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1.
J Allergy Clin Immunol ; 152(2): 538-550, 2023 08.
Article in English | MEDLINE | ID: mdl-36638921

ABSTRACT

BACKGROUND: Job syndrome is a disease of autosomal dominant hyper-IgE syndrome (AD-HIES). Patients harboring STAT3 mutation are particularly prone to airway remodeling and airway infections. OBJECTIVES: Airway epithelial cells play a central role as the first line of defense against pathogenic infection and express high levels of STAT3. This study thus interrogates how AD-HIES STAT3 mutations impact the physiological functions of airway epithelial cells. METHODS: This study created human airway basal cells expressing 4 common AD-HIES STAT3 mutants (R382W, V463del, V637M, and Y657S). In addition, primary airway epithelial cells were isolated from a patient with Job syndrome who was harboring a STAT3-S560del mutation and from mice harboring a STAT3-V463del mutation. Cell proliferation, differentiation, barrier function, bacterial elimination, and innate immune responses to pathogenic infection were quantitatively analyzed. RESULTS: STAT3 mutations reduce STAT3 protein phosphorylation, nuclear translocation, transcription activity, and protein stability in airway basal cells. As a consequence, STAT3-mutated airway basal cells give rise to airway epithelial cells with abnormal cellular composition and loss of coordinated mucociliary clearance. Notably, AD-HIES STAT3 airway epithelial cells are defective in bacterial killing and fail to initiate vigorous proinflammatory responses and neutrophil transepithelial migration in response to an experimental model of Pseudomonas aeruginosa infection. CONCLUSIONS: AD-HIES STAT3 mutations confer numerous abnormalities to airway epithelial cells in cell differentiation and host innate immunity, emphasizing their involvement in the pathogenesis of lung complications in Job syndrome. Therefore, therapies must address the epithelial defects as well as the previously noted immune cell defects to alleviate chronic infections in patients with Job syndrome.


Subject(s)
Job Syndrome , Humans , Mice , Animals , Job Syndrome/genetics , STAT3 Transcription Factor/genetics , STAT3 Transcription Factor/metabolism , Cell Differentiation , Epithelial Cells/metabolism , Mutation
2.
mBio ; 11(3)2020 05 12.
Article in English | MEDLINE | ID: mdl-32398316

ABSTRACT

Invasive fungal infections constitute a lethal threat, with patient mortality as high as 90%. The incidence of invasive fungal infections is increasing, especially in the setting of patients receiving immunomodulatory agents, chemotherapy, or immunosuppressive medications following solid-organ or bone marrow transplantation. In addition, inhibitors of spleen tyrosine kinase (Syk) have been recently developed for the treatment of patients with refractory autoimmune and hematologic indications. Neutrophils are the initial innate cellular responders to many types of pathogens, including invasive fungi. A central process governing neutrophil recognition of fungi is through lectin binding receptors, many of which rely on Syk for cellular activation. We previously demonstrated that Syk activation is essential for cellular activation, phagosomal maturation, and elimination of phagocytosed fungal pathogens in macrophages. Here, we used combined genetic and chemical inhibitor approaches to evaluate the importance of Syk in the response of neutrophils to Candida species. We took advantage of a Cas9-expressing neutrophil progenitor cell line to generate isogenic wild-type and Syk-deficient neutrophils. Syk-deficient neutrophils are unable to control the human pathogens Candida albicans, Candida glabrata, and Candida auris Neutrophil responses to Candida species, including the production of reactive oxygen species and of cytokines such as tumor necrosis factor alpha (TNF-α), the formation of neutrophil extracellular traps (NETs), phagocytosis, and neutrophil swarming, appear to be critically dependent on Syk. These results demonstrate an essential role for Syk in neutrophil responses to Candida species and raise concern for increased fungal infections with the development of Syk-modulating therapeutics.IMPORTANCE Neutrophils are recognized to represent significant immune cell mediators for the clearance and elimination of the human-pathogenic fungal pathogen Candida The sensing of fungi by innate cells is performed, in part, through lectin receptor recognition of cell wall components and downstream cellular activation by signaling components, including spleen tyrosine kinase (Syk). While the essential role of Syk in macrophages and dendritic cells is clear, there remains uncertainty with respect to its contribution in neutrophils. In this study, we demonstrated that Syk is critical for multiple cellular functions in neutrophils responding to major human-pathogenic Candida species. These data not only demonstrate the vital nature of Syk with respect to the control of fungi by neutrophils but also warn of the potential infectious complications arising from the recent clinical development of novel Syk inhibitors for hematologic and autoimmune disorders.


