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1.
DNA Cell Biol ; 20(8): 499-508, 2001 Aug.
Article in English | MEDLINE | ID: mdl-11560782

ABSTRACT

As novel anti-HIV agents, the G-tetrad-forming oligonucleotides have been explored for their structure-activity relations with regard to inhibition of integrase (IN) (N. Jing, Expert Opin. Investig. Drugs (2000) 9, 1777-1785). We have now developed two families of G-quartet oligonucleotides: T40217-T40222, with potential formation of a tail-to-tail G-quartet dimer, and T40224-T40227, with phosphorothioate (PT) linkages in the guanine loops. The results obtained from biophysical measurements and the assays of the inhibition of HIV-1 IN and virus replication demonstrated that an increase in the length of the G-quartet structure from a monomer (15A) to a tail-to-tail dimer (47A) does not distinctly disrupt the inhibition of HIV-1 IN activity or the inhibition of HIV-1 replication in cell cultures. G-quartet oligonucleotides were observed to induce molecular aggregation of HIV-1 IN and interrupt the binding of viral DNA to HIV-1 IN. Also, PT substitutions did not confer any advantages compared with the regular phosphodiesters for the inhibition of HIV-1 replication by intramolecular G-quartets. The G-quartet motif is the primary requirement for the remarkable nuclease resistance and pronounced biological efficacy of these oligonucleotides.


Subject(s)
HIV Integrase Inhibitors/pharmacology , HIV Integrase/metabolism , HIV-1/drug effects , Oligodeoxyribonucleotides/pharmacology , Cell Line , HIV Integrase/genetics , HIV Integrase Inhibitors/chemistry , HIV-1/enzymology , HIV-1/genetics , HIV-1/physiology , Humans , Microbial Sensitivity Tests , Nucleic Acid Conformation , Oligodeoxyribonucleotides/chemistry , Structure-Activity Relationship , Virus Replication/drug effects
2.
Antimicrob Agents Chemother ; 45(2): 393-400, 2001 Feb.
Article in English | MEDLINE | ID: mdl-11158731

ABSTRACT

We have identified and characterized a potent new nonnucleoside reverse transcriptase (RT) inhibitor (NNRTI) of human immunodeficiency virus type 1 (HIV-1) that also is active against HIV-2 and which interferes with virus replication by two distinct mechanisms. 1-(3-Cyclopenten-1-yl)methyl-6-(3,5-dimethylbenzoyl)-5-ethyl-2,4-pyrimidinedione (SJ-3366) inhibits HIV-1 replication at concentrations of approximately 1 nM, with a therapeutic index of greater than 4 x 10(6). The efficacy and toxicity of SJ-3366 are consistent when evaluated with established or fresh human cells, and the compound is equipotent against all strains of HIV-1 evaluated, including syncytium-inducing, non-syncytium-inducing, monocyte/macrophage-tropic, and subtype virus strains. Distinct from other members of the pharmacologic class of NNRTIs, SJ-3366 inhibited laboratory and clinical strains of HIV-2 at a concentration of approximately 150 nM, yielding a therapeutic index of approximately 20,000. Like most NNRTIs, the compound was less active when challenged with HIV-1 strains possessing the Y181C, K103N, and Y188C amino acid changes in the RT and selected for a virus with a Y181C amino acid change in the RT after five tissue culture passages in the presence of the compound. In combination anti-HIV assays with nucleoside and nonnucleoside RT and protease inhibitors, additive interactions occurred with all compounds tested with the exception of dideoxyinosine, with which a synergistic interaction was found. Biochemically, SJ-3366 exhibited a K(i) value of 3.2 nM, with a mixed mechanism of inhibition against HIV-1 RT, but it did not inhibit HIV-2 RT. SJ-3366 also inhibited the entry of both HIV-1 and HIV-2 into target cells. On the basis of its therapeutic index and multiple mechanisms of anti-HIV action, SJ-3366 represents an exciting new compound for use in HIV-infected individuals.


