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1.
Cell Host Microbe ; 21(3): 376-389, 2017 Mar 08.
Article in English | MEDLINE | ID: mdl-28279347

ABSTRACT

The BabA adhesin mediates high-affinity binding of Helicobacter pylori to the ABO blood group antigen-glycosylated gastric mucosa. Here we show that BabA is acid responsive-binding is reduced at low pH and restored by acid neutralization. Acid responsiveness differs among strains; often correlates with different intragastric regions and evolves during chronic infection and disease progression; and depends on pH sensor sequences in BabA and on pH reversible formation of high-affinity binding BabA multimers. We propose that BabA's extraordinary reversible acid responsiveness enables tight mucosal bacterial adherence while also allowing an effective escape from epithelial cells and mucus that are shed into the acidic bactericidal lumen and that bio-selection and changes in BabA binding properties through mutation and recombination with babA-related genes are selected by differences among individuals and by changes in gastric acidity over time. These processes generate diverse H. pylori subpopulations, in which BabA's adaptive evolution contributes to H. pylori persistence and overt gastric disease.


Subject(s)
Adhesins, Bacterial/metabolism , Bacterial Adhesion , Gastric Mucosa/microbiology , Helicobacter Infections/microbiology , Helicobacter pylori/physiology , Gastric Mucosa/pathology , Helicobacter Infections/pathology , Hydrogen-Ion Concentration
2.
PLoS One ; 11(3): e0150166, 2016.
Article in English | MEDLINE | ID: mdl-27015536

ABSTRACT

Yersinia pestis enters host cells and evades host defenses, in part, through interactions between Yersinia pestis proteins and host membranes. One such interaction is through the type III secretion system, which uses a highly conserved and ordered complex for Yersinia pestis outer membrane effector protein translocation called the injectisome. The portion of the injectisome that interacts directly with host cell membranes is referred to as the translocon. The translocon is believed to form a pore allowing effector molecules to enter host cells. To facilitate mechanistic studies of the translocon, we have developed a cell-free approach for expressing translocon pore proteins as a complex supported in a bilayer membrane mimetic nano-scaffold known as a nanolipoprotein particle (NLP) Initial results show cell-free expression of Yersinia pestis outer membrane proteins YopB and YopD was enhanced in the presence of liposomes. However, these complexes tended to aggregate and precipitate. With the addition of co-expressed (NLP) forming components, the YopB and/or YopD complex was rendered soluble, increasing the yield of protein for biophysical studies. Biophysical methods such as Atomic Force Microscopy and Fluorescence Correlation Spectroscopy were used to confirm that the soluble YopB/D complex was associated with NLPs. An interaction between the YopB/D complex and NLP was validated by immunoprecipitation. The YopB/D translocon complex embedded in a NLP provides a platform for protein interaction studies between pathogen and host proteins. These studies will help elucidate the poorly understood mechanism which enables this pathogen to inject effector proteins into host cells, thus evading host defenses.


Subject(s)
Bacterial Outer Membrane Proteins/metabolism , Lipoproteins/metabolism , Nanoparticles/metabolism , Bacterial Outer Membrane Proteins/biosynthesis , Bacterial Outer Membrane Proteins/chemistry , Bacterial Outer Membrane Proteins/ultrastructure , Biophysical Phenomena , Gene Expression Regulation , Lipoproteins/chemistry , Lipoproteins/ultrastructure , Microscopy, Atomic Force , Multiprotein Complexes/ultrastructure , Nanoparticles/chemistry , Nanoparticles/ultrastructure , Yersinia pestis/genetics , Yersinia pestis/metabolism
3.
Biochem Biophys Res Commun ; 455(1-2): 84-9, 2014 Dec 05.
Article in English | MEDLINE | ID: mdl-25445603

