x 107 particles of rAAV4-GFP or rAAV12-GFP. GFP-positive cells were counted by flow cytometry at 24 h posttransduction.
Digestion of cell surface sialic acid. Exponentially growing COS cells were plated at a density of 5 x 103/well in a flat-bottom 96-well plate. Twenty-four hours after seeding, cells were incubated for 30 min with 0.1 or 1 mU of the broad-spectrum neuraminidase from Vibrio cholerae (Calbiochem, La Jolla, CA) to remove sialic acid. Cells were then washed with medium and transduced with 1 x 107 particles of rAAV2-GFP, rAAV4-GFP, rAAV5-GFP, and rAAV12-GFP. GFP expression, which serves as a surrogate marker for transduction, was detected 42 h later with a fluorescent cell counter (Guava PCA-96; Guava Technologies, Hayward, CA).
Heparin competition assay. COS cells were plated at a density of 5 x 103/well in a flat-bottom 96-well plate 1 day prior to transduction. Particles (2 x 107) of rAAV2-GFP or rAAV12-GFP were preincubated for 1 h at room temperature in medium supplemented with heparin (Sigma, St. Louis, MO). This preincubation mixture was then added and left on the cells for 1 h at 37°C. Cells were then washed with medium and incubated for an additional day before GFP expression was detected with a fluorescent cell counter (Guava Technologies).
Protease treatment. COS cells were cultured in a 15-cm-diameter culture dish until cells were 80% confluent. Cells were then washed twice with phosphate-buffered saline, scraped, resuspended in 10 ml phosphate-buffered saline, and incubated with 0.05% trypsin (Biosource) or mock medium (untreated control) for 15 min at 37°C. Cells were washed twice with medium and seeded at a density of 10,000 cells/well in a 96-well dish. After 1 h of culture at 37°C, cells were transduced with 2 x 107 particles of rAAV2-GFP or rAAV12-GFP. Transduction efficiency was determined 24 h later by GFP expression detection with a fluorescent cell counter (Guava Technologies).
Inhibition of glycolipid synthesis. COS cells were plated at a density of 5 x 103/well in a flat-bottom 96-well plate. Eight hours after seeding, cells were incubated for 40 h with the glucosylceramide synthase inhibitor DL-threo-1-phenyl-2-palmitoylamino-3-morpholino-1-propanol (PPMP) (Sigma, St. Louis, MO). Cells were then washed with medium and transduced with 2 x108 particles of rAAV2-GFP, rAAV12-GFP, or recombinant bovine AAV (rBAAV)-GFP for 1 h. GFP expression was analyzed 48 h after transduction by detection with a fluorescent cell counter (Guava Technologies).
Neutralization assay. COS cells were seeded at a density of 5 x 103/well in a 96-well plate 1 day before inoculation with 2 x 107 rAAV2-GFP, rAAV6-GFP, or rAAV12-GFP particles that were preincubated with serial dilutions of pooled human immunoglobulin Gs (IgGs) (Gamunex [Immune Globulin Intravenous 10%]; Bayer, Leverkusen, Germany) in medium for 1 h at room temperature. Cells were exposed for 1 h at 37°C and then washed with medium. Twenty-four hours after transduction, cells were analyzed for GFP expression by flow cytometry (Guava Technologies).
Inhibition of endosomal acidification. COS cells were seeded at a density of 5 x 103/well in a 96-well plate 1 day before inoculation. Cells were preincubated with either mock medium, 5 nM bafilomycin A1, or 10 mM or 20 mM NH4Cl for 30 min before being transduced for 1 h in inhibitor containing medium with 2 x 107 rAAV2-GFP and rAAV12-GFP particles. Twenty-four hours after transduction, cells were analyzed for GFP expression by flow cytometry (Guava Technologies).
