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Journal of Virology, January 2004, p. 733-740, Vol. 78, No. 2
0022-538X/04/$08.00+0 DOI: 10.1128/JVI.78.2.733-740.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.
and B. Lupiani
Avian Disease and Oncology Laboratory, Agricultural Research Service, U.S. Department of Agriculture, East Lansing, Michigan 48823
Received 11 August 2003/ Accepted 6 October 2003
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132); nine copies of the 132-bp repeats, rMd5(9-132); and nine copies of the 132-bp repeats inserted in the reverse orientation, rMd5(rev9-132). After two passages in cell culture, wild-type Md5, rMd5, and rMd5(
132) were stable. However, rMd5(9-132) and rMd5(rev9-132) contained a population of viruses that contained from 3 to over 20 copies of the repeats. A major 1.8-kb mRNA, containing two copies of the 132-bp repeat, was present in wild-type Md5 and rMd5 but was not present in rMd5(
132), rMd5(9-132), rMd5(rev9-132), or an attenuated MDV. Instead, the RNAs transcribed from the 132-bp repeat region in rMd5(9-132) and rMd5(rev9-132) closely resembled the pattern of RNAs transcribed in attenuated MDVs. When inoculated into susceptible day-old chicks, all viruses produced various lesions. Thus, expansion of the number of copies of 132-bp repeats, which accompanies attenuation, is not sufficient in itself to attenuate pathogenic MDVs. |
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Three MDV serotypes are recognized. Serotype 1 viruses (MDV-1) include the oncogenic MDVs and their cell culture-attenuated variants. The serotype 2 MDVs (MDV-2) include the naturally occurring nononcogenic chicken MDVs, while the nononcogenic turkey herpesviruses (HVT) are classified as serotype 3 viruses (3). The three MDV serotypes have distinctly different restriction endonuclease (RE) patterns (9). However, their genomes are colinear, and they share significant DNA homology (1, 11, 14, 22) as well as several cross-reacting antigens (10), suggesting a common evolutionary origin.
Although it is not known how MDV-1 induces lymphomas, cellular transformation does not appear to occur by a "hit-and-run" mechanism. The viral genome either is maintained as a covalently closed circular episome (21) or is randomly integrated into the chicken chromosome (6). The nature of the T-cell lymphomas; their short latency period; and the existence of oncogenic, attenuated, and nononcogenic MDVs suggest the presence of an MDV-1 oncogene(s). Despite their acute oncogenic nature, MDV-1 viruses can be easily attenuated through serial passages in cell culture. Cell culture-induced attenuation always occurs concurrently with the expansion of a unique 132-bp fragment located in the inverted repeat regions flanking the unique long region of the MDV genome (TRL and IRL in Fig. 1) (20). No comparable 132-bp repeat region exists in either MDV-2 or HVT (19). Concurrently with genomic expansion, a 1.8-kb RNA that contains the 132-bp repeat region within it is altered (13). It has been suggested that the expansion of this region, resulting in head-to-tail concatemers of the 132-bp region, disrupts the 1.8-kb RNA that is essential for oncogenicity, thereby resulting in attenuation (2). To test the hypothesis that expansion of the 132-bp repeat causes attenuation, we constructed recombinant MDVs in which the two copies of the repeats in an oncogenic virus were replaced with nine copies of the repeats.
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FIG. 1. Overlapping cosmid clones of Md5. The MDV-1 viruses contain two copies of a 132-bp repeat, located in two separate parts of the genome. One pair of repeats is in the terminal repeat region (TRL) adjacent to the unique long region (UL). The other pair of repeats is inverted and located in the internal repeat (IRL) at the other end of the UL. The five overlapping cosmid clones are shown below the MDV genome and are aligned with the regions of the MDV genome from which they were cloned. The small bar in SN5 and A6 represents the location of the 132-bp repeats in these cosmids and their corresponding location in the TRL and IRL.
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Cosmids.
