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1.
Infect Immun ; 73(6): 3764-72, 2005 Jun.
Article in English | MEDLINE | ID: mdl-15908409

ABSTRACT

DNA microarrays were used to examine the transcriptional response of Pseudomonas aeruginosa to anaerobiosis and nitrate. In response to anaerobic growth, 691 transcripts were differentially expressed. Comparisons of P. aeruginosa grown aerobically in the presence or the absence of nitrate showed differential expression of greater than 900 transcripts.


Subject(s)
Gene Expression Profiling , Nitrates/pharmacology , Pseudomonas aeruginosa/genetics , Anaerobiosis , Pseudomonas aeruginosa/growth & development
2.
J Immunol Methods ; 257(1-2): 185-202, 2001 Nov 01.
Article in English | MEDLINE | ID: mdl-11687252

ABSTRACT

A combinatorial phage display library expressing human immunoglobulin heavy and light chain variable regions was used to identify phage clones capable of binding to the surface of Candida albicans blastoconidia. Single chain antibody variable fragments (scFv) derived from three clones detected C. albicans antigens by indirect immunofluorescence assay (IFA), enzyme-linked immunosorbent assay (ELISA), and Western blotting. The antigens detected were conserved among different strains of C. albicans and several other Candida species. Two scFv clones detected antigens specifically expressed by C. albicans blastoconidia; the third detected antigens in both blastoconidia and filamentous forms of C. albicans. The antigens containing the epitopes recognized by all three scFv could be extracted from blastoconidia by dithiothreitol, suggesting attachment to the cell wall via sulfhydryl bonds. Epitope detection by the scFv was sensitive to treatment of C. albicans blastoconidia with sodium periodate, but not proteinase K, indicating the cognate epitopes were composed of carbohydrate. Antigenic determinants for each of the three scFv were detected by immunohistochemical staining of skin sections from a model of cutaneous candidiasis, demonstrating expression in vivo. Through selection for the ability to bind intact organisms, the phage display system provides a means to rapidly identify monoclonal binding ligands to Candida surface antigens. Being entirely human, mature antibodies generated from the scFv have potential utility in the treatment of candidiasis.


Subject(s)
Antigens, Fungal/immunology , Antigens, Surface/immunology , Candida albicans/immunology , Immunoglobulin Variable Region/genetics , Amino Acid Sequence , Animals , Antigens, Fungal/genetics , Antigens, Surface/genetics , Base Sequence , Blotting, Western , Candida albicans/genetics , Candidiasis, Cutaneous/immunology , Candidiasis, Cutaneous/microbiology , Candidiasis, Cutaneous/pathology , DNA Primers/genetics , Enzyme-Linked Immunosorbent Assay , Epitopes/genetics , Epitopes/immunology , Escherichia coli/genetics , Fluorescent Antibody Technique, Indirect , Gene Expression , Genetic Vectors , Humans , Mice , Molecular Sequence Data , Peptide Library , Recombinant Proteins/genetics , Recombinant Proteins/immunology
3.
Biochemistry ; 40(21): 6507-19, 2001 May 29.
Article in English | MEDLINE | ID: mdl-11371214

ABSTRACT

A group I intron precursor and ribozyme were cloned from the large subunit rRNA of the human pathogen Candida albicans. Both the precursor and ribozyme are functional as determined from in vitro assays. Comparisons of dissociation constants for oligonucleotide binding to the ribozyme and to a hexanucleotide mimic of its internal guide sequence lead to a model for recognition of the 5' exon substrate by this intron. In particular, tertiary contacts with the P1 helix that help align the splice site include three 2'-hydroxyl groups, a G.U pair that occurs at the intron's splice junction, and a G.A pair. The free energy contribution that each interaction contributes to tertiary binding is determined. When the G.A pair is replaced with a G-C pair, tertiary interactions to 5' exon mimic 2'-hydroxyl groups are significantly weakened. When the G.A pair is replaced with a G.U pair, tertiary interactions are retained and binding is 10-fold tighter. These results expand our knowledge of substrate recognition by group I introns, and also provide a basis for rational design of oligonucleotide-based therapeutics for targeting group I introns by binding enhancement by tertiary interactions and suicide inhibition strategies.