Animal experiments. Animal studies were approved by the NIDCR Animal Care and Use Committee and the NIH Biosafety Committee. All procedures were conducted in accordance with IASP standards. Male BALB/c mice were obtained from the Division of Cancer Treatment, NCI, Bethesda, MD. Mice were administered 109 particles (suspended in 50 µl of 0.9% NaCl) of either an AAV2 vector encoding hEPO (AAV2-hEPO) (n = 3) or AAV12-hEPO (n = 2) by retrograde ductal delivery to both submandibular glands (3, 5). Two additional groups (n = 3 and n = 2) received equal doses of 109 particles (suspended in 50 µl of 0.9% NaCl) in both tibialis anterior muscles (two injection sites per muscle). Another group (n = 3) of naïve mice (administered 50 µl of 0.9% NaCl in each submandibular gland) was included. Mild anesthesia was induced in all participating animals with 1 µl/g body weight of 60 mg/ml ketamine (Phoenix Scientific, St. Joseph, MO) and 8 mg/ml xylazine (Phoenix Scientific) given intramuscularly. Blood samples were obtained by orbital bleeding at different time points. Hematocrits were determined using microhematocrit capillary tubes (Fisher Scientific, Pittsburgh, PA). Secretion of hEPO in mouse serum was determined by an enzyme-linked immunosorbent assay using commercial assay kits (R&D Systems, MN). The lower limit of detection was 0.6 mU/ml. The assays were performed according to the manufacturer's instructions.
Nucleotide sequence accession number. The sequence determined in this study has been deposited in GenBank under accession number DQ813647.
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Phylogenetic analysis. The evolutionary relationship among mammalian AAVs and AAV12 was analyzed by ClustalW alignments of genomic, Rep78, and VP1 sequences and plotted as a rooted phylogenetic tree (Fig. 1). The genome DNA sequence of AAV12 showed the highest homologies with those of AAV11 and AAV4, at 83% and 81%, respectively, whereas the lowest similarity was observed with that of AAV5 (63%). The Rep78 amino acid sequence of AAV12 demonstrated high homology to those of AAV4 and AAV11, with 89% to 88% identity, respectively, with the majority of the differences being located in the carboxy-terminal 100 amino acids. While these changes had little effect on the spliced Rep products (Rep68 and Rep40), they altered the activities of the unspliced proteins Rep78 and Rep52. For the capsid protein VP1, the highest homologies were observed with AAV11 and AAV4 (84% and 78%, respectively), whereas AAV5 VP1 displayed the lowest similarity, with 53% homology. Unlike for the Rep ORF, these mutations were scattered about the Cap ORF.
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FIG. 1. Evolutionary relationship among human and nonhuman primate AAVs and AAV12. The unrooted phylogenetic tree is based on merged ClustalW alignments of partial genome sequences and shows the relatedness of different AAVs; the lengths of the branches are proportional to the evolutionary distances between isolates.
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FIG. 2. rAAV12 COS cell transduction is not inhibited by heparin. COS cells were transduced with a preincubation mixture consisting of rAAV2-GFP or rAAV12-GFP, and heparin was added at the indicated concentrations. Transduction was analyzed by flow cytometry at 24 h postinoculation. Values are the means from three experiments; error bars represent standard deviations.
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FIG. 3. rAAV12 transduction is independent of cell surface sialic acid. COS cells were pretreated with Vibrio cholera neuraminidase to remove exposed sialic acid groups before the cells were transduced with rAAV2-GFP, rAAV4-GFP, rAAV5-GFP, or rAAV12-GFP. Gene transfer was determined by flow cytometry. Values are means compared to levels for untreated control cells from three experiments; error bars represent standard deviations.
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FIG. 4. rAAV12 transduction is protease sensitive and does not require glycosphingolipids. COS cells were proteolytically digested with trypsin (A) or treated with the glycosphingolipid synthesis inhibitor PPMP (B) prior to transduction with rAAV2-GFP, rAAV12-GFP, or rBAAV-GFP. Gene transfer in these cells was compared to that in untreated cultures. Values are means from three experiments; error bars represent standard deviations.
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FIG. 5. rAAV12 transduction requires endosomal acidification. COS cells were preincubated with 5 nM bafilomycin A1 or 10 mM or 20 mM ammonium chloride to inhibit endosomal acidification prior to transduction with rAAV2 or rAAV12. Transduction efficiencies in treated cells were compared to those in the untreated control. Values are means from three experiments; error bars represent standard deviations.
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FIG. 6. rAAV12 has a broad tropism. The transduction efficiency of rAAV12 was compared to that of rAAV4 in 13 human cancer cell lines. Cells were transduced with either rAAV12-GFP or rAAV4-GFP. Transduction was analyzed by flow cytometry 28 h after virus inoculation. Values are means from three experiments; error bars represent standard deviations.