The five cosmids (SN5, P89, SN16, A6, and B40) that span the Md5 genome are shown in Fig. 1, and their construction was previously described (16). The RecA-assisted restriction endonuclease (RARE) cleavage procedure was used to delete the two copies of the 132-bp repeat present in SN5 and A6 (7). Briefly, two oligonucleotides were constructed (oligonucleotide 1, 5'-GGA GAA AGT ATG TCG ATT TTA AAT GTA GTT-3', and oligonucleotide 2, 5'-ACA AG TTC GGT AAC GCT TTC GAT TAG A-3') that anneal and protect the two TaqI RE sites that flank the 132-bp repeats. The RARE cleavage reaction mixture consists of 8 µl of 5x RARE buffer (125 mM Tris acetate [pH 7.85], 20 mM magnesium acetate, 2.5 mM spermidine, 2.0 mM dithiothreitol), 1 µl of 5 mM EGTA, 4 µl of 10x ATP
-S (11 mM ADP, 3 mM ATP
-S), 1 µl of oligonucleotide 1 (1 µg/µl), 1 µl of oligonucleotide 2 (1 µg/µl), 5 µl of RecA (2 µg/µl), and 1 µl of cosmid DNA at 1 µg/µl. The mixture was incubated for 30 min at 37°C. After being annealed with the oligonucleotides, both cosmids were methylated with TaqI methylase (2 µl of TaqI methylase, 18 µl of acetylated bovine serum albumin [20 µg/µl], and 2 µl of S-adenosylmethionine reagent [3.75 µl of 32 mM S-adenosylmethionine, 46.25 µl of water]) for 30 min at 37°C and 30 min at 50°C, phenol extracted, ethanol precipitated, and resuspended in water. The cosmids were digested with TaqI, religated (overnight at 14 to 16°C with T4 DNA ligase), packaged (Gigapack III gold packaging extract; Stratagene, La Jolla, Calif.), and introduced into HB101 Escherichia coli cells. The resulting cosmids were designated SN5(
132) and A6(
132). By deleting everything between the two flanking TaqI sites, 95 bases on one side and 52 bases on the other side of the repeats were also deleted. The procedure is summarized in Fig. 2.
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FIG. 2. Generation of deletion in cosmid clones. The figure shows an overview of the RARE cleavage procedure used to delete the 132-bp repeats in SN5 and A6. The short lines numbered 1 and 2 represent oligonucleotides 1 and 2, used to protect two TaqI sites. The two TaqI sites shown flank a 411-bp fragment of cosmid DNA that contains two copies of the 132-bp repeat.
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132) and A6(
132). Briefly, we used the same RARE cleavage procedure as used to generate SN5(
132) and A6(
132), except that we began with the cosmids SN5(
132) and A6(
132) and used the protecting oligonucleotide 3 (5'-TGG GAG AAA GTA TGT CGA TTA GAA ACT G-3') to block methylation of the newly created TaqI site. The resulting cosmids were designated SN5(9-132) and A6(9-132) for the two cosmids with the nine copies inserted in the correct orientation and SN5(rev9-132) and A6(rev9-132) for the two cosmids with the nine copies inserted in the reverse orientation. For all the recombinant cosmids, the region in and around the 132-bp repeat region was DNA sequenced in order to confirm that the cloning occurred at the correct insertion site and that no rearrangements had been generated.
Generation of recombinant MDVs.
To generate infectious virus, SN5, P89, SN16, A6, and B40 were cotransfected into DEF by the standard calcium phosphate transfection procedure. Briefly, 0.5 µg of each cosmid was suspended in 1 ml which contained 250 µl of water, 250 µl of 0.5 M calcium chloride, and 500 µl of 2x HEPES buffer (pH 7.05). After incubation for 10 to 15 min, the calcium chloride-precipitated DNA was gently added to DEF in a 60-mm-diameter tissue culture dish containing 4 ml of F-10 medium supplemented with 5% fetal bovine serum and incubated for 4 h at 37°C. The calcium phosphate tissue culture medium was removed, and 5 ml of glycerol solution (15% glycerol in water) was added for 2 to 3 min. The glycerol was removed, and the cells were washed twice with phosphate-buffered saline and refed with Leibovitz's L-15 medium plus McCoy 5A medium (1:1), supplemented with 5% fetal bovine serum. The next day, the cultures were fed with fresh tissue culture medium and were passaged 3 to 4 days later. Plaques usually appeared in 1 to 2 weeks and were expanded following another cell culture passage. The resulting virus was designated rMd5. The 132-bp-deletion virus and the MDVs with nine copies of the 132-bp repeat were generated in the same manner but with use of the appropriately mutated SN5 and A6 cosmids. These recombinant viruses were designated rMd5(
132), rMd5(9-132), and rMd5(rev9-132), respectively.