ABSTRACT

In order to realize the goal of stratified and/or personalized medicine in the clinic, significant advances in the field of biomarker discovery are necessary. Adding to the abundance of nucleic acid biomarkers being characterized, additional protein biomarkers will be needed to satisfy diverse clinical needs. An appropriate source for finding these biomarkers is within blood, as it contains tissue leakage factors as well as additional proteins that reside in blood that can be linked to the presence of disease. Unfortunately, high abundant proteins and complexity of the blood proteome present significant challenges for the discovery of protein biomarkers from blood. Animal models often enable the discovery of biomarkers that can later be translated to humans. Therefore, determining appropriate sample preparation of proteomic samples in rodent models is an important research goal. Here, we examined both mouse and rat blood samples (including both serum and plasma), for appropriate high abundant protein removal techniques for subsequent gel-based proteomic experiments. We assessed four methods of albumin removal: antibody-based affinity chromatography (MARS), Cibacron® Blue-based affinity depletion (SwellGel® Blue Albumin Removal Kit), protein-based affinity depletion (ProteaPrep Albumin Depletion Kit) and TCA/acetone precipitation. Albumin removal was quantified for each method and SDS-PAGE and 2-DE gels were used to quantify the number of protein spots obtained following albumin removal. Our results suggest that while all four approaches can effectively remove high abundant proteins, antibody-based affinity chromatography is superior to the other three methods.


Subject(s)
Biomarkers/blood , Chromatography, Affinity/methods , Proteomics/methods , Albumins , Animals , Electrophoresis, Gel, Two-Dimensional , Mice , Rats
4.
J Clin Microbiol ; 52(7): 2583-94, 2014 Jul.
Article in English | MEDLINE | ID: mdl-24829242

ABSTRACT

Combat wound healing and resolution are highly affected by the resident microbial flora. We therefore sought to achieve comprehensive detection of microbial populations in wounds using novel genomic technologies and bioinformatics analyses. We employed a microarray capable of detecting all sequenced pathogens for interrogation of 124 wound samples from extremity injuries in combat-injured U.S. service members. A subset of samples was also processed via next-generation sequencing and metagenomic analysis. Array analysis detected microbial targets in 51% of all wound samples, with Acinetobacter baumannii being the most frequently detected species. Multiple Pseudomonas species were also detected in tissue biopsy specimens. Detection of the Acinetobacter plasmid pRAY correlated significantly with wound failure, while detection of enteric-associated bacteria was associated significantly with successful healing. Whole-genome sequencing revealed broad microbial biodiversity between samples. The total wound bioburden did not associate significantly with wound outcome, although temporal shifts were observed over the course of treatment. Given that standard microbiological methods do not detect the full range of microbes in each wound, these data emphasize the importance of supplementation with molecular techniques for thorough characterization of wound-associated microbes. Future application of genomic protocols for assessing microbial content could allow application of specialized care through early and rapid identification and management of critical patterns in wound bioburden.


Subject(s)
Bacteria/classification , Bacteria/isolation & purification , Biota , High-Throughput Nucleotide Sequencing/methods , Microarray Analysis/methods , Wound Infection/microbiology , Adult , Bacteria/genetics , Bacterial Load , Humans , Military Personnel , Wound Healing , Young Adult
5.
Dev Cell ; 29(2): 217-32, 2014 Apr 28.
Article in English | MEDLINE | ID: mdl-24746669

ABSTRACT

A substantial amount of mitochondrial energy is required for cell-cycle progression. The mechanisms underlying the coordination of the mitochondrial respiration with cell-cycle progression, especially the G2/M transition, remain to be elucidated. Here, we show that a fraction of cyclin B1/Cdk1 proteins localizes to the matrix of mitochondria and phosphorylates a cluster of mitochondrial proteins, including the complex I (CI) subunits in the respiratory chain. Cyclin B1/Cdk1-mediated CI phosphorylation enhances CI activity, whereas deficiency of such phosphorylation in each of the relevant CI subunits results in impairment of CI function. Mitochondria-targeted cyclin B1/Cdk1 increases mitochondrial respiration with enhanced oxygen consumption and ATP generation, which provides cells with efficient bioenergy for G2/M transition and shortens overall cell-cycle time. Thus, cyclin B1/Cdk1-mediated phosphorylation of mitochondrial substrates allows cells to sense and respond to increased energy demand for G2/M transition and, subsequently, to upregulate mitochondrial respiration for successful cell-cycle progression.