Subject(s)
Candida albicans/genetics , Exons , Introns , RNA, Catalytic/metabolism , Base Sequence , Binding Sites , Candida albicans/enzymology , Dinucleoside Phosphates/metabolism , Kinetics , Molecular Sequence Data , Nucleic Acid Conformation , Oligonucleotides/metabolism , RNA Precursors/metabolism , RNA Splicing , RNA, Fungal/metabolism , RNA, Ribosomal/metabolism , Substrate Specificity , Thermodynamics , Titrimetry
4.
Am J Respir Cell Mol Biol ; 24(1): 12-21, 2001 Jan.
Article in English | MEDLINE | ID: mdl-11152645

ABSTRACT

Fibrinogen (FBG), together with its polymerized form fibrin, modulates cellular responses during wound repair and tissue remodeling. Thus, we sought to determine whether A549 lung epithelial type II-like cells would endocytose insoluble, surface-bound FBG as a potential mechanism of alveolar matrix remodeling. Surface-bound FBG was endocytosed into either lysosomes or late endosomes by A549 cells through arg-gly-asp-dependent binding to alphavbeta3 but not alpha5beta1 integrin receptors. Soluble FBG added to confluent monolayers of A549 cells was not endocytosed. Unlike the uptake of the extracellular matrix glycoproteins vitronectin and thrombospondin by other cell types, endocytosis of FBG by A549 cells was neither inhibited by heparin nor dependent on binding to cell-surface heparan sulfate proteoglycans. FBG did not colocalize with endocytosed transferrin, whereas dextran showed partial colocalization with FBG in endocytic vesicles, suggesting nonclathrin-mediated endocytosis. Inhibition of actin filament polymerization blocked endocytosis of both dextran and FBG but not transferrin, providing further support that FBG is endocytosed via a nonclathrin pathway. Disruption of actin polymerization inhibited integrin-mediated cell spreading, which contributed to an overall reduction in FBG clearance that was most likely due to reduced cell migration and associated pericellular proteolysis. Trasylol inhibition of extracellular plasmin activity did not inhibit endocytosis of FBG. The endocytosed FBG was degraded to trichloroacetic acid-soluble fragments that showed an electrophoretic pattern distinctly different from plasmin-degraded FBG. Together, these results suggest that endocytosis of matrix-associated FBG by alveolar epithelial cells may be involved in the processes of alveolar tissue repair and matrix remodeling.


Subject(s)
Endocytosis/physiology , Fibrinogen/metabolism , Pulmonary Alveoli/metabolism , Receptors, Vitronectin/metabolism , Cell Line , Clathrin/metabolism , Endocytosis/drug effects , Epithelial Cells/metabolism , Fibrinolysin/metabolism , Fibrinolysin/pharmacology , Heparin/analogs & derivatives , Heparin/metabolism , Humans , Integrins/metabolism , Lysosomes/metabolism , Oligopeptides/pharmacology , Peptide Hydrolases/metabolism , Peptide Hydrolases/pharmacology , Protein Processing, Post-Translational/drug effects , Proteoglycans/metabolism , Pulmonary Alveoli/cytology , Pulmonary Alveoli/drug effects
5.
J Invest Dermatol ; 114(6): 1085-92, 2000 Jun.
Article in English | MEDLINE | ID: mdl-10844549

ABSTRACT

The human CD80 costimulatory molecule is an important signal between professional antigen-presenting cells and T helper cells. The immunobiology of CD80 expression by keratinocytes, especially during allergic and irritant contact dermatitis, however, is less well understood. CD80 cell surface expression and gene transcription by keratinocytes was increased when keratinocytes were exposed to certain allergens (chemicals that induce inflammation via hapten-specific T cells) and irritants (chemicals that are toxic to epidermal cells). Therefore, the human CD80 promoter was cloned and luciferase reporter constructs containing various promoter fragments were engineered. Promoter mapping of these CD80 constructs in transiently transfected keratinocytes showed that a construct containing the proximal 231 bp immediately upstream of the transcription start site of the CD80 promoter was most active in keratinocytes and was inducible to a level ranging from 2- to 10-fold higher in keratinocytes treated with certain allergens and irritants, compared with untreated keratinocytes. This pattern of promoter fragment activity in keratinocytes is identical to that found in professional antigen-presenting cells. This is the first demonstration that the CD80 promoter is active in keratinocytes and that this activity is further increased in keratinocytes treated with certain allergens and irritants. These data suggest that allergens and irritants may, in part, break peripheral tolerance by their direct effects on keratinocyte costimulatory molecule expression, thereby facilitating interactions with epidermotropic T helper cells via the CD80-CD28 or CTLA-4 pathways.