Subject(s)
HIV Reverse Transcriptase/antagonists & inhibitors , HIV-1/drug effects , HIV-2/drug effects , Pyrimidinones/pharmacology , Reverse Transcriptase Inhibitors/pharmacology , Drug Resistance, Microbial , HIV Reverse Transcriptase/genetics , HIV-1/genetics , HIV-2/genetics , HeLa Cells , Humans , Mutation/genetics
3.
Curr Eye Res ; 23(1): 20-32, 2001 Jul.
Article in English | MEDLINE | ID: mdl-11821982

ABSTRACT

PURPOSE: To determine the sequences of the mouse and bovine interphotoreceptor retinoid-binding protein (IRBP) 5' flanking regions and whether these 5' flanking regions contain functional IRBP promoter activity in multiple cell types using both quantitative and statistical analyses. METHODS: We sequenced the bovine and mouse 5' flanking regions of the IRBP gene and compared these sequences to the human gene sequence. To test for functional activity of this region, we used the same DNA construct, p1783, in four different cell types. Mobility shift, DNase footprints, and southwestern blots were used to determine where nuclear protein complexes bind the IRBP 5' flanking region. RESULTS: The 5' flanking regions of the bovine, human, and mouse IRBP genes exhibit sequence similarity in regions immediately adjacent to the start of transcription (roughly 350 bases in length) and also over a 220 base sequence about 1.25 to 1.50 kb upstream of the transcription start site. Two different statistical approaches showed that the IRBP 5' flanking region possesses promoter activity in four different cell types. By using mobility shift, DNase I-protection experiments, and southwestern blotting, a region of about 45 bases at position -300 was identified that specifically binds a protein from the nuclei of bovine retina and Y79 cells. CONCLUSIONS: Specific DNA binding events are an essential part of IRBP promoter activity. The conservation of sequences far upstream of the transcription start suggest that unknown physiological processes remain to be understood in IRBP transcriptional regulation.


Subject(s)
5' Flanking Region/genetics , Eye Proteins/genetics , Promoter Regions, Genetic/genetics , Retinol-Binding Proteins/genetics , Animals , Base Sequence , Blotting, Southern , Cattle , DNA Footprinting , Gene Expression , Mice , Mice, Inbred C57BL , Mice, Transgenic , Molecular Sequence Data , Retina/cytology , Sequence Analysis, DNA , Sequence Homology, Nucleic Acid , Transfection , Tumor Cells, Cultured
4.
J Biol Chem ; 275(5): 3421-30, 2000 Feb 04.
Article in English | MEDLINE | ID: mdl-10652335

ABSTRACT

Recently, we have demonstrated that T30695, a G-tetrad-forming oligonucleotide, is a potent inhibitor of human immunodeficiency virus, type I (HIV-1) integrase and the K(+)-induced loop folding of T30695 plays a key role in the inhibition of HIV-1 integrase (Jing, N., and Hogan, M. E. (1998) J. Biol. Chem. 273, 34992-34999). Here we have modified T30695 by introducing a hydrophobic bulky group, propynyl dU, or a positively charged group, 5-amino dU, into the bases of T residues of the loops, and by substitution of the T-G loops by T-T loops. Physical measurements have demonstrated that the substitution of propynyl dU or 5-amino dU for T in the T residues of the loops did not alter the structure of T30695, and these derivatives also formed an intramolecular G-quartet structure, which is an essential requirement for anti-HIV activity. Measured IC(50) and EC(50) values show that these substitutions did not induce an apparent decrease in the ability to inhibit HIV-1 integrase activity and in the inhibition of HIV-1 replication in cell culture. However, the substitution of T-T loops for T-G loops induced a substantial decrease in both thermal stability and anti-HIV activity. The data analysis of T30695 and the 21 derivatives shows a significant, functional correlation between thermal stability of the G-tetrad structure and the capacity to inhibit HIV-1 integrase activity and between thermal stability of the G-tetrad structure and the capacity to inhibit HIV-1 replication, as assessed with the virus strains HIV-1 RF, IIIB, and MN in cell culture. This relationship between thermostability and activity provides a basis for improving the efficacy of these compounds to inhibit HIV-1 integrase activity and HIV-1 replication in cell culture.


Subject(s)
Acquired Immunodeficiency Syndrome/drug therapy , Anti-HIV Agents/chemistry , Drug Design , HIV Integrase Inhibitors/chemistry , HIV-1/drug effects , Oligonucleotides/chemistry , Anti-HIV Agents/pharmacology , HIV Integrase Inhibitors/pharmacology , HIV-1/physiology , Humans , Oligonucleotides/pharmacology , Structure-Activity Relationship , Temperature , Virus Replication/drug effects
5.
Antivir Chem Chemother ; 10(3): 115-9, 1999 May.
Article in English | MEDLINE | ID: mdl-10431610