Subject(s)
Candida/pathogenicity , Candidiasis/immunology , Gene Expression Regulation , Neutrophils/immunology , Syk Kinase/metabolism , Animals , Bone Marrow Cells/immunology , Bone Marrow Cells/microbiology , Candida/classification , Cell Line , Cytokines/immunology , Extracellular Traps/immunology , Female , Male , Mice , Neutrophils/microbiology , Phagocytosis , Reactive Oxygen Species/metabolism , Syk Kinase/genetics
3.
Cell Host Microbe ; 27(4): 614-628.e6, 2020 04 08.
Article in English | MEDLINE | ID: mdl-32130954

ABSTRACT

Airway epithelium is the first body surface to contact inhaled irritants and report danger. Here, we report how epithelial cells recognize and respond to aeroallergen alkaline protease 1 (Alp1) of Aspergillus sp., because proteases are critical components of many allergens that provoke asthma. In a murine model, Alp1 elicits helper T (Th) cell-dependent lung eosinophilia that is initiated by the rapid response of bronchiolar club cells to Alp1. Alp1 damages bronchiolar cell junctions, which triggers a calcium flux signaled through calcineurin within club cells of the bronchioles, inciting inflammation. In two human cohorts, we link fungal sensitization and/or asthma with SNP/protein expression of the mechanosensitive calcium channel, TRPV4. TRPV4 is also necessary and sufficient for club cells to sensitize mice to Alp1. Thus, club cells detect junction damage as mechanical stress, which signals danger via TRPV4, calcium, and calcineurin to initiate allergic sensitization.


Subject(s)
Aspergillus fumigatus/metabolism , Asthma/etiology , Serine Endopeptidases/metabolism , TRPV Cation Channels/metabolism , Allergens/adverse effects , Allergens/metabolism , Animals , Aspergillus fumigatus/immunology , Bronchioles/cytology , Calcineurin/metabolism , Calcium Channels/metabolism , Calcium Signaling , Cohort Studies , Eosinophilia , Epithelial Cells/metabolism , Humans , Inflammation/metabolism , Inflammation/pathology , Mice , Mice, Inbred C57BL , Serine Endopeptidases/adverse effects , T-Lymphocytes/immunology
4.
Infect Immun ; 88(2)2020 01 22.
Article in English | MEDLINE | ID: mdl-31767773

ABSTRACT

Aspergillus fumigatus is a ubiquitous fungal pathogen capable of causing multiple pulmonary diseases, including invasive aspergillosis, chronic necrotizing aspergillosis, fungal colonization, and allergic bronchopulmonary aspergillosis. Intact mucociliary barrier function and early airway neutrophil responses are critical for clearing fungal conidia from the host airways prior to establishing disease. Following inhalation, Aspergillus conidia deposit in the small airways, where they are likely to make their initial host encounter with epithelial cells. Challenges in airway infection models have limited the ability to explore early steps in the interactions between A. fumigatus and the human airway epithelium. Here, we use inverted air-liquid interface cultures to demonstrate that the human airway epithelium responds to apical stimulation by A. fumigatus to promote the transepithelial migration of neutrophils from the basolateral membrane surface to the apical airway surface. Promoting epithelial transmigration with Aspergillus required prolonged exposure with live resting conidia. Swollen conidia did not expedite epithelial transmigration. Using A. fumigatus strains containing deletions of genes for cell wall components, we identified that deletion of the hydrophobic rodlet layer or dihydroxynaphthalene-melanin in the conidial cell wall amplified the epithelial transmigration of neutrophils, using primary human airway epithelium. Ultimately, we show that an as-yet-unidentified nonsecreted cell wall protein is required to promote the early epithelial transmigration of human neutrophils into the airspace in response to A. fumigatus Together, these data provide critical insight into the initial epithelial host response to Aspergillus.