Subject(s)
Allergens/pharmacology , B7-1 Antigen/genetics , B7-1 Antigen/physiology , Irritants/pharmacology , Keratinocytes/metabolism , Antigen-Presenting Cells/immunology , Chromosome Mapping , Dermatitis, Allergic Contact/etiology , Dermatitis, Allergic Contact/pathology , Humans , Infant, Newborn , Interferon-gamma/pharmacology , Keratinocytes/drug effects , Male , Nickel/immunology , Promoter Regions, Genetic/genetics , Sodium Dodecyl Sulfate/pharmacology , Tetradecanoylphorbol Acetate/pharmacology , Transcription, Genetic/physiology , Up-Regulation/drug effects , Up-Regulation/genetics
6.
Gene ; 242(1-2): 141-50, 2000 Jan 25.
Article in English | MEDLINE | ID: mdl-10721706

ABSTRACT

Expression screening of a Pneumocystis carinii-infected mouse lung cDNA library with specific monoclonal antibodies (mAbs) led to the identification of a P. carinii cDNA with extensive homology to subtilisin-like proteases, particularly fungal kexins and mammalian prohormone convertases. The 3.1 kb cDNA contains a single open reading frame encoding 1011 amino acids. Structural similarities to fungal kexins in the deduced primary amino acid sequence include a putative proenzyme domain delineated by a consensus autocatalytic cleavage site (Arg-Glu-Lys-Arg), conserved Asp, His, Asn and Ser residues in the putative catalytic domain, a hydrophobic transmembrane spanning domain, and a carboxy-terminal cytoplasmic domain with a conserved tyrosine motif thought to be important for localization of the protease in the endoplasmic reticulum and/or Golgi apparatus. Based on these structural similarities and the classification of P. carinii as a fungus, the protease was named KEX1. Southern blotting of mouse P. carinii chromosomes localized kex1 to a single chromosome of approximately 610 kb. Southern blotting of restriction enzyme digests of genomic DNA from P. carinii-infected mouse lung demonstrated that kex1 is a single copy gene. The function of kexins in other fungi suggests that KEX1 may be involved in the post-translational processing and maturation of other P. carinii proteins.


Subject(s)
Carboxypeptidases/genetics , Pneumocystis/genetics , Proprotein Convertases , Saccharomyces cerevisiae Proteins , Subtilisins/genetics , Amino Acid Sequence , Animals , Base Sequence , Blotting, Southern , Chromosomes, Fungal/genetics , Cloning, Molecular , DNA/genetics , DNA, Complementary/chemistry , DNA, Complementary/genetics , DNA, Fungal/genetics , Electrophoresis, Gel, Pulsed-Field , Lung/metabolism , Lung/microbiology , Mice , Molecular Sequence Data , Sequence Alignment , Sequence Analysis, DNA , Sequence Homology, Amino Acid
7.
J Biol Chem ; 273(40): 26202-9, 1998 Oct 02.
Article in English | MEDLINE | ID: mdl-9748303

ABSTRACT

Pneumocystis carinii pneumonia is a hallmark disease associated with AIDS. An abundant glycoprotein, termed gpA, on the surface of P. carinii is considered an important factor in host-parasite interactions. The primary structure of ferret P. carinii gpA contains a carboxyl-terminal sequence characteristic of a signal for glycosylphosphatidylinositol (GPI) anchors. Here we report the capacity for this gpA carboxyl sequence to direct attachment of a secreted protein, human growth hormone (hGH), to the membranes of COS cells. A control fusion protein (hGHDAF37) was obtained which, under the direction of the GPI signal from decay accelerating factor, directs hGH cell surface expression. A construct (phGH2-1A30) was created similar to hGHDAF37 by fusing hGH to the putative GPI signal sequence encoded in the terminal 30 residues from a ferret P. carinii gpA cDNA clone. By indirect immunofluorescent staining, hGH was detected on the surface of COS cells transfected with phGH2-1A30; this surface location was confirmed by confocal laser cytometry. Metabolic labeling with [3H]ethanolamine and subsequent immunopurification of hGH from cells transfected with phGH2-1A30 confirmed that a lipid moiety characteristic of a conventional GPI anchor was linked covalently to hGH, and cell surface hGH2-1A30 fusion protein was sensitive to enzymatic cleavage by phosphatidylinositol-phospholipase C. Furthermore, hGH2-1A30 recombinant protein cofractionated with 5'-nucleotidase, a classical GPI-anchored membrane marker. Together, these results indicate that the carboxyl-terminal residues of ferret P. carinii gpA constitute a biologically functional GPI consensus domain, thus providing a potential mechanism for antigenic variation of P. carinii gpA during P. carinii pneumonia.


Subject(s)
Fungal Proteins/chemistry , Glycosylphosphatidylinositols/chemistry , Membrane Glycoproteins/chemistry , Pneumocystis/chemistry , 5'-Nucleotidase/analysis , Amino Acid Sequence , Animals , CD55 Antigens/metabolism , COS Cells , Ethanolamine/metabolism , Ferrets , Fluorescent Antibody Technique , Human Growth Hormone/metabolism , Molecular Sequence Data , Phosphatidylinositol Diacylglycerol-Lyase , Recombinant Fusion Proteins/metabolism , Transfection/genetics , Type C Phospholipases/metabolism
8.
Infect Immun ; 66(9): 4440-9, 1998 Sep.
Article in English | MEDLINE | ID: mdl-9712799