ABSTRACT

2'-Fluoro-2'3'-dideoxyarabinosyladenine (F-ddA), a nucleoside reverse transcriptase inhibitor of human immunodeficiency virus (HIV) replication, is currently being evaluated in clinical trials. Future monotherapy for the treatment of HIV is unlikely owing to the rapid emergence of drug-resistant viruses, so F-ddA was evaluated in combination with a variety of mechanistically diverse inhibitors of HIV replication. Such in vitro studies provide insights into whether certain drug combinations yield synergistic antiviral activity or, more importantly, antagonistic antiviral activity or synergistic cytotoxicity. F-ddA exhibited synergistic antiviral interactions with representatives of each of the major classes of anti-HIV compounds, including other nucleoside reverse transcriptase inhibitors, non-nucleoside reverse transcriptase inhibitors and protease inhibitors. Greatest levels of synergistic interaction were detected when F-ddA was used in combination with the non-nucleoside compounds nevirapine and costatolide, the nucleoside analogues and costatolide, the nucleoside analogues AZT, ddC and 3TC and the protease inhibitors ritonavir and nelfinavir. No evidence of either combination toxicity or antagonistic antiviral activity was detected with any of the tested compounds.


Subject(s)
Anti-HIV Agents/pharmacology , HIV-1/drug effects , Reverse Transcriptase Inhibitors/pharmacology , Vidarabine/analogs & derivatives , Virus Replication/drug effects , Anti-HIV Agents/toxicity , Cells, Cultured , Drug Synergism , Humans , Protease Inhibitors/pharmacology , Protease Inhibitors/toxicity , Reverse Transcriptase Inhibitors/toxicity , Vidarabine/pharmacology , Vidarabine/toxicity
6.
Virology ; 233(2): 339-57, 1997 Jul 07.
Article in English | MEDLINE | ID: mdl-9217057

ABSTRACT

cDNAs encoding the bovine immunodeficiency virus (BIV) transactivator gene (tat) were cloned from virally infected cells and characterized. BIV expresses two distinct tat mRNAs composed of three exons that are derived by alternative splicing. The BIV tat mRNA splice variants encode Tat proteins of 103 (Tat103) and 108 (Tat108) amino acids. The Tat103 coding region is specified only by exon 2, while that of Tat108 is specified by a truncated exon 2 and the first 30 nt of exon 3. Thus, the first 98 amino acids of each Tat are identical, and have amino terminal, cysteine-rich, conserved core, basic, and carboxyl-terminal domains similar to Tats encoded by primate lentiviruses. BIV-infected bovine cells express a 14-kDa phosphorylated Tat protein identical in size to recombinant Tat expressed in bacteria. BIV Tat was shown to localize exclusively in the nucleoli of virally infected and Tat-expressing cells. Reporter gene assays indicated that Tat103 and Tat108 can strongly transactivate the BIV long terminal repeat (LTR) in virally permissive canine Cf2Th and nonpermissive HeLa and mouse NIH 3T3 cells, but not in permissive lapine EREp cells. However, an intact BIV tat gene is required for viral replication in both Cf2Th and EREp cells. Strong LTR activation by BIV Tat requires a TAR (transactivation responsive) element delimited by viral nt +1 to +31 and the Tat basic domain. BIV Tat strongly cross-transactivates the HIV-1 LTR in a TAR-dependent manner in Cf2Th, but not in EREp, HeLa, or NIH 3T3 cells. In contrast, strong, TAR-dependent cross-transactivation of the BIV LTR by HIV-1 Tat could not be demonstrated in any of these cell types. In Cf2Th cells Tat108 effects a moderately stronger transactivation of the BIV LTR than Tat103, indicative of a functional difference in BIV Tat proteins encoded by the mRNA splice variants. The present studies demonstrate that BIV Tat parallels the primate lentiviral Tats in structure and biochemistry but is not interchangeable with the latter.


Subject(s)
Gene Products, tat/genetics , Immunodeficiency Virus, Bovine/genetics , 3T3 Cells , Amino Acid Sequence , Animals , Base Sequence , Cattle , Cell Line , Cell Nucleolus , Cloning, Molecular , DNA, Complementary , DNA, Viral , Dogs , Gene Products, tat/analysis , HIV Long Terminal Repeat , HIV-1 , HeLa Cells , Humans , Immunodeficiency Virus, Bovine/physiology , Lentivirus/genetics , Mice , Molecular Sequence Data , Nucleic Acid Conformation , Phosphorylation , Repetitive Sequences, Nucleic Acid , Trans-Activators , Transcriptional Activation , Virus Replication , tat Gene Products, Human Immunodeficiency Virus
7.
AIDS Res Hum Retroviruses ; 13(9): 789-96, 1997 Jun 10.
Article in English | MEDLINE | ID: mdl-9171223