Subject(s)
Aspergillosis/immunology , Aspergillus fumigatus/immunology , Cell Wall/immunology , Epithelial Cells/immunology , Neutrophils/immunology , Aspergillosis/microbiology , Cell Line, Tumor , Epithelial Cells/microbiology , Humans , Lung/immunology , Lung/microbiology , Melanins/immunology , Naphthols/immunology , Spores, Fungal/immunology
6.
J Med Case Rep ; 13(1): 283, 2019 Sep 09.
Article in English | MEDLINE | ID: mdl-31495337

ABSTRACT

BACKGROUND: Primary spontaneous pneumothorax is a common disorder occurring in young adults without underlying lung disease. Although tobacco smoking is a well-documented risk factor for spontaneous pneumothorax, an association between electronic cigarette use (that is, vaping) and spontaneous pneumothorax has not been noted. We report a case of spontaneous pneumothoraces correlated with vaping. CASE PRESENTATION: An 18-year-old Caucasian man presented twice with recurrent right-sided spontaneous pneumothoraces within 2 weeks. He reported a history of vaping just prior to both episodes. Diagnostic testing was notable for a right-sided spontaneous pneumothorax on chest X-ray and computed tomography scan. His symptoms improved following insertion of a chest tube and drainage of air on each occasion. In the 2-week follow-up visit for the recurrent episode, he was asymptomatic and reported that he was no longer using electronic cigarettes. CONCLUSIONS: Providers and patients should be aware of the potential risk of spontaneous pneumothorax associated with electronic cigarettes.


Subject(s)
Pneumothorax/etiology , Vaping/adverse effects , Adolescent , Chest Tubes , Drainage , Humans , Male , Pneumothorax/therapy , Recurrence
7.
J Immunol ; 202(11): 3256-3266, 2019 06 01.
Article in English | MEDLINE | ID: mdl-31010852

ABSTRACT

Tetraspanins are a family of proteins possessing four transmembrane domains that help in lateral organization of plasma membrane proteins. These proteins interact with each other as well as other receptors and signaling proteins, resulting in functional complexes called "tetraspanin microdomains." Tetraspanins, including CD82, play an essential role in the pathogenesis of fungal infections. Dectin-1, a receptor for the fungal cell wall carbohydrate ß-1,3-glucan, is vital to host defense against fungal infections. The current study identifies a novel association between tetraspanin CD82 and Dectin-1 on the plasma membrane of Candida albicans-containing phagosomes independent of phagocytic ability. Deletion of CD82 in mice resulted in diminished fungicidal activity, increased C. albicans viability within macrophages, and decreased cytokine production (TNF-α, IL-1ß) at both mRNA and protein level in macrophages. Additionally, CD82 organized Dectin-1 clustering in the phagocytic cup. Deletion of CD82 modulates Dectin-1 signaling, resulting in a reduction of Src and Syk phosphorylation and reactive oxygen species production. CD82 knockout mice were more susceptible to C. albicans as compared with wild-type mice. Furthermore, patient C. albicans-induced cytokine production was influenced by two human CD82 single nucleotide polymorphisms, whereas an additional CD82 single nucleotide polymorphism increased the risk for candidemia independent of cytokine production. Together, these data demonstrate that CD82 organizes the proper assembly of Dectin-1 signaling machinery in response to C. albicans.


Subject(s)
Candida albicans/physiology , Candidiasis/metabolism , Cell Membrane/metabolism , Kangai-1 Protein/metabolism , Lectins, C-Type/metabolism , Macrophages/immunology , Phagosomes/metabolism , Animals , Candidiasis/immunology , Cell Line , Genetic Predisposition to Disease , Humans , Immunity, Cellular , Interleukin-1beta/metabolism , Kangai-1 Protein/genetics , Lectins, C-Type/genetics , Membrane Microdomains/metabolism , Mice , Mice, Inbred C57BL , Mice, Knockout , Polymorphism, Single Nucleotide , Signal Transduction , Tumor Necrosis Factor-alpha/metabolism
8.
Am J Respir Cell Mol Biol ; 61(3): 322-331, 2019 09.
Article in English | MEDLINE | ID: mdl-30848657