DNA and RNA analysis. The standard procedure of guanidinium thiocyanate-phenol extraction, as described by Chomczynski and Sacchi (5), was used to extract RNA from heavily infected DEF. The extraction of DNA from infected DEF or tumor tissue followed the standard proteinase K phenol-chloroform extraction protocols (18).
Southern blotting was performed by separating RE-digested DNAs on a 1% agarose Tris-borate-EDTA gel, transferring them to a nylon membrane, and probing them with [32P]dCTP randomly primed probes. Hybridization and autoradiography were carried out using standard protocols. Northern blotting was performed similarly except that the RNA was electrophoresed in a 1% agarose gel containing 2% formaldehyde (18).
Immediately after plates with recombinant MDV plaques had been passaged once more to generate virus stocks, the DNA was extracted from a portion of each virus stock, digested with BamHI, and Southern blotted with a mixture of all five of the cosmids that had been randomly prime labeled with [32P]dCTP. No unexpected rearrangements or deletions were ever detected in any of the recombinant MDVs.
Growth curves. Each virus was plated on DEF to study its in vitro growth characteristics. Briefly, 100 PFU was inoculated onto freshly seeded DEF in 60-mm-diameter dishes. On days 0, 1, 2, 3, 5, and 7, the infected cultures were trypsinized, diluted, and seeded onto fresh DEF in triplicate. Visible plaques were counted 7 to 8 days later.
In vivo experiments. Day-old 15 x 7 White Leghorn chickens (F1 progeny of ADOL line 15I5 x 71 chickens) were inoculated intra-abdominally with 1,000 PFU of virus and housed in Horsfall-Bauer isolators for the duration of the experiment. Each Horsfall-Bauer isolator contained 13 inoculated birds that were from dams that had been vaccinated with HVT and consequently contained maternal antibodies (MAb+). Each isolator also contained four noninoculated monitor chickens that were obtained from nonvaccinated dams and were maternal antibody free (MAb-). All birds that died during the course of the experiment or were terminated at 8 weeks were necropsied. Any gross tumors and abnormalities were recorded. Suspicious brachial and sciatic nerves were also examined for histological lesions for confirmation. The data are shown in Table 1.
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TABLE 1. Recombinant viruses in susceptible chickensa
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132), A6(
132), SN5(9-132), and A6(9-132) cosmids had the expected shift in their RE pattern that corresponds to either a deletion of the repeats [smaller fragment in SN5(
132) and A6(
132) of Fig. 3] or the replacement of the two copies with nine copies [larger fragment in SN5(9-132) and A6(9-132) of Fig. 3]. Figure 3 also demonstrates that the cosmids are clonal and do not contain mixtures of mutated and nonmutated cosmids. A similar assay with SN5(rev9-132) and A6(rev9-132) confirmed that these cosmids were also clonal and contained the expected insertion (data not shown).
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FIG. 3. HindIII digestion of cosmids. The DNA from the cosmids was extracted, digested with HindIII, and separated on an agarose gel. The arrows point to the 4.7-kb fragment in SN5 and A6 that contains two copies of the 132-bp repeat. Numbers at left of each panel indicate molecular size in kilobases.