ABSTRACT

A series of compounds related to oxathiin carboxanilide has been identified as nonnucleoside reverse transcriptase inhibitors (NNRTIs) of HIV-1, and structure-activity relationships have been described (Buckheit RW, et al.: Antimicrob Agents Chemother 1995;39:2718-2727). Three new analogs (UC040, UC82, and UC781) inhibited laboratory and clinical isolates of HIV-1, including isolates representative of the various clades of HIV-1 found worldwide, in both established and fresh human cells. Virus isolates with the amino acid changes L100I, K103N, V106I, and Y181C in the reverse transcriptase were partially resistant to these compounds. However, UC781 inhibited these virus isolates at low nontoxic concentrations, presenting a broad in vitro therapeutic index. As with other NNRTIs, each of the compounds synergistically interacted with AZT to inhibit HIV-1 replication. UC781 possesses a favorable pharmacokinetic profile in mice with a high level of oral bioavailability. Plasma concentrations reached maximum levels within 2 to 4 hr of oral administration and remained in excess of those required for in vitro anti-HIV activity for at least 24 hr after a single oral dose. When evaluated in a murine hollow fiber implant model of HIV infection, UC781 dosed orally or parenterally was able to suppress HIV replication completely in this model system, providing evidence of the in vivo efficacy of the compound.


Subject(s)
Anilides/pharmacology , Anilides/pharmacokinetics , Anti-HIV Agents/pharmacology , Anti-HIV Agents/pharmacokinetics , Furans/pharmacology , Furans/pharmacokinetics , HIV-1/drug effects , HIV-2/drug effects , Reverse Transcriptase Inhibitors/pharmacokinetics , Administration, Oral , Animals , Biological Availability , HIV Core Protein p24/analysis , HIV Reverse Transcriptase/antagonists & inhibitors , HIV Reverse Transcriptase/genetics , HIV-1/enzymology , HIV-1/genetics , Humans , Male , Metabolic Clearance Rate , Mice , Mice, Inbred Strains , Microbial Sensitivity Tests , Point Mutation , Reverse Transcriptase Inhibitors/pharmacology , Thioamides
8.
Leukemia ; 11 Suppl 3: 89-92, 1997 Apr.
Article in English | MEDLINE | ID: mdl-9209308

ABSTRACT

Oxathlin carboxanilide analogs (UC) and alpha APA, compounds recognized as nonnucleoside reverse transcriptase (RT) inhibitors (NNRTI), were evaluated for activity against the human immunodeficiency virus (HIV-1) and drug-resistant variants. These NNRTIs are structurally diverse but potent inhibitors of HIV-1 with efficacy in the nanomolar to low micromolar concentrations. They interact at a specific site in the pain domain of the p66 subunit of RT. Treatment of HIV-1 infected cell cultures with UC compounds resulted in the selection of drug-resistant viruses bearing specific amino acid changes at 100, 101, 103, 106, and/or 181. Since Y181C and L1001 are the most commonly observed resistance-engendering mutations, RT enzymatic analysis was correlated with molecular modeling to glean information on the structural interactions between these NNRTIs and RT. Information derived from these studies will facilitate rational drug design and the selection of complementary anti-HIV drugs for combination therapy.


Subject(s)
HIV Reverse Transcriptase/genetics , HIV-1/drug effects , Models, Molecular , Reverse Transcriptase Inhibitors/pharmacology , Drug Resistance, Microbial , Genetic Variation , HIV Reverse Transcriptase/antagonists & inhibitors , HIV Reverse Transcriptase/chemistry , HIV-1/enzymology , HIV-1/genetics , Humans , Lamivudine/pharmacology , Molecular Conformation , Point Mutation , Protein Conformation , Reverse Transcriptase Inhibitors/chemistry , Structure-Activity Relationship , Zidovudine/pharmacology
9.
Antimicrob Agents Chemother ; 41(4): 831-7, 1997 Apr.
Article in English | MEDLINE | ID: mdl-9087499