ABSTRACT

Mucin-secreting goblet cell metaplasia and hyperplasia (GCMH) is a common pathological phenotype in many human respiratory diseases, including asthma, chronic obstructive pulmonary disease, cystic fibrosis, primary ciliary dyskinesia, and infections. A better understanding of how goblet cell quantities or proportions in the airway epithelium are regulated may provide novel therapeutic targets to mitigate GCMH in these devastating diseases. We identify canonical SMAD signaling as the principal pathway restricting goblet cell differentiation in human airway epithelium. Differentiated goblet cells express low levels of phosphorylated SMAD. Accordingly, inhibition of SMAD signaling markedly amplifies GCMH induced by mucous mediators. In contrast, SMAD signaling activation impedes goblet cell generation and accelerates the resolution of preexisting GCMH. SMAD signaling inhibition can override the suppressive effects imposed by a GABAergic receptor inhibitor, suggesting the GABAergic pathway likely operates through inhibition of SMAD signaling in regulating mucous differentiation. Collectively, our data demonstrate that SMAD signaling plays a determining role in mucous cell differentiation, and thus raise the possibility that dysregulation of this pathway contributes to respiratory pathophysiology during airway inflammation and pulmonary diseases. In addition, our study also highlights the potential for SMAD modulation as a therapeutic target in mitigating GCMH.


Subject(s)
Cell Differentiation/physiology , Epithelium/pathology , Goblet Cells/pathology , Respiratory Mucosa/metabolism , Asthma/metabolism , Asthma/pathology , Epithelium/metabolism , Humans , Lung/metabolism , Lung/pathology , Metaplasia/metabolism , Metaplasia/pathology , Mucus/metabolism , Signal Transduction/physiology
9.
Semin Cell Dev Biol ; 89: 16-23, 2019 05.
Article in English | MEDLINE | ID: mdl-29727727

ABSTRACT

Phagocytosis is an essential step in the innate immune response to invasive fungal infections. This process is carried out by a proverbial "village" of professional phagocytic cells, which have evolved efficient machinery to recognize and ingest pathogens, namely macrophages, neutrophils and dendritic cells. These innate immune cells drive early cytokine production, fungicidal activity, antigen presentation and activation of the adaptive immune system. Despite the development of antifungal agents with potent activity, the biological activity of professional phagocytic innate immune cells has proven indispensable in protecting a host from invasive fungal infections. Additionally, an emerging body of evidence suggests non-professional phagocytes, such as airway epithelial cells, carry out phagocytosis and may play a critical role in the elimination of fungal pathogens. Here, we review recent advances of phagocytosis by both professional and non-professional phagocytes in response to fungal pathogens, with a focus on invasive aspergillosis as a model disease.


Subject(s)
Adaptive Immunity/immunology , Immunity, Innate/immunology , Invasive Fungal Infections/immunology , Phagocytes/immunology , Antigen Presentation/immunology , Cytokines/immunology , Dendritic Cells/immunology , Dendritic Cells/microbiology , Fungi/immunology , Fungi/pathogenicity , Humans , Invasive Fungal Infections/microbiology , Macrophages/immunology , Macrophages/microbiology , Neutrophils/immunology , Neutrophils/microbiology , Phagocytes/microbiology , Phagocytosis
10.
Virulence ; 9(1): 1150-1162, 2018.
Article in English | MEDLINE | ID: mdl-29962263

ABSTRACT

Candida spp. are the fourth leading cause of nosocomial blood stream infections in North America. Candida glabrata is the second most frequently isolated species, and rapid development of antifungal resistance has made treatment a challenge. In this study, we investigate the therapeutic potential of metformin, a biguanide with well-established action for diabetes, as an antifungal agent against C. glabrata. Both wild type and antifungal-resistant isolates of C. glabrata were subjected to biguanide and biguanide-antifungal combination treatment. Metformin, as well as other members of the biguanide family, were found to have antifungal activity against C. glabrata, with MIC50 of 9.34 ± 0.16 mg/mL, 2.09 ± 0.04 mg/mL and 1.87 ± 0.05 mg/mL for metformin, phenformin and buformin, respectively. We demonstrate that biguanides enhance the activity of several antifungal drugs, including voriconazole, fluconazole, and amphotericin, but not micafungin. The biguanide-antifungal combinations allowed for additional antifungal effects, with fraction inhibition concentration indexes ranging from 0.5 to 1. Furthermore, metformin was able to lower antifungal MIC50 in voriconazole and fluconazole-resistant clinical isolates of C. glabrata. We also observed growth reduction of C. glabrata with rapamycin and an FIC of 0.84 ± 0.09 when combined with metformin, suggesting biguanide action in C. glabrata may be related to inhibition of the mTOR complex. We conclude that the biguanide class has direct antifungal therapeutic potential and enhances the activity of select antifungals in the treatment of resistant C. glabrata isolates. These data support the further investigation of biguanides in the combination treatment of serious fungal infections.