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132) viruses have no 132-bp repeats, we would not expect passage of rMd5(
132) in cell culture to alter this region. As expected, our two independently constructed rMd5(
132) viruses lacked any 132-bp repeats (Fig. 4) and a couple of passages in cell culture did not appear to generate any alterations. However, our two independently generated recombinant MDVs that had their two copies of the 132-bp repeats replaced with nine copies of the 132-bp repeats were not stable. In the two cell culture passages required to generate enough virus to analyze, both rMd5(9-132) viruses generated a mixture of viruses that contained anywhere from 3 to over 20 copies of the 132-bp repeat. The 132-bp repeat pattern of both rMd5(9-132) viruses appeared to be identical to the pattern of repeats typically seen in attenuated MDVs (Fig. 4). The rMd5(rev9-132) virus, with the nine copies of repeats inserted in the reverse orientation, was also unstable, generating viruses with a variable number of copies of the 132-bp repeat. The expansion of the number of copies of the 132-bp repeats appears to be a natural consequence of passaging MDVs in cell culture. However, replicating viruses with two copies generate viruses with three or more copies only very slowly. Conversely, MDVs with multiple copies of the repeats (nine copies in our experiment) rapidly generated a population of viruses that contained anywhere from 3 to over 20 copies of the repeats. The fact that the same expansion occurs even when the nine copies of the 132-bp repeats are inserted in the reverse orientation suggests that the generation of multiple copies of head-to-tail repeats is a physical consequence of the tandem direct repeats and not due to any possible coding regions. The nearby MDV origin of replication, located 226 bases from the beginning of the repeats, may also contribute to the expansion process. Regardless of the mechanism, cell culture replication of rMd5(9-132) and rMd5(rev9-132) rapidly results in a population of viruses that appear to be identical to what is seen when wild-type MDVs are repeatedly passaged in cell culture.
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FIG. 4. Southern blot of recombinant MDV. DNA from MDV-infected DEF was digested with TaqI, Southern blotted, and probed with the 132-bp repeats. Viral names that are followed by an A, B, or C represent separate independently generated recombinants. Positions of two, three, and nine copies of the 132-bp repeat are shown on the right. Numbers at left are molecular sizes in kilobases.
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132) viruses lack any RNA that contains 132-bp repeats. Deletion of the 132-bp repeats does not entirely eliminate RNA from this region. RNA slightly smaller than the 1.8-kb RNA can still be detected in rMd5(
132) (Fig. 5C). Figure 5B is a control blot demonstrating that nondegraded RNA was isolated from all the virus-infected cells.
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FIG. 5. Northern blot of RNA from infected DEF. RNA extracted from MDV-infected DEF was Northern blotted and probed with a labeled probe from the 132-bp repeat region (A), the gB gene (UL27) (B), or an 834-bp fragment that spans the 132-bp repeat region (C). The arrows in panels A and C point to the 1.8-kb RNA. Numbers at left of panel A and at right of panels B and C are molecular sizes in kilobases.
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Biological characterization of recombinant MDVs. Deletions or modifications in the 132-bp repeats (including 95 and 52 bases of flanking DNA) did not adversely affect the ability of the recombinant MDVs to grow in DEF. All recombinants grew as well as did wild-type Md5 (Fig. 6).
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FIG. 6. Growth curve of recombinant MDVs in DEF. Fresh DEF were infected with the indicated viruses. On days 0, 1, 2, 3, 5, and 7, cells were trypsinized and plated on fresh DEF. The resulting plaques were counted 7 to 8 days later. Each point represents the average from three plates.