ABSTRACT

Transgenic (Tg) mice whose epidermal keratinocytes constitutively overexpress either B7-1 (CD80) or B7-2 (CD86) exhibited exaggerated cutaneous delayed type hypersensitivity (DTH) to haptens compared to non-Tg mice. To determine whether enhanced DTH in these Tg mice is seen in response to cutaneous fungal infections, a primary infection with Candida albicans was established by inoculating this organism on the occluded skin of Tg and non-Tg mice. These infections resolved 7 days after removal of occlusive dressing in all three groups of mice, without evidence of exaggerated inflammation in either the Tg or non-Tg mice. Only B7-2 Tg mice developed enhanced Th1-lymphocyte-mediated immune responses to C. albicans antigens after resolving this infection: enhanced footpad swelling in response to intradermal C. albicans antigens, enhanced production of mRNA encoding Th1 lymphokines in draining lymph nodes, and increased gamma interferon secreted into culture supernatants by lymph node T lymphocytes stimulated with Candida antigens in vitro. Lastly, Western blotting of sera from mice that had resolved this fungal infection indicated that only B7-2 Tg mice recognized a wide range of Candida-associated antigens. These data suggest that these two costimulatory molecules, when expressed by keratinocytes, do not deliver identical signals to C. albicans antigen-reactive Th1 lymphocytes. The enhanced immune response in B7-2 Tg mice to a cutaneous C. albicans infection demonstrates the importance of antigen presentation and costimulation in immune reactivity to fungi. Furthermore, B7-2 Tg mice may be useful in identification of protective Candida antigens.


Subject(s)
Antigens, CD/immunology , B7-1 Antigen/immunology , Candidiasis, Cutaneous/immunology , Membrane Glycoproteins/immunology , Animals , Antibodies, Fungal/immunology , Antigens, CD/genetics , Antigens, Fungal/immunology , B7-1 Antigen/genetics , B7-2 Antigen , Candida albicans , Epidermis/immunology , Epidermis/metabolism , Hypersensitivity, Delayed , Interferon-gamma/biosynthesis , Keratinocytes , Lymph Nodes/immunology , Membrane Glycoproteins/genetics , Mice , Mice, Inbred C57BL , Mice, Inbred DBA , Mice, Transgenic , Th1 Cells/immunology
9.
DNA Res ; 5(2): 77-85, 1998 Apr 30.
Article in English | MEDLINE | ID: mdl-9679195

ABSTRACT

Since the mouse offers an easily manipulated experimental animal model for the study of the immunopathogenesis of pneumonia caused by the opportunist Pneumocystis carinii, we cloned and characterized cDNAs encoding an abundant, immunogenic surface antigen termed glycoprotein A (gpA) from mouse P. carinii. A cDNA library was constructed in bacteriophage lambda gt11 from P. carinii-infected mouse lung poly(A+) RNA. Using a nucleic acid probe derived from a conserved region of the mouse P. carinii gpA structural gene, cDNAs encoding gpA were identified. A composite full-length gpA coding sequence was assembled from two overlapping cDNA clones. A DNA element homologous to the rat P. carinii upstream conserved sequence (UCS) was identified at the 5' end of several of the mouse P. carinii gpA cDNA clones, just upstream of the sequences encoding gpA structural gene isoforms. Using primer extension analysis, two neighboring putative transcriptional start sites were located on UCS-gpA mRNAs approximately 25 and 30 nt, respectively, upstream of the most 5' gpA cDNA clone isolated, suggesting a 5' UCS of 489 or 494 nucleotides in mouse P. carinii gpA. A comparative alignment of the composite mouse P. carinii gpA deduced amino acid sequence with gpA homologs from rat, human and ferret P. carinii demonstrated 156 identical residues, including 46 cysteines, further supporting the hypothesis for conserved secondary structure, as well as function, for gpA from all P. carinii.


Subject(s)
Fungal Proteins/chemistry , Fungal Proteins/genetics , Membrane Glycoproteins/chemistry , Membrane Glycoproteins/genetics , Pneumocystis/genetics , Pneumonia, Pneumocystis/microbiology , Amino Acid Sequence , Animals , Base Sequence , Conserved Sequence , DNA, Complementary , Gene Library , Genes, Fungal , Humans , Lung/microbiology , Mice , Mice, SCID , Molecular Sequence Data , Pneumocystis/chemistry , Pneumocystis/isolation & purification , Rats , Sequence Alignment , Sequence Analysis, DNA
10.
Mol Biotechnol ; 9(2): 91-7, 1998 Apr.
Article in English | MEDLINE | ID: mdl-9658387

ABSTRACT

Since a continuous culture system is not yet available for the opportunistic fungal pathogen Pneumocystis carinii, obtaining suitable amounts of purified P. carinii antigens free of mammalian-host lung contaminants is difficult. Hence, production of recombinant antigen possessing epitopes found in native P. carinii antigens is critical for immunological studies. We utilized the baculovirus expression vector system (BEVS) in insect cells to determine whether B-cell epitopes present in the protein core of a native P. carinii surface glycoprotein were conserved in the recombinant polypeptide, and to investigate its glycosylation by insect cells. B-cell epitopes were retained, but the insect cells appeared to hyperglycosylate the recombinant protein.