ABSTRACT

The structure-activity relationships of a series of compounds related to the nonnucleoside reverse transcriptase (RT) inhibitor (NNRTI) oxathiin carboxanilide have been described (R. W. Buckheit, Jr., T. L. Kinjerski, V. Fliakas-Boltz, J. D. Russell, T. L. Stup, L. A. Pallansch, W. G. Brouwer, D. C. Dao, W. A. Harrison, R. J. Schultz, J. P. Bader, and S. S. Yang, Antimicrob. Agents Chemother. 39:2718-2727, 1996). From these studies, the furanyl-containing analog UC10 was identified as the most potent inhibitor of human immunodeficiency virus type 1 (HIV-1) replication and a promising candidate for further development. Three new UC analogs (UC040, UC82, and UC781) have been determined to inhibit laboratory-derived and low-passage-number, primary virus isolates at low nanomolar concentrations in both established and fresh human cells. Each of the compounds synergistically interacted with the nucleoside analogs zidovudine, dideoxyinosine, dideoxycytosine, and lamivudine to inhibit HIV-1 replication. As a group, the UC compounds were found to be less active against viruses with the L100I, K103N, and Y181C amino acid changes in the RT and, upon in vitro selection, yielded resistant virus with the Y181C mutation in the RT. The most potent of the three new compounds, UC781, contains a furanyl side chain, similar to UC10, but differs in having an extended ether side chain instead of an oxime chain. The broad therapeutic index of UC781 (>62,000) resulted in effective inhibition of NNRTI-resistant virus isolates at high nanomolar concentrations. Furthermore, UC781 and the NNRTI costatolide were able to synergistically inhibit HIV-1 replication when used in combination, suggesting that UC781 may interact with the RT differently than the other UC analogs. The favorable anti-HIV properties of the UC compounds suggest they should be considered for further clinical development.


Subject(s)
Anti-HIV Agents/pharmacology , Carboxin/pharmacology , HIV-1/drug effects , Reverse Transcriptase Inhibitors/pharmacology , Carboxin/analogs & derivatives , Carboxin/pharmacokinetics , Cells, Cultured , Drug Resistance, Microbial , Drug Synergism , HIV Reverse Transcriptase/genetics , HIV-1/genetics , Humans , Microbial Sensitivity Tests , Mutation , Reverse Transcriptase Inhibitors/pharmacokinetics , Structure-Activity Relationship
10.
Antimicrob Agents Chemother ; 39(12): 2718-27, 1995 Dec.
Article in English | MEDLINE | ID: mdl-8593008

ABSTRACT

A series of compounds related to the nonnucleoside reverse transcriptase (RT) inhibitor (NNRTI) oxathiin carboxanilide (UC84) were evaluated for activity against the human immunodeficiency virus (HIV) to determine structural requirements for anti-HIV activity. Twenty-seven compounds representative of the more than 400 Uniroyal Chemical Company (UC) compounds were evaluated for structure-activity relationships. Several of the compounds evaluated were highly active, with 50% effective concentrations in the nanomolar range and therapeutic indices of > 1,000. Highly synergistic anti-HIV activity was observed for each compound when used in combination with 3'-azido-3'-deoxythymidine; additive to slightly synergistic interactions were observed with the compounds used in combination with dideoxycytidine. In combination with the NNRTI costatolide, only UC38 synergistically inhibited HIV type 1. Residues in the RT which, when mutated, impart resistance to the virus isolates selected in cell culture, against virus variants with site-directed mutations, and against RTs containing defined single amino acid changes. The mutations included changes in RT amino acids 100, 101, 103, 106, 108, and 181. The results with isolates selected in cell culture indicate that the carboxanilide compounds interact with the RT at two vulnerable sites, selecting UC-resistant virus isolates with the Y-to-C mutation at position 181 (Y181C) or the L100I substitution. A resistant virus isolate containing both Y181C combination with calanolide A, an NNRTI which retains activity against virus with the single Y181C mutation, UC10 rapidly selected a virus isolate with the K103N mutation. The merits of selecting potential candidate anti-HIV agents to be used in rational combination drugs design as part of an armamentarium of highly active anti-HIV compounds are discussed.


Subject(s)
Antiviral Agents/pharmacology , Carboxin/analogs & derivatives , HIV-1/drug effects , Reverse Transcriptase Inhibitors/pharmacology , Antiviral Agents/chemistry , Carboxin/chemistry , Carboxin/pharmacology , Drug Resistance, Microbial , HIV Reverse Transcriptase , HIV-1/enzymology , HIV-1/genetics , Humans , Mutagenesis, Site-Directed , Mutation , RNA-Directed DNA Polymerase/genetics , RNA-Directed DNA Polymerase/metabolism , Reverse Transcriptase Inhibitors/chemistry , Structure-Activity Relationship
11.
Antimicrob Agents Chemother ; 39(11): 2426-35, 1995 Nov.
Article in English | MEDLINE | ID: mdl-8585721