Subject(s)
Cell Division/physiology , Cyclin B1/metabolism , Cyclin-Dependent Kinases/metabolism , G2 Phase/physiology , Mitochondria/metabolism , Animals , CDC2 Protein Kinase/genetics , CDC2 Protein Kinase/metabolism , Cyclin B1/genetics , Cyclin-Dependent Kinases/genetics , Electron Transport/physiology , Epithelial Cells/cytology , Humans , Keratinocytes/cytology , Liver/cytology , MCF-7 Cells , Mice , Mitochondrial Proteins/genetics , Mitochondrial Proteins/metabolism , Mitosis/physiology , Phosphorylation/physiology , Substrate Specificity/physiology , Cyclin-Dependent Kinase-Activating Kinase
6.
Proteome Sci ; 12(1): 10, 2014 Feb 14.
Article in English | MEDLINE | ID: mdl-24529238

ABSTRACT

BACKGROUND: Blast wounds often involve diverse tissue types and require substantial time and treatment for appropriate healing. Some of these subsequent wounds become colonized with bacteria requiring a better understanding of how the host responds to these bacteria and what proteomic factors contribute wound healing outcome. In addition, using reliable and effective proteomic sample preparation procedures can lead to novel biomarkers for improved diagnosis and therapy. RESULTS: To address this need, suitable sample preparation for 2-D DIGE proteomic characterization of wound effluent and serum samples from combat-wounded patients was investigated. Initial evaluation of crude effluent and serum proved the necessity of high abundant protein depletion. Subsequently, both samples were successfully depleted using Agilent Multiple Affinity Removal system and showed greatly improved 2-D spot maps, comprising 1,800 and 1,200 protein spots, respectively. CONCLUSION: High abundant protein removal was necessary for both wound effluent and serum. This is the first study to show a successful method for high abundant protein depletion from wound effluent which is compatible with downstream 2-D DIGE analysis. This development allows for improved biomarker discovery in wound effluent and serum samples.

7.
J Transl Med ; 11: 281, 2013 Nov 06.
Article in English | MEDLINE | ID: mdl-24192341

ABSTRACT

BACKGROUND: The ability to forecast whether a wound will heal after closure without further debridement(s), would provide substantial benefits to patients with severe extremity trauma. METHODS: Wound effluent is a readily available material which can be collected without disturbing healthy tissue. For analysis of potential host response biomarkers, forty four serial combat wound effluent samples from 19 patients with either healing or failing traumatic- and other combat-related wounds were examined by 2-D DIGE. Spot map patterns were correlated to eventual wound outcome (healed or wound failure) and analyzed using DeCyder 7.0 and differential proteins identified via LC-MS/MS. RESULTS: This approach identified 52 protein spots that were differentially expressed and thus represent candidate biomarkers for this clinical application. Many of these proteins are intimately involved in inflammatory and immune responses. Furthermore, discriminate analysis further refined the 52 differential protein spots to a smaller subset of which successfully differentiate between wounds that will heal and those that will fail and require further surgical intervention with greater than 83% accuracy. CONCLUSION: These results suggest candidates for a panel of protein biomarkers that may aid traumatic wound care prognosis and treatment. We recommend that this strategy be refined, and then externally validated, in future studies of traumatic wounds.


Subject(s)
Biomarkers/metabolism , Military Personnel , Proteins/metabolism , Warfare , Wound Healing , Wounds and Injuries/metabolism , Adult , Chromatography, Liquid , Discriminant Analysis , Humans , Male , Tandem Mass Spectrometry , Two-Dimensional Difference Gel Electrophoresis , Young Adult
8.
J Comput Aided Mol Des ; 27(4): 337-46, 2013 Apr.
Article in English | MEDLINE | ID: mdl-23612915

ABSTRACT

Hepatitis C is a global health problem. While many drug companies have active R&D efforts to develop new drugs for treating Hepatitis C virus (HCV), most target the viral enzymes. The HCV glycoprotein E2 has been shown to play an essential role in hepatocyte invasion by binding to CD81 and other cell surface receptors. This paper describes the use of AutoDock to identify ligand binding sites on the large extracellular loop of the open conformation of CD81 and to perform virtual screening runs to identify sets of small molecule ligands predicted to bind to two of these sites. The best sites selected by AutoLigand were located in regions identified by mutational studies to be the site of E2 binding. Thirty-six ligands predicted by AutoDock to bind to these sites were subsequently tested experimentally to determine if they bound to CD81-LEL. Binding assays conducted using surface Plasmon resonance revealed that 26 out of 36 (72 %) of the ligands bound in vitro to the recombinant CD81-LEL protein. Competition experiments performed using dual polarization interferometry showed that one of the ligands predicted to bind to the large cleft between the C and D helices was also effective in blocking E2 binding to CD81-LEL.