Subject(s)
Antigens, Fungal/immunology , Baculoviridae/genetics , Fungal Proteins/immunology , Membrane Glycoproteins/immunology , Pneumocystis/immunology , Animals , Antibodies, Monoclonal , Blotting, Western , Cell Line , Epitopes/biosynthesis , Ferrets/microbiology , Fungal Proteins/biosynthesis , Fungal Proteins/metabolism , Genetic Vectors/genetics , Glycosylation/drug effects , Lung/microbiology , Male , Membrane Glycoproteins/biosynthesis , Membrane Glycoproteins/metabolism , Recombinant Fusion Proteins/biosynthesis , Recombinant Fusion Proteins/immunology , Recombinant Fusion Proteins/metabolism , Spodoptera , Tunicamycin/pharmacology
11.
J Infect Dis ; 178(1): 235-42, 1998 Jul.
Article in English | MEDLINE | ID: mdl-9652446

ABSTRACT

To examine the repertoire of Pneumocystis carinii antigens recognized by antibody-secreting B cells from tracheobronchial lymph nodes isolated immediately following recovery from P. carinii pneumonia, monoclonal antibodies (MAbs) were produced from these cells. In contrast to previous studies of systemic immunity, P. carinii gpA was not the immunodominant antigen recognized by these B cells. Forty-nine (91%) of 54 P. carinii-specific hybridoma culture supernatants reacted with P. carinii antigens other than gpA. Many of the resulting MAbs recognized a previously uncharacterized antigen expressed on the surface of both cysts and trophozoites. Western blotting using one of the cloned MAbs revealed reactivity with a broad range of antigenic material, with the most intense reactivity in the 50- to 65-kDa region of the blot. The antigens identified by these MAbs merit further investigation regarding protective immunity to P. carinii because they were recognized by B cells in the context of recovery from P. carinii pneumonia.


Subject(s)
Antibodies, Fungal/immunology , Antigens, Fungal/immunology , B-Lymphocytes/immunology , Fungal Proteins/immunology , Membrane Glycoproteins/immunology , Pneumocystis/immunology , Pneumonia, Pneumocystis/immunology , Animals , Antibodies, Monoclonal/immunology , Humans , Mice , Mice, SCID
12.
Med Mycol ; 36 Suppl 1: 129-36, 1998.
Article in English | MEDLINE | ID: mdl-9988501

ABSTRACT

A clear understanding of the pathogenesis of fungal disease remains elusive. While technological advances in molecular biology and microbial genetics have provided scientists with major new insights into both microbial virulence factors as well as host susceptibility to infection, there is currently no substitute for animal models in elucidating microbe-host interactions. Animal models are also essential for the evaluation of new antimicrobial agents, including studies of efficacy, adverse reactions and pharmacokinetics. The single most important advance in animal models in the last decade, has been the availability of genetically unique strains of animals as alternative to animals treated with immunosuppressive drugs for use in studies on microbial virulence and host defence mechanisms. These unique strains of test animals also enhance our understanding of the modes of action of antifungal drugs and their metabolism. Some of these advances will be discussed in this symposium.


Subject(s)
Disease Models, Animal , Mycoses , Animals , Candidiasis, Vulvovaginal/immunology , Candidiasis, Vulvovaginal/microbiology , Dermatomycoses/immunology , Dermatomycoses/microbiology , Female , Fungi/pathogenicity , Humans , Mycoses/immunology , Mycoses/microbiology , Pneumonia, Pneumocystis/immunology , Pneumonia, Pneumocystis/microbiology , Tinea Pedis/microbiology , Trichosporon/pathogenicity , Virulence
13.
Semin Respir Infect ; 13(4): 313-22, 1998 Dec.
Article in English | MEDLINE | ID: mdl-9872628

ABSTRACT

Studies of Pneumocystis carinii have been limited by our inability to propagate it in continuous culture. In this context, studies of P. carinii antigens have provided significant insight into the biology of this organism. The mannose-rich surface major surface glycoprotein of P. carinii termed glycoprotein A (gpA) is the best studied of these P. carinii antigens. Significant genetic and immunologic diversity exists between the gpA molecules expressed by P. carinii derived from different mammalian sources. The molecular and biochemical nature of gpA and other P. carinii antigens including p55 are reviewed. In addition, available information concerning the role of P. carinii gpA and other antigens in host-organism interactions are also discussed.