Subject(s)
Antifungal Agents/pharmacology , Biguanides/pharmacology , Candida glabrata/drug effects , Candida/drug effects , Amphotericin B/pharmacology , Candida glabrata/growth & development , Drug Combinations , Drug Resistance, Fungal , Echinocandins/pharmacology , Fluconazole/pharmacology , Humans , Lipopeptides/pharmacology , Metformin/pharmacology , Micafungin , Microbial Sensitivity Tests , Mycoses/drug therapy , Mycoses/microbiology , TOR Serine-Threonine Kinases/drug effects , Voriconazole/pharmacology
11.
Front Immunol ; 9: 1058, 2018.
Article in English | MEDLINE | ID: mdl-29868018

ABSTRACT

Macrophages play a critical role in the elimination of fungal pathogens. They are sensed via cell surface pattern-recognition receptors and are phagocytosed into newly formed organelles called phagosomes. Phagosomes mature through the recruitment of proteins and lysosomes, resulting in addition of proteolytic enzymes and acidification of the microenvironment. Our earlier studies demonstrated an essential role of Dectin-1-dependent activation of spleen tyrosine kinase (Syk) in the maturation of fungal containing phagosomes. The absence of Syk activity interrupted phago-lysosomal fusion resulting in arrest at an early phagosome stage. In this study, we sought to define the contribution of Syk to the control of phagocytosed live Candida glabrata in primary macrophages. To accurately measure intracellular yeast division, we designed a carboxyfluorescein succinimidyl ester (CFSE) yeast division assay in which bright fluorescent parent cells give rise to dim daughter cells. The CFSE-labeling of C. glabrata did not affect the growth rate of the yeast. Following incubation with macrophages, internalized CFSE-labeled C. glabrata were retrieved by cellular lysis, tagged using ConA-647, and the amount of residual CFSE fluorescence was assessed by flow cytometry. C. glabrata remained undivided (CFSE bright) for up to 18 h in co-culture with primary macrophages. Treatment of macrophages with R406, a specific Syk inhibitor, resulted in loss of intracellular control of C. glabrata with initiation of division within 4 h. Delayed Syk inhibition after 8 h was less effective indicating that Syk is critically required at early stages of macrophage-fungal interaction. In conclusion, we demonstrate a new method of tracking division of C. glabrata using CFSE labeling. Our results suggest that early Syk activation is essential for macrophage control of phagocytosed C. glabrata.


Subject(s)
Candida glabrata/physiology , Candidiasis/metabolism , Candidiasis/microbiology , Cell Division , Macrophages/metabolism , Macrophages/microbiology , Syk Kinase/metabolism , Animals , Biomarkers , Candidiasis/immunology , Cell Tracking/methods , Fluorescent Antibody Technique , Macrophages/immunology , Macrophages, Peritoneal/immunology , Macrophages, Peritoneal/metabolism , Macrophages, Peritoneal/microbiology , Mice , Phagocytosis , Reactive Oxygen Species/metabolism , Signal Transduction
12.
Nat Struct Mol Biol ; 19(9): 957-63, 2012 Sep.
Article in English | MEDLINE | ID: mdl-22902368

ABSTRACT

Protein synthesis is targeted by numerous, chemically distinct antibiotics that bind and inhibit key functional centers of the ribosome. Using single-molecule imaging and X-ray crystallography, we show that the aminoglycoside neomycin blocks aminoacyl-transfer RNA (aa-tRNA) selection and translocation as well as ribosome recycling by binding to helix 69 (H69) of 23S ribosomal RNA within the large subunit of the Escherichia coli ribosome. There, neomycin prevents the remodeling of intersubunit bridges that normally accompanies the process of subunit rotation to stabilize a partially rotated ribosome configuration in which peptidyl (P)-site tRNA is constrained in a previously unidentified hybrid position. Direct measurements show that this neomycin-stabilized intermediate is incompatible with the translation factor binding that is required for distinct protein synthesis reactions. These findings reveal the functional importance of reversible intersubunit rotation to the translation mechanism and shed new light on the allosteric control of ribosome functions by small-molecule antibiotics.