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132) died at day 45 with tumors in the heart, ovary, and lung. At day 57, the remaining chickens were euthanized and necropsied. At necropsy, we considered any brachial or sciatic nerve enlargements to indicate positive nerve involvement. Later histological examination of these tissues confirmed the earlier diagnosis. Lesions induced by the different virus inocula are summarized in Table 1. As expected, rMd5 was pathogenic, generating assorted tumors, thymic atrophy, and nerve involvement. rMd5(
132), lacking any 132-bp repeats, was also pathogenic, generating a similar pattern of pathological lesions, albeit at a slightly lower frequency. Although rMd5(9-132) has a 132-bp repeat DNA and RNA pattern that appears to be identical with the pattern of DNA and RNA in attenuated MDVs, rMd5(9-132) was also pathogenic. However, the incidence of tumors and thymic or bursal atrophy was significantly less (P < 0.01) than what rMd5 induced. rMd5(rev9-132) induced the same spectrum and incidence of lesions as did rMd5(9-132), suggesting that reversing the 132-bp repeats does not disrupt RNA transcription any more than does having the repeats inserted in the correct orientation. None of the 132-bp repeat modifications affected the ability of the viruses to spread horizontally. However, the fact that MDVs with either no 132-bp repeats or nine copies of the repeats are still pathogenic clearly indicates that the expansion of the 132-bp repeat region is not sufficient by itself to attenuate MDV. In a preliminary experiment, we isolated spleen cells from 8-day-old infected chicks and plated these cells on DEF in culture. By counting the resulting MDV plaques, we found that, in the early cytolytic infection at 8 days postinoculation, we were able to isolate more rMd5 viruses than either rMd5(9-132) or rMd5(rev9-132) viruses. Although this preliminary experiment needs to be repeated, the rMd5(9-132) and rMd5(rev9-132) viruses may be less pathogenic because they do not replicate as efficiently in vivo as rMd5. Furthermore, rather than being strictly associated with pathogenicity, the 1.8-kb mRNA may be more involved in somehow enhancing the replication of MDV in its natural host, the chicken, in contrast to its unnatural tissue culture cell host. Lending credence to this hypothesis is the well-recognized phenomenon that pathogenic viruses, with two copies of the 132-bp repeats, quickly expand the number of copies when the virus is passaged repeatedly in cell culture. Typically, MDVs with expanded copies of the 132-bp repeat replicate more efficiently in cell culture than do viruses with two copies of the repeats. Conversely, when an attenuated MDV with multiple copies of the repeats is repeatedly back-passaged through chickens, the MDVs become more homogeneous, with few viruses containing more than two or three copies of the 132-bp repeat (data not shown). In addition, viruses with two or three copies of the repeats replicate more efficiently in chickens than do viruses with multiple copies of the repeats. Together, these observations suggest that there is strong selective pressure in the chicken to maintain two copies of the 132-bp repeat and consequently to maintain the 1.8-kb mRNA. This selective pressure is not present in cell culture.
To determine whether tumors induced by rMd5(9-132) or rMd5(rev9-132) contained two copies of the repeats, we isolated DNA from several tumors and digested the DNA with TaqI. A Southern blot of the digested DNA is shown in Fig. 7. In two birds with tumors induced by rMd5, one with an ovarian tumor and the other with a tumor on the heart, the rMd5 remained as a homogenous population and apparently contained only two copies of the repeats. However, tumors induced by either rMd5(9-132) or rMd5(rev9-132) contained a heterogenous population of viruses containing between 3 copies [spleen tumor from bird 4, inoculated with rMd5(9-132)] and over 16 copies [ovarian tumor from bird 3, also inoculated with rMd5(9-132)]. Regardless, none of the tumors from birds inoculated with either rMd5(9-132) or rMd5(rev9-132) contained MDVs with just two copies of the repeats. Thus, the tumors induced by either rMd5(9-132) or rMd5(rev9-132) were not the result of amplifying or selecting for MDVs with two copies of the repeats. Interestingly, the population of viruses present in the tumors varies from bird to bird and sometimes varies between two tumors in the same bird. In Fig. 7, the two tumors from bird 6, rMd5(rev9-132) 6 (heart) and rMd5(rev9-132) 6 (ovary), have different populations of viruses with different copy number of repeats. In contrast, birds 5 and 8 both had two tumors and within each bird the population of viruses appeared to be the same. It is possible that the tumors in birds 5 and 8 arose from a single transforming event whereas the two tumors in bird 6 arose from two separate transforming events.
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FIG. 7. Southern blot of DNA extracted from tumors. Upon death or termination of the animal experiment, DNA was extracted from gross tumors and digested with TaqI. A Southern blot of the RE-digested DNA was probed with a [32P]dCTP-labeled 132-bp repeat fragment. Each lane is labeled with the name of the inoculated virus, followed by the bird number and the tumor source. The positions of two and nine copies of the 132-bp repeat are shown on the right. Numbers at left are molecular sizes in kilobases.
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This study was partially supported by a grant awarded to R.F.S. from the USDA National Research Initiative Competitive Grants Program (9702235).
Present address: Department of Pathobiology, College of Veterinary Medicine, Texas A&M University, College Station, TX 77843. ![]()
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