Subject(s)
Antiviral Agents/chemistry , Antiviral Agents/pharmacology , Hepacivirus/physiology , Host-Pathogen Interactions/drug effects , Tetraspanin 28/metabolism , Viral Envelope Proteins/metabolism , Binding Sites , Drug Design , Hepatitis C/drug therapy , Hepatocytes/drug effects , Hepatocytes/virology , Humans , Ligands , Models, Molecular , Protein Binding/drug effects , Tetraspanin 28/chemistry
9.
Clin Cancer Res ; 18(24): 6634-47, 2012 Dec 15.
Article in English | MEDLINE | ID: mdl-23091114

ABSTRACT

PURPOSE: To understand the role of HER2-associated signaling network in breast cancer stem cells (BCSC) using radioresistant breast cancer cells and clinical recurrent breast cancers to evaluate HER2-targeted therapy as a tumor eliminating strategy for recurrent HER2(-/low) breast cancers. EXPERIMENTAL DESIGN: HER2-expressing BCSCs (HER2(+)/CD44(+)/CD24(-/low)) were isolated from radiation-treated breast cancer MCF7 cells and in vivo irradiated MCF7 xenograft tumors. Tumor aggressiveness and radioresistance were analyzed by gap filling, Matrigel invasion, tumor-sphere formation, and clonogenic survival assays. The HER2/CD44 feature was analyzed in 40 primary and recurrent breast cancer specimens. Protein expression profiling in HER2(+)/CD44(+)/CD24(-/low) versus HER2(-)/CD44(+)/CD24(-/low) BCSCs was conducted with two-dimensional difference gel electrophoresis (2-D DIGE) and high-performance liquid chromatography tandem mass spectrometry (HPLC/MS-MS) analysis and HER2-mediated signaling network was generated by MetaCore program. RESULTS: Compared with HER2-negative BCSCs, HER2(+)/CD44(+)/CD24(-/low) cells showed elevated aldehyde dehydrogenase (ALDH) activity and aggressiveness tested by Matrigel invasion, tumor sphere formation, and in vivo tumorigenesis. The enhanced aggressive phenotype and radioresistance of the HER2(+)/CD44(+)/CD24(-/low) cells were markedly reduced by inhibition of HER2 via siRNA or Herceptin treatments. Clinical breast cancer specimens revealed that cells coexpressing HER2 and CD44 were more frequently detected in recurrent (84.6%) than primary tumors (57.1%). In addition, 2-D DIGE and HPLC/MS-MS of HER2(+)/CD44(+)/CD24(-/low) versus HER2(-)/CD44(+)/CD24(-/low) BCSCs reported a unique HER2-associated protein profile including effectors involved in tumor metastasis, apoptosis, mitochondrial function, and DNA repair. A specific feature of HER2-STAT3 network was identified. CONCLUSION: This study provides the evidence that HER2-mediated prosurvival signaling network is responsible for the aggressive phenotype of BCSCs that could be targeted to control the therapy-resistant HER2(-/low) breast cancer.


Subject(s)
Breast Neoplasms/radiotherapy , Neoplastic Stem Cells/radiation effects , Receptor, ErbB-2/metabolism , Animals , Apoptosis/radiation effects , Breast Neoplasms/metabolism , Breast Neoplasms/pathology , CD24 Antigen/metabolism , Cell Movement , Cell Transformation, Neoplastic/radiation effects , Female , Gene Expression , Humans , Hyaluronan Receptors/metabolism , MCF-7 Cells , Membrane Potential, Mitochondrial/radiation effects , Mice , Mice, Inbred NOD , Mice, Nude , Mice, SCID , Neoplasm Recurrence, Local/metabolism , Neoplastic Stem Cells/metabolism , Radiation Tolerance , Receptor, ErbB-2/genetics , STAT3 Transcription Factor/metabolism , Spheroids, Cellular/metabolism , Transcriptional Activation , Xenograft Model Antitumor Assays
10.
Free Radic Biol Med ; 53(10): 1838-47, 2012 Nov 15.
Article in English | MEDLINE | ID: mdl-23000060