Subject(s)
Antigens, Fungal/analysis , Membrane Glycoproteins/analysis , Pneumocystis/immunology , Animals , Antigens, Fungal/biosynthesis , Blotting, Western , Humans , Membrane Glycoproteins/biosynthesis , Polymerase Chain Reaction
14.
Biochemistry ; 36(49): 15303-14, 1997 Dec 09.
Article in English | MEDLINE | ID: mdl-9398259

ABSTRACT

The recent increase in the population of immunocompromised patients has led to an insurgence of opportunistic human fungal infections. The lack of effective treatments against some of these pathogens makes it important to develop new therapeutic strategies. One such strategy is to target key RNAs with antisense compounds. We report the development of a model system for studying the potential for antisense targeting of group I self-splicing introns in fungal pathogens. The group I intron from the large ribosomal subunit RNA of mouse-derived Pneumocystis carinii has been isolated and characterized. This intron self-splices in vitro. A catalytically active ribozyme, P-8/4x, has been constructed from this intron to allow measurement of dissociation constants for potential antisense agents. At 37 degrees C, in 50 mM Hepes (25 mM Na+), 15 mM MgCl2, and 135 mM KCl at pH 7.5, the exogenous 5' exon mimic r(AUGACU) binds about 60 000 times more tightly to this ribozyme than to r(GGUCAU), a mimic of its complementary binding site on the ribozyme. This enhanced binding is due to tertiary interactions. This tertiary stabilization is increased by single deoxynucleotide substitutions in the exon mimic at every position except for the internal A, which is essentially unchanged. Thus 2' OH groups of the 5' exon mimic do not form stabilizing tertiary interactions with the P-8/4x ribozyme, in contrast to the Tetrahymena L-21 ScaI ribozyme. Furthermore, at 37 degrees C, the exogenous 5' exon mimic d(ATGACT) binds nearly 32 000 times more tightly to the P-8/4x ribozyme than to r(GGUCAU). Therefore, oligonucleotides without 2' OH groups can exploit tertiary stabilization to bind dramatically more tightly and with more specificity than possible from base pairing. These results suggest a new paradigm for antisense targeting: targeting the tertiary interactions of structural RNAs with short antisense oligonucleotides.


Subject(s)
Exons , Hydroxyl Radical/metabolism , Introns , Pneumocystis/genetics , RNA, Catalytic/genetics , Animals , Base Sequence , Catalysis , Circular Dichroism , Hydroxyl Radical/chemistry , Mice , Molecular Sequence Data , Nucleic Acid Conformation , Pneumocystis/enzymology , Protein Binding , RNA Splicing , RNA, Catalytic/chemistry , RNA, Catalytic/metabolism , RNA, Ribosomal/chemistry , RNA, Ribosomal/genetics , RNA, Ribosomal/metabolism , Substrate Specificity , Thermodynamics
15.
Gene ; 167(1-2): 185-9, 1995 Dec 29.
Article in English | MEDLINE | ID: mdl-8566775

ABSTRACT

Although the genes encoding Pneumocystis carinii (Pc) glycoprotein A (gpA) display a high degree of host species-specific genotypic diversity, the Pc gpA derived from different host species share defined regions of significant homology in their primary amino acid (aa) structure. Using two degenerate oligodeoxyribonucleotide (oligo) primers corresponding to a conserved Cys region (Cys-primers) of the ferret (F), rat (R) and mouse (M) PcgpA, a 306-bp portion of the human (H) PcgpA was amplified from only one of three known HPc-infected lung samples using PCR. The deduced aa sequence of the HPc PCR product was 72% similar to the corresponding region of a published HPc gpA aa sequence. Because the conserved Cys-primers amplified only one of three samples of HPcgpA, a primer-pair was designed from sequences internal to the Cys-primer sequences of the HPcgpA PCR product (hPc). The hPc primers amplified the expected 254-bp product from each of the three HPc-infected lung DNA samples, suggesting that the Cys-primers may have either amplified a HPcgpA present in fewer copies in the genome of HPc or, alternatively, amplified a gene from an uncommon strain of Pc encoding an isoform variant of gpA not present in the other human isolates analyzed in this report. Restriction analysis of the amplified products demonstrated heterogeneity in the internal sequence, confirming that more than one gpA exists in HPc as well. To determine the relationship of HPcgpA to the gpA of Pc from another primate, the hPc primers were used successfully to amplify a 261-bp product from Pc-infected Rhesus macaque (Rm) lung genomic DNA. These results are consistent with our earlier findings that closely related host species are infected with Pc organisms encoding similar gpA, suggesting that the evolutionary divergence of Pc followed that of the mammalian host species.