Subject(s)
Anti-Bacterial Agents/pharmacology , Escherichia coli/drug effects , Neomycin/pharmacology , RNA, Bacterial/metabolism , RNA, Transfer, Amino Acyl/metabolism , Ribosome Subunits, Large, Bacterial/drug effects , Anti-Bacterial Agents/chemistry , Crystallography, X-Ray , Escherichia coli/chemistry , Escherichia coli/metabolism , Escherichia coli Proteins/metabolism , Models, Molecular , Neomycin/chemistry , Protein Biosynthesis/drug effects , RNA, Bacterial/chemistry , RNA, Ribosomal/chemistry , RNA, Ribosomal/metabolism , Ribosome Subunits, Large, Bacterial/chemistry , Ribosome Subunits, Large, Bacterial/metabolism , Ribosome Subunits, Small, Bacterial/chemistry , Ribosome Subunits, Small, Bacterial/drug effects , Ribosome Subunits, Small, Bacterial/metabolism
13.
Science ; 332(6032): 981-4, 2011 May 20.
Article in English | MEDLINE | ID: mdl-21596992

ABSTRACT

During protein synthesis, the ribosome controls the movement of tRNA and mRNA by means of large-scale structural rearrangements. We describe structures of the intact bacterial ribosome from Escherichia coli that reveal how the ribosome binds tRNA in two functionally distinct states, determined to a resolution of ~3.2 angstroms by means of x-ray crystallography. One state positions tRNA in the peptidyl-tRNA binding site. The second, a fully rotated state, is stabilized by ribosome recycling factor and binds tRNA in a highly bent conformation in a hybrid peptidyl/exit site. The structures help to explain how the ratchet-like motion of the two ribosomal subunits contributes to the mechanisms of translocation, termination, and ribosome recycling.


Subject(s)
RNA, Bacterial/metabolism , RNA, Transfer, Phe/metabolism , Ribosome Subunits, Large, Bacterial/chemistry , Ribosome Subunits, Large, Bacterial/metabolism , Ribosome Subunits, Small, Bacterial/chemistry , Ribosome Subunits, Small, Bacterial/metabolism , Anticodon/chemistry , Anticodon/metabolism , Crystallography, X-Ray , Escherichia coli , Escherichia coli Proteins/metabolism , Models, Molecular , Nucleic Acid Conformation , Protein Biosynthesis , RNA, Bacterial/chemistry , RNA, Messenger/chemistry , RNA, Messenger/metabolism , RNA, Ribosomal, 16S/chemistry , RNA, Ribosomal, 16S/metabolism , RNA, Ribosomal, 23S/chemistry , RNA, Ribosomal, 23S/metabolism , RNA, Transfer, Amino Acyl/chemistry , RNA, Transfer, Amino Acyl/metabolism , RNA, Transfer, Phe/chemistry , Ribosomal Proteins/metabolism , Ribosome Subunits, Large, Bacterial/ultrastructure , Ribosome Subunits, Small, Bacterial/ultrastructure
14.
Ann N Y Acad Sci ; 1241: E1-16, 2011 Dec.
Article in English | MEDLINE | ID: mdl-23419024

ABSTRACT

Single-molecule fluorescence imaging has provided unprecedented access to the dynamics of ribosome function, revealing transient intermediate states that are critical to ribosome activity. Imaging platforms have now been developed that are capable of probing many hundreds of molecules simultaneously at temporal and spatial resolutions approaching the sub-millisecond time and the sub-nanometer scales. These advances enable both steady- and pre-steady state measurements of individual steps in the translation process as well as processive reactions. The data generated using these methods have yielded new, quantitative structural and kinetic insights into ribosomal activity. They have also shed light on the mechanisms of antibiotic targeting the translation apparatus, revealing features of the structure-function relationship that would be difficult to obtain by other means. This review provides an overview of the types of information that can be obtained using such imaging platforms and a blueprint for using the technique to assess how small-molecule antibiotics alter macromolecular functions.


Subject(s)
Anti-Bacterial Agents/pharmacology , Molecular Imaging/methods , Ribosomes/drug effects , Anti-Bacterial Agents/chemistry , Binding Sites , Microscopy, Fluorescence/methods , Protein Biosynthesis/drug effects , Ribosomes/chemistry , Ribosomes/metabolism , Structure-Activity Relationship
15.
J Mol Biol ; 399(4): 576-95, 2010 Jun 18.
Article in English | MEDLINE | ID: mdl-20434456