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AAV12 was isolated from a simian virus 18 sample obtained from a Vervet monkey. The AAV12 capsid is divergent from that of human AAVs, and therefore, humans may be immunologically naïve to vectors based on AAV12. To test whether human serum has rAAV12-neutralizing activity, we assayed whether IgGs purified from pooled human plasma (IVIG) would block AAV12 transduction in vitro. The neutralization efficiency of IVIG against either rAAV2 or rAAV6 was compared to that against rAAV12 (Fig. 7). In this assay, human rAAV2 and simian rAAV6 displayed similar sensitivity to neutralization by purified pooled IgGs and transduction was inhibited by 50% at a concentration of 0.01 mg/ml. In contrast, rAAV12 was highly resistant to neutralization by pooled human IgGs, even at the highest concentration (0.67 mg/ml), a concentration where 100% inhibition of rAAV2 and rAAV6 was observed; moreover, rAAV12 transduction was reduced by only 30%. Therefore, AAV12 appears to be very resistant to human antibody-mediated neutralization and thus may be useful for in vivo gene therapy applications.
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FIG. 7. rAAV12 is highly resistant to neutralization by human IgGs. rAAV2-GFP, rAAV6-GFP, or rAAV12-GFP was incubated with pooled human IgGs prior to transduction of COS cells. Transduction was analyzed by flow cytometry at 24 h postinoculation. Transduction efficiencies relative to those of an untreated control were plotted. Values are means from three experiments; error bars represent standard deviations.
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TABLE 1. Antiserum cross-reactivitya
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FIG. 8. rAAV12 transduces salivary glands and skeletal muscles in vivo. Male BALB/c mice were administered 109 particles of either AAV2-hEPO or AAV12-hEPO by retrograde ductal delivery to either the submandibular glands or the tibialis anterior (two injection sites per muscle). Secretion of hEPO in mouse serum was determined 4 weeks after transduction by an enzyme-linked immunosorbent assay. Error bars represent standard deviations (n = 4).
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We have identified and characterized AAV12, the only AAV described so far that does not depend on either heparan sulfate or sialic acid for transduction. Initial experiments demonstrated that rAAV12-mediated gene transfer requires membrane-associated proteins, unlike BAAV, which depends on glycolipids (21). Further studies will be required to identify the attachment factor and receptor for AAV12. The unique virus-cell interaction results in a unique cell tropism. Lung-derived A549 cells and the colon cell line HCT15 were not permissive for rAAV4, which shares 78% capsid homology with AAV12, but could be transduced with rAAV12. While the initial virus-cell binding and uptake are atypical for an AAV, the mechanism of virus intracellular trafficking appears similar to that of AAV2. Our studies show that acidification of an endosomal compartment is required for transduction.
AAV12 has unique immunological properties. rAAV12 was highly resistant to neutralization by circulating antibodies from human serum and is immunologically distinct from both AAV4 and AAV2. Regions in the AAV12 capsid, which are not well conserved compared to those of other primate AAVs, could play a major role in the neutralization resistance, and even minor sequence changes have been reported to effect antibody neutralization activity (9). Further studies of the immunological properties will be necessary to help define the exact epitopes that are recognized by human neutralizing antibodies. The unusual virus-cell interaction of rAAV12, together with a high resistance to neutralization by human serum, renders rAAV12 an interesting candidate for gene transfer applications. The feasibility of rAAV12 as a vector was demonstrated in a mouse model. Muscle and salivary glands were transduced, demonstrating the utility of AAV12 as a vector for gene transfer in vivo; however, a more extensive analysis of different tissue types will be required to identify a unique application for AAV12 compared with those for other AAV vectors.
The distinct transduction pathway for this isolate compared to those for other AAVs highlights the individuality of this isolate and suggests that identification of its receptor and coreceptor will be important in understanding the capsid structures necessary for parvovirus infection. Furthermore, receptor identification will allow for targeting of AAV12 to a specific gene transfer application in which its unique transduction activity can be fully utilized.
This research was supported by the NIDCR Intramural Research Program of the NIH.
Published ahead of print on 28 November 2007. ![]()
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2,3 and
2,6 N-linked sialic acids facilitate efficient binding and transduction by adeno-associated virus types 1 and 6. J. Virol. 80:9093-9103.
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