ABSTRACT

The cellular adaptive response to certain low-level genotoxic stresses, including exposure to low-dose ionizing radiation (LDIR), shows promise as a tool to enhance radioprotection in normal cells but not in tumor cells. Manganese superoxide dismutase (MnSOD), a fundamental mitochondrial antioxidant in mammalian cells, plays a key role in the LDIR-induced adaptive response. In this study, we aimed to elucidate the signaling network associated with MnSOD-induced radiation protection. A MnSOD-interacting protein profile was established in LDIR-treated human skin cells. Human skin keratinocytes (HK18) were irradiated with a single dose of LDIR (10 cGy X-ray) and the cell lysates were immunoprecipitated using α-MnSOD and applied to two different gel-based proteomic experiments followed by mass spectrometry for protein identification. Analysis of the profiles of MnSOD-interacting partners before and after LDIR detected various patterns of MnSOD protein-protein interactions in response to LDIR. Interestingly, many of the MnSOD-interacting proteins are known to have functions related to mitochondrial regulation of cell metabolism, apoptosis, and DNA repair. These results provide evidence indicating that in addition to the enzymatic action of detoxifying superoxide, the antioxidant MnSOD may function as a signaling regulator in stress-induced adaptive protection through cell survival pathways.


Subject(s)
Keratinocytes/metabolism , Keratinocytes/radiation effects , Mitochondria/metabolism , Radiation-Protective Agents/metabolism , Superoxide Dismutase/metabolism , Apoptosis , Cell Survival , Cells, Cultured , DNA Repair , Dose-Response Relationship, Radiation , Humans , Mitochondria/genetics , Mitochondrial Proteins/metabolism , Proteomics , Radiation, Ionizing , Signal Transduction , Superoxide Dismutase/genetics
11.
Future Microbiol ; 7(8): 1011-20, 2012 Aug.
Article in English | MEDLINE | ID: mdl-22913359

ABSTRACT

AIMS: Estimates suggest that the drug discovery and development processes take between 10 and 15 years, with costs ranging between US$500 million and $2 billion. A growing number of bacteria have become resistant to approved antimicrobials. For example, the Gram-negative bacterium Acinetobacter baumannii has become multidrug resistant (MDR) and is now an important pathogen to the US military in terms of wound infections. Industry experts have called for a 'disruptive' transformation of the drug discovery process to find new chemical entities for treating drug-resistant infections. One such attempt is drug 'repurposing' or 'repositioning' - that is, identification and development of new uses for existing or abandoned pharmacotherapies. MATERIALS & METHODS: Using a novel combination of screening technologies based on cell growth and cellular respiration, we screened 450 US FDA-approved drugs from the NIH National Clinical Collection against a dozen clinical MDR A. baumannii (MDRAb) isolates from US soldiers and Marines. We also screened the collection against a diverse set of select agent surrogate pathogens. RESULTS: Seventeen drugs showed promising antimicrobial activity against all MDRAb isolates and select agent surrogates; three of these compounds - all rifamycins - were found to be effective at preventing growth and preventing cellular respiration of MDRAb and select agent surrogate bacteria when evaluated in growth prevention assays, highlighting the potential for repurposing. CONCLUSION: We report the discovery of a class of known compounds whose repurposing may be useful in solving the current problem with MDRAb and may lead to the discovery of broad-spectrum antimicrobials.


Subject(s)
Anti-Bacterial Agents/pharmacology , Bacteria/drug effects , Drug Resistance, Multiple, Bacterial , Rifamycins/pharmacology , Bacteria/growth & development , Bacteria/metabolism , Drug Evaluation, Preclinical/methods , Humans , Microbial Sensitivity Tests
12.
BMC Microbiol ; 12: 79, 2012 May 20.
Article in English | MEDLINE | ID: mdl-22607329

ABSTRACT

BACKGROUND: Rapid detection and therapeutic intervention for infectious and emerging diseases is a major scientific goal in biodefense and public health. Toward this end, cytokine profiles in human blood were investigated using a human whole blood ex vivo exposure model, called WEEM. RESULTS: Samples of whole blood from healthy volunteers were incubated with seven pathogens including Yersinia pseudotuberculosis, Yersinia enterocolitica, Bacillus anthracis, and multiple strains of Yersinia pestis, and multiplexed protein expression profiling was conducted on supernatants of these cultures with an antibody array to detect 30 cytokines simultaneously. Levels of 8 cytokines, IL-1α, IL-1ß, IL-6, IL-8, IL-10, IP-10, MCP-1 and TNFα, were significantly up-regulated in plasma after bacterial exposures of 4 hours. Statistical clustering was applied to group the pathogens based on the host response protein expression profiles. The nearest phylogenetic neighbors clustered more closely than the more distant pathogens, and all seven pathogens were clearly differentiated from the unexposed control. In addition, the Y. pestis and Yersinia near neighbors were differentiated from the B. anthracis strains. CONCLUSIONS: Cluster analysis, based on host response cytokine profiles, indicates that distinct patterns of immunomodulatory proteins are induced by the different pathogen exposures and these patterns may enable further development into biomarkers for diagnosing pathogen exposure.