ABSTRACT

Aminoacyl-tRNA (aa-tRNA), in a ternary complex with elongation factor-Tu and GTP, enters the aminoacyl (A) site of the ribosome via a multi-step, mRNA codon-dependent mechanism. This process gives rise to the preferential selection of cognate aa-tRNAs for each mRNA codon and, consequently, the fidelity of gene expression. The ribosome actively facilitates this process by recognizing structural features of the correct substrate, initiated in its decoding site, to accelerate the rates of elongation factor-Tu-catalyzed GTP hydrolysis and ribosome-catalyzed peptide bond formation. Here, the order and timing of conformational events underpinning the aa-tRNA selection process were investigated from multiple structural perspectives using single-molecule fluorescence resonance energy transfer. The time resolution of these measurements was extended to 2.5 and 10 ms, a 10- to 50-fold improvement over previous studies. The data obtained reveal that aa-tRNA undergoes fast conformational sampling within the A site, both before and after GTP hydrolysis. This suggests that the alignment of aa-tRNA with respect to structural elements required for irreversible GTP hydrolysis and peptide bond formation plays a key role in the fidelity mechanism. These observations provide direct evidence that the selection process is governed by motions of aa-tRNA within the A site, adding new insights into the physical framework that helps explain how the rates of GTP hydrolysis and peptide bond formation are controlled by the mRNA codon and other fidelity determinants within the system.


Subject(s)
Escherichia coli/metabolism , RNA, Bacterial/chemistry , RNA, Bacterial/metabolism , RNA, Transfer, Amino Acyl/chemistry , RNA, Transfer, Amino Acyl/metabolism , Ribosomes/metabolism , Codon/genetics , Codon/metabolism , Escherichia coli/genetics , Fluorescence Resonance Energy Transfer , Fluorescent Dyes , Guanosine Triphosphate/chemistry , Guanosine Triphosphate/metabolism , Hydrolysis , Kinetics , Macromolecular Substances , Models, Biological , Models, Molecular , Nucleic Acid Conformation , Peptide Elongation Factor Tu/chemistry , Peptide Elongation Factor Tu/metabolism , RNA, Bacterial/genetics , RNA, Transfer, Met/chemistry , RNA, Transfer, Met/metabolism , RNA, Transfer, Phe/chemistry , RNA, Transfer, Phe/metabolism
17.
Nat Chem Biol ; 6(1): 54-62, 2010 Jan.
Article in English | MEDLINE | ID: mdl-19946275

ABSTRACT

Aminoglycoside-class antibiotics bind directly to ribosomal RNA, imparting pleiotropic effects on ribosome function. Despite in-depth structural investigations of aminoglycoside-RNA oligonucleotide and aminoglycoside-ribosome interactions, mechanisms explaining the unique ribosome inhibition profiles of chemically similar aminoglycosides remain elusive. Here, using single-molecule fluorescence resonance energy transfer (smFRET) methods, we show that high-affinity aminoglycoside binding to the conserved decoding site region of the functional pre-translocation ribosome complex specifically remodels the nature of intrinsic dynamic processes within the particle. The extents of these effects, which are distinct for each member of the aminoglycoside class, strongly correlate with their inhibition of EF-G-catalyzed translocation. Neomycin, a 4,5-linked aminoglycoside, binds with lower affinity to one or more secondary binding sites, mediating distinct structural and dynamic perturbations that further enhance translocation inhibition. These new insights help explain why closely related aminoglycosides elicit pleiotropic translation activities and demonstrate the potential utility of smFRET as a tool for dissecting the mechanisms of antibiotic action.


Subject(s)
Aminoglycosides/chemistry , Ribosomes/metabolism , Binding Sites , Conserved Sequence , Cryoelectron Microscopy , Fluorescence Resonance Energy Transfer , Kanamycin/chemistry , Kinetics , Models, Molecular , Mutation , Neomycin/chemistry , Oligonucleotides/chemistry , Protein Binding , Protein Transport , RNA/chemistry , RNA, Transfer/chemistry , Reproducibility of Results , Ribosomes/chemistry
18.
Org Lett ; 7(1): 91-4, 2005 Jan 06.
Article in English | MEDLINE | ID: mdl-15624985

ABSTRACT

Tetranitrooxacalix[4]arenes are generated in high yield by the room-temperature S(N)Ar reaction of 1,3-dihydroxybenzenes with 1,5-difluoro-2,4-dinitrobenzene. The reaction is tolerant to a range of functionality on the nucleophilic component, including hydroxyl-substitution at the 2- and 5-positions, which yields previously unknown 26,28- and 5,17-dihydroxyoxacalix[4]arenes.

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