ABSTRACT

T30177, an oligonucleotide composed of only deoxyguanosine and thymidine, is 17 nucleotides in length and contains single phosphorothioate internucleoside linkages at its 5' and 3' ends for stability. This oligonucleotide does not share significant primary sequence homology with or possess any complementary (antisense) sequence motifs to the human immunodeficiency virus type 1 (HIV-1) genome. T30177 inhibited replication of multiple laboratory strains of HIV-1 in human T-cell lines, peripheral blood lymphocytes, and macrophages. T30177 was also found to be capable of inhibiting multiple clinical isolates of HIV-1 and preventing the cytopathic effect of HIV-1 in primary CD4+ T lymphocytes. In assays with human peripheral blood lymphocytes there was no observable toxicity associated with T30177 at the highest concentration tested (100 microM), while the median inhibitory concentration was determined to be in the range of 0.1 to 1.0 microM for the clinical isolates tested, resulting in a high therapeutic index for this drug. In temporal studies, the kinetics of addition of T30177 to infected cell cultures indicated that, like the known viral adsorption blocking agents dextran sulfate and Chicago sky blue, T30177 needed to be added to cells during or very soon after viral infection. However, analysis of nucleic acids extracted at 12 h postinfection from cells treated with T30177 at the time of virus infection established the presence of unintegrated viral cDNA, including circular proviral DNA, in the treated cells. In vitro analysis of viral enzymes revealed that T30177 was a potent inhibitor of HIV-1 integrase, reducing enzymatic activity by 50% at concentrations in the range of 0.050 to 0.09 microM. T30177 was also able to inhibit viral reverse transcriptase activity; however, the 50% inhibitory value obtained was in the range of 1 to 10 microM, depending on the template used in the enzymatic assay. No observable inhibition of viral protease was detected at the highest concentration of T30177 used (10 microM). In experiments in which T30177 was removed from infected cell cultures at 4 days post-HIV-1 infection, total suppression of virus production was observed for more than 27 days. PCR analysis of DNA extracted from cells treated in this fashion was unable to detect the presence of viral DNA 11 days after removal of the drug from the infected cell cultures. The ability of T30177 to inhibit both laboratory and clinical isolates of HIV-1 and the experimental data which suggest that T30177 represents a novel class of integrase inhibitors indicate that this compound is a viable candidate for evaluation as a therapeutic agent against HIV-1 in humans.


Subject(s)
Antiviral Agents/pharmacology , HIV Infections/virology , HIV-1/drug effects , Oligonucleotides/pharmacology , Base Sequence , Cell Fusion/drug effects , Cell Line , Cell Survival/drug effects , Cells, Cultured , DNA Nucleotidyltransferases/antagonists & inhibitors , DNA, Viral/biosynthesis , Flow Cytometry , HIV-1/enzymology , HIV-1/physiology , Humans , Integrases , Lymphocytes/drug effects , Lymphocytes/virology , Macrophages/virology , Molecular Sequence Data , Reverse Transcriptase Inhibitors/pharmacology , T-Lymphocyte Subsets/virology , Virus Replication/drug effects
12.
Virology ; 209(2): 604-14, 1995 Jun 01.
Article in English | MEDLINE | ID: mdl-7778292

ABSTRACT

Functional cis-acting regulatory elements in the bovine immunodeficiency virus (BIV) long terminal repeat (LTR) were identified by deletion mapping and nuclear protein gel shift analysis using three BIV-infectible cell lines, Cf2Th, BLAC-20, and EREp. Deletion mapping studies indicated that putative NF-kappa B, GRE, AP-4, AP-1, CAAT, and ATF/CRE transcription factor elements positively contribute to LTR-directed gene expression in each cell line both in the presence and absence of the viral transactivator Tat. Sp1 and overlapping AP-3 and retroviral core enhancer elements had variable effects on LTR-directed gene expression depending on cell type and presence or absence of Tat. In addition, a sequence spanning the LTR U5 region and the untranslated viral leader was strongly repressive in all cell lines. Tat transactivated the LTR 25-fold over basal levels in a TAR-dependent manner in Cf2Th cells. In contrast, Tat transactivated the LTR only 2.5-fold over basal levels in EREp and BLAC-20 cells in a TAR-independent manner. Probes for putative NF-kappa B, GRE, Sp1, AP-4, AP-1, overlapping AP-3 and retroviral core enhancer, and juxtaposed CAAT and ATF-CRE elements specifically bound nuclear proteins from these three cell lines and HeLa cells, with the stoichiometry of binding being cell-type dependent. Probes for AP-4, AP-1, and juxtaposed CAAT and ATF/CRE elements exhibited greater protein binding with extracts from virally infected cells than with extracts from uninfected cells, suggesting that viral infection can modulate nuclear factor binding. The present studies indicate that several transcription factor elements in the BIV LTR have functional roles and that cell type can strongly determine the role they play in gene expression.