Subject(s)
Fungal Proteins/genetics , Membrane Glycoproteins/genetics , Pneumocystis/genetics , Animals , Base Sequence , DNA Primers/chemistry , Humans , Lung/microbiology , Macaca mulatta/microbiology , Molecular Sequence Data , Phylogeny , Pneumocystis/isolation & purification , Pneumonia, Pneumocystis/microbiology , Sequence Alignment , Sequence Homology, Amino Acid
16.
Infect Immun ; 63(9): 3600-8, 1995 Sep.
Article in English | MEDLINE | ID: mdl-7642297

ABSTRACT

The chlamydial life cycle involves the intimate interaction of components of the infectious elementary body (EB) surface with receptors on the susceptible eukaryotic cell plasma membrane. We have developed an in vitro ligand binding assay system for the identification and characterization of detergent-extracted EB envelope proteins capable of binding to glutaraldehyde-fixed HeLa cell surfaces. With this assay, the developmentally regulated cysteine-rich envelope protein Omp2 of Chlamydia psittaci strain guinea pig inclusion conjunctivitis was shown to bind specifically to HeLa cells. HeLa cells bound Omp2 selectively over other cell wall-associated proteins, including the major outer membrane protein, and the binding of Omp2 was abolished under conditions which alter its conformation. Furthermore, trypsin treatment, which reduces EB adherence, resulted in the proteolytic removal of a small terminal peptide of Omp2 at the EB surface and inactivated Omp2 in the ligand binding assay, while having a negligible effect on the major outer membrane protein. Collectively, our results suggest that Omp2 possesses the capacity to engage in a specific interaction with the host eukaryotic cell. We speculate that, since Omp2 is present only in the infectious EB form, the observed in vitro interaction may be representative of a determining step of the chlamydial pathogenic process.


Subject(s)
Bacterial Outer Membrane Proteins/metabolism , Chlamydophila psittaci/pathogenicity , Animals , Bacterial Outer Membrane Proteins/chemistry , Glutaral , Guinea Pigs , HeLa Cells , Hot Temperature , Humans , Protein Conformation , Rabbits , Trypsin/pharmacology
17.
DNA Res ; 2(2): 77-88, 1995.
Article in English | MEDLINE | ID: mdl-7584051

ABSTRACT

Two ferret P. carinii gpA cDNA clones were identified that reacted identically with a panel of anti-gpA monoclonal antibodies, although their nucleotide sequences were 22% divergent. Each clone hybridized to a single mRNA species of 3,600 nucleotides only in P. carinii-infected lung mRNA, but RT-PCR analysis demonstrated that these cDNA clones were derived from two distinct gpA mRNA transcripts. Further PCR analysis demonstrated that the ferret P. carinii genome contains at least two gpA genes lying in tandem on a single chromosome separated by a 329-bp intergenic region. Based on the terminal gene sequences of this tandem repeat and the cDNA clones, a composite full-length ferret P. carinii gpA coding sequence was constructed. The intergenic region immediately downstream of the stop codon of the first gpA gene contains three putative polyadenylation signals, and constitutes the 3' untranslated region (UTR) of the gpA mRNA. Primer extension of the gpA mRNA resulted in products extending 74 and 244 nucleotides into the 5' UTR. However, the intergenic region lying greater than 25 nucleotides upstream of the first methionine of the second gpA gene was found to be absent from the 5' UTR.


Subject(s)
Ferrets/microbiology , Genes, Fungal/genetics , Genetic Variation , Multigene Family/genetics , Pneumocystis/genetics , Amino Acid Sequence , Animals , Base Sequence , Blotting, Northern , Chromosomes, Fungal/genetics , Cloning, Molecular , DNA, Complementary/genetics , Fungal Proteins/genetics , Membrane Glycoproteins/genetics , Molecular Sequence Data , Polymerase Chain Reaction , RNA Processing, Post-Transcriptional , RNA, Messenger/genetics , Regulatory Sequences, Nucleic Acid/genetics , Sequence Homology, Amino Acid
18.
J Eukaryot Microbiol ; 41(4): 402-7, 1994.
Article in English | MEDLINE | ID: mdl-8087108

ABSTRACT

Using RNA: RNA in situ hybridization, the intracellular location of a transcript encoded by and spanning the entire length of a Trypanosoma cruzi kinetoplast DNA minicircle was determined. In axenically cultured T. cruzi epimastigotes, the hybridization signal was restricted to the kinetoplast, which was situated in the perinuclear region of the cell. Following conversion of epimastigotes to culture-derived metacyclic trypomastigotes, the kinetoplast moved to an acentric position in the metacyclic trypomastigote. Again, the hybridization signal co-localized with the position of the kinetoplast. These results suggested that the transcript remained closely associated with the T. cruzi kinetoplast within the mitochondrion in each of the morphological forms. Using specific oligonucleotide probes derived from a cDNA encoding the transcript, the entire native kDNA minicircle encoding the transcript was cloned and its nucleotide sequence was determined. The nucleotide sequence of the intact native minicircle was identical to that of the full-length cDNA corresponding to the minicircle transcript, indicating that the transcript was not modified prior to the time of cDNA synthesis and cloning.


Subject(s)
DNA, Kinetoplast/genetics , RNA, Messenger/analysis , RNA, Protozoan/analysis , Trypanosoma cruzi/genetics , Animals , Base Sequence , Cloning, Molecular , DNA, Complementary/genetics , In Situ Hybridization , Molecular Sequence Data , RNA, Messenger/genetics , RNA, Protozoan/genetics , Trypanosoma cruzi/growth & development
19.
Infect Immun ; 62(5): 1513-9, 1994 May.
Article in English | MEDLINE | ID: mdl-8168913

ABSTRACT

Pneumocystis carinii surface glycoprotein A (gpA) exhibits host species-specific phenotypic and genotypic variation. Despite this heterogeneity, the gpAs of P. carinii isolated from different host species appear to be homologous molecules sharing certain biochemical and antigenic characteristics. Using two degenerate oligodeoxyribonucleotide primers corresponding to conserved cysteine regions from ferret and rat P. carinii gpAs, a PCR product of approximately 300 bp was amplified from ferret, rat, and SCID mouse P. carinii-infected lung genomic DNA. Northern (RNA) hybridization revealed a transcript of 3,450 nucleotides in P. carinii-infected SCID mouse lung mRNA, which is similar in size to the transcripts for ferret and rat P. carinii gpAs. Nucleotide sequence analysis of SCID mouse P. carinii gpA subclones derived from the PCR products identified two isoforms, which were 89% identical to each other in the amplified region and 73 and 54% identical to the rat- and ferret-derived P. carinii gpA genes, respectively. Comparison of the deduced amino acid sequences of mouse, ferret, and rat P. carinii gpAs revealed striking similarity in residues adjacent to and including the conserved cysteines. Furthermore, the spacing of two proline residues is invariant, and a potential N-linked glycosylation site is found at a similar position in all of the gpAs. Despite the heterogeneity observed in P. carinii gpAs, the conservation of cysteine residues and adjacent sequences implies similar secondary structure and, most likely, similar function for the gpAs of P. carinii isolated from different host species.


Subject(s)
Fungal Proteins/genetics , Genes, Fungal , Membrane Glycoproteins/genetics , Pneumocystis/genetics , Sequence Homology, Nucleic Acid , Amino Acid Sequence , Animals , Base Sequence , Conserved Sequence , Cysteine , Ferrets , Fungal Proteins/chemistry , Male , Membrane Glycoproteins/chemistry , Mice , Mice, SCID , Molecular Sequence Data , Polymerase Chain Reaction , Restriction Mapping
20.
Infect Immun ; 62(3): 828-36, 1994 Mar.
Article in English | MEDLINE | ID: mdl-8112852

ABSTRACT

A previously identified Candida albicans-binding glycoprotein secreted from rat submandibular glands (RSMG) has been further purified from an aqueous RSMG extract by ion-exchange chromatography and gel filtration. Biochemical analysis of the glycoprotein revealed high levels of uronic acid and sulfate, suggesting that it was a proteoglycan. Its amino acid and carbohydrate compositions were similar to those observed for other proteoglycans and differed significantly from those of RSMG mucin, the major secretory glycoprotein of RSMG. In addition, the apparent molecular weight of the glycoprotein was reduced following treatment with either chondroitinase ABC or heparitinase, demonstrating the presence of chondroitin sulfate and heparan sulfate. On the basis of its structure and anatomical source, the glycoprotein is referred to as submandibular gland secreted proteoglycan 1 (SGSP1). SGSP1 also binds monoclonal antibody 1F9, which recognizes the human blood group A carbohydrate epitope found on RSMG mucin. Hence, SGSP1 appears to be a hybrid molecule with carbohydrate structures found in both proteoglycans and RSMG mucin. Enzymatic digestion of SGSP1, followed by its interaction with a radiolabelled C. albicans strain in a filter-binding assay, demonstrated that binding to this strain appears to be mediated primarily via the heparan sulfate side chains of SGSP1 and not via the blood group A oligosaccharide.


Subject(s)
Candida albicans/metabolism , Proteoglycans/isolation & purification , Submandibular Gland/chemistry , Animals , Electrophoresis, Polyacrylamide Gel , Glycosaminoglycans/analysis , Male , Proteoglycans/analysis , Proteoglycans/chemistry , Rats , Rats, Wistar
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