Subject(s)
DNA, Viral/genetics , Immunodeficiency Virus, Bovine/genetics , Nuclear Proteins/metabolism , Regulatory Sequences, Nucleic Acid , Repetitive Sequences, Nucleic Acid , Transcription Factors/metabolism , Animals , Base Sequence , Binding Sites , Cattle , Cell Line , Cell Nucleus/metabolism , Consensus Sequence , DNA, Viral/chemistry , DNA, Viral/metabolism , Dogs , Immunodeficiency Virus, Bovine/physiology , Molecular Sequence Data , Rabbits , Restriction Mapping , Sequence Deletion , Virus Replication
13.
J Virol ; 66(5): 2647-52, 1992 May.
Article in English | MEDLINE | ID: mdl-1313891

ABSTRACT

Lentiviruses are known to encode factors which trans activate expression from the viral long terminal repeat (LTR); the primary trans activator is the tat gene product. One of the putative accessory genes (tat) of the bovine immunodeficiency-like virus (BIV) bears sequence similarity to other lentivirus tat genes. This finding suggests that BIV may encode a trans-activating protein capable of stimulating LTR-directed gene expression. To test this hypothesis in vitro, BIV LTR-chloramphenicol acetyltransferase (CAT) reporter gene plasmids were constructed and transfected into three cell lines established from canine, bovine, or lapine tissues that are susceptible to BIV infection. The level of BIV LTR-directed CAT gene expression was significantly elevated in BIV-infected cells compared with uninfected cells. The relatively high basal-level expression of BIV LTR-CAT in uninfected canine and bovine cell lines suggests that cellular factors play a role in regulating BIV LTR-directed gene expression. Additionally, by using a clonal canine cell line in which the BIV LTR-CAT plasmid is stably expressed, BIV LTR-directed CAT expression is elevated 15- to 80-fold by cocultivation with BIV-infected cells, supporting the notion that BIV encodes a trans activator. The relative specificity of this viral activation was assessed by coculturing the clonal BIV LTR-CAT cell line with bovine leukemia virus- or bovine syncytial virus-infected cells; these bovine retroviruses increased expression from the BIV LTR only two- to threefold. Thus, BIV LTR regulatory elements in infected cells, like those of human immunodeficiency virus type 1 and other lentiviruses, are trans activated, presumably through the action of a Tat-like protein and cellular factors.


Subject(s)
Gene Expression Regulation, Viral , Immunodeficiency Virus, Bovine/genetics , Lentivirus Infections/genetics , Repetitive Sequences, Nucleic Acid , Transcriptional Activation/genetics , Animals , Cattle , Cell Line , Chloramphenicol O-Acetyltransferase/biosynthesis , Dogs , Gene Products, tat/biosynthesis , Leukemia Virus, Bovine/genetics , Plasmids/genetics , Rabbits , Recombinant Fusion Proteins/biosynthesis , Spumavirus/genetics
14.
Anal Biochem ; 185(1): 57-62, 1990 Feb 15.
Article in English | MEDLINE | ID: mdl-1693049

ABSTRACT

We have used the program FOLD, which employs the Zuker folding algorithm, to identify regions of stable secondary structure in three chicken proto-oncogene mRNAs: c-src, c-myc, and c-fos. We have found that use of reverse transcriptase to synthesize a cDNA template for amplification by the polymerase chain reaction is successful only if the region chosen for amplification does not contain stem structures with calculated free energies less than -14 kcal/mol.


Subject(s)
Algorithms , Gene Amplification , Polymerase Chain Reaction , RNA, Messenger , Animals , Base Sequence , Chick Embryo , Crystallins , Molecular Sequence Data , Nucleic Acid Conformation , Proto-Oncogene Proteins , Proto-Oncogene Proteins c-fos , Proto-Oncogene Proteins c-myc , Proto-Oncogene Proteins pp60(c-src)
15.
Dev Biol Stand ; 72: 97-110, 1990.
Article in English | MEDLINE | ID: mdl-2178134

ABSTRACT

The bovine immunodeficiency-like virus (BIV) is morphologically, serologically, and genetically related to the lentivirus subfamily of retroviruses which includes human and simian immunodeficiency viruses and other lentiviruses causally associated with debilitating diseases of domestic animals. There are many parallels in the biology and pathologic characteristics of BIV infections with those of HIV that make its development as a model of HIV-like infection and disease potentially attractive. In order to obtain a better understanding of the molecular basis of BIV-induced disease, two biologically active proviruses of BIV were molecularly cloned and sequenced. The BIV genome is 9.0 kilobases in the form of the proviral DNA. It contains the obligate retroviral structural genes, gag, pol, and env. In addition, in the BIV central region, between and overlapping pol and env, there are five potential coding regions for non-structural/regulatory genes; three are analogous to vif, tat, and rev in HIV and two, called W and Y, are unique to BIV. There is no coding region analogous to nef in BIV. Sequence comparisons of two functional proviruses obtained from the DNA of cells carrying an infection from a single virus isolation indicate that the genome of BIV is highly variable within a single biological isolate. Moreover, the greatest number of substitutions occur in the env gene. The results suggest the presence of multiple genotypes which may be of significance in defining the disease potential of a BIV isolate. These clones will be useful in dissecting the replicative cycle and mechanisms of pathogenesis of BIV in various animal models.


Subject(s)
Disease Models, Animal , Immunodeficiency Virus, Bovine , Lentivirus Infections/microbiology , Amino Acid Sequence , Animals , Capsid/chemistry , Genes, Viral , Humans , Immunodeficiency Virus, Bovine/genetics , Immunodeficiency Virus, Bovine/growth & development , Immunodeficiency Virus, Bovine/immunology , Immunodeficiency Virus, Bovine/ultrastructure , Molecular Sequence Data
16.
Dev Biol ; 132(1): 69-72, 1989 Mar.
Article in English | MEDLINE | ID: mdl-2645183

ABSTRACT

We have devised an in vitro RNA elongation assay (nuclear "run-on" transcription) that is suitable for use with small amounts of primary embryonic tissue. The assay is sensitive enough to detect transcription of single-copy genes in 8 X 10(5) nuclei isolated from embryonic chicken lens epithelia, and gives no detectable hybridization to unrelated DNAs, such as phi X or pBR322. We have used this assay to examine transcription of delta-crystallin and six proto-oncogenes in lens epithelia of 6-day-old embryonic chickens. The results indicate that delta-crystallin, c-myc, p53, and c-fos are actively transcribed in these cells, while c-myb, N-ras, and c-mil are not transcribed at detectable levels.


Subject(s)
Lens, Crystalline/embryology , Proto-Oncogene Proteins/genetics , Proto-Oncogenes , Amanitins/pharmacology , Animals , Cell Nucleus/physiology , Cell-Free System , Chick Embryo , Crystallins/genetics , Gene Expression Regulation , In Vitro Techniques , Lens, Crystalline/physiology , Nucleic Acid Hybridization , Transcription, Genetic
17.
Exp Cell Res ; 169(1): 215-22, 1987 Mar.
Article in English | MEDLINE | ID: mdl-3817014

ABSTRACT

Explants of the central region of lens epithelia from early chicken embryos differentiate in vitro to form lens fiber cells when cultured in the presence of chicken vitreous humor. Hybridization of a 32P-labeled v-myc viral oncogene DNA probe to RNA extracted from differentiating explants and immobilized on nitrocellulose filters indicates that levels of 2.5 kb c-myc mRNA are transiently elevated 5-10-fold in the differentiating cells. Increased levels of c-myc mRNA are observed within 30 min of the initiation of differentiation in vitro and persist for 8-9 h. Thymidine labeling of nuclei in differentiating explants indicates that entry of cells into S phase is inhibited during this period, as differentiating cells complete a final round of mitosis and withdraw from the cell cycle. Levels of c-myc mRNA are also elevated in the peripheral region of the lens epithelium, which contains cells undergoing differentiation in vivo, suggesting that the regulation of c-myc mRNA which occurs in vitro may also occur in vivo. c-myc mRNA, c-fos mRNA, and c-src mRNA showed distinct patterns of regulation associated with lens fiber formation in vivo, thus providing evidence that the regulation of c-myc mRNA is specific to this proto-oncogene. The finding that c-myc mRNA undergoes a specific, transient elevation in differentiating lens cells as they withdraw from the cell cycle contrasts with a large body of evidence linking enhanced c-myc expression with increased cell proliferation.


Subject(s)
Lens, Crystalline/cytology , Oncogenes , RNA, Messenger/biosynthesis , Transcription, Genetic , Animals , Cell Cycle , Cell Differentiation , Chick Embryo , DNA Replication , Epithelial Cells , Kinetics , Nucleic Acid Hybridization , Organ Culture Techniques , RNA, Messenger/genetics , Thymidine/metabolism
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