Subject(s)
Bacillus anthracis/immunology , Biological Warfare Agents , Blood/immunology , Cytokines/metabolism , Yersinia/immunology , Bacillus anthracis/pathogenicity , Cells, Cultured , Cluster Analysis , Humans , Yersinia/pathogenicity
13.
J Biol Chem ; 286(50): 43250-8, 2011 Dec 16.
Article in English | MEDLINE | ID: mdl-21940632

ABSTRACT

Cartilage oligomeric matrix protein (COMP) is an important non-collagenous cartilage protein that is essential for the structural integrity of the cartilage extracellular matrix. The repeated modular structure of COMP allows it to "bridge" and assemble multiple cartilage extracellular matrix components such as collagens, matrilins, and proteoglycans. With its modular structure, COMP also has the potential to act as a scaffold for growth factors, thereby affecting how and when the growth factors are presented to cell-surface receptors. However, it is not known whether COMP binds growth factors. We studied the binding interaction between COMP and TGF-ß1 in vitro and determined the effect of COMP on TGF-ß1-induced signal transduction in reporter cell lines and primary cells. Our results demonstrate that mature COMP protein binds to multiple TGF-ß1 molecules and that the peak binding occurs at slightly acidic pH. These interactions were confirmed by dual polarization interferometry and visualized by rotary shadow electron microscopy. There is cation-independent binding of TGF-ß1 to the C-terminal domain of COMP. In the presence of manganese, an additional TGF-ß-binding site is present in the TSP3 repeats of COMP. Finally, we show that COMP-bound TGF-ß1 causes increased TGF-ß1-dependent transcription. We conclude that TGF-ß1 binds to COMP and that TGF-ß1 bound to COMP has enhanced bioactivity.


Subject(s)
Extracellular Matrix Proteins/metabolism , Glycoproteins/metabolism , Transforming Growth Factor beta1/metabolism , Bone Morphogenetic Proteins/genetics , Bone Morphogenetic Proteins/metabolism , Cartilage Oligomeric Matrix Protein , Cell Line , Enzyme-Linked Immunosorbent Assay , Extracellular Matrix Proteins/genetics , Extracellular Matrix Proteins/ultrastructure , Glycoproteins/genetics , Glycoproteins/ultrastructure , Humans , Matrilin Proteins , Microscopy, Electron, Transmission , Protein Binding , Reverse Transcriptase Polymerase Chain Reaction , Transforming Growth Factor beta1/genetics
14.
J Immunol ; 187(2): 897-904, 2011 Jul 15.
Article in English | MEDLINE | ID: mdl-21653834

ABSTRACT

Septic bacterial pneumonias are a major cause of death worldwide. Several of the highest priority bioterror concerns, including anthrax, tularemia, and plague, are caused by bacteria that acutely infect the lung. Bacterial resistance to multiple antibiotics is increasingly common. Although vaccines may be our best defense against antibiotic-resistant bacteria, there has been little progress in the development of safe and effective vaccines for pulmonary bacterial pathogens. The Gram-negative bacterium Yersinia pestis causes pneumonic plague, an acutely lethal septic pneumonia. Historic pandemics of plague caused millions of deaths, and the plague bacilli's potential for weaponization sustains an ongoing quest for effective countermeasures. Subunit vaccines have failed, to date, to fully protect nonhuman primates. In mice, they induce the production of Abs that act in concert with type 1 cytokines to deliver high-level protection; however, the Y. pestis Ags recognized by cytokine-producing T cells have yet to be defined. In this study, we report that Y. pestis YopE is a dominant Ag recognized by CD8 T cells in C57BL/6 mice. After vaccinating with live attenuated Y. pestis and challenging intranasally with virulent plague, nearly 20% of pulmonary CD8 T cells recognize this single, highly conserved Ag. Moreover, immunizing mice with a single peptide, YopE(69-77), suffices to confer significant protection from lethal pulmonary challenge. These findings suggest YopE could be a valuable addition to subunit plague vaccines and provide a new animal model in which sensitive, pathogen-specific assays can be used to study CD8 T cell-mediated defense against acutely lethal bacterial infections of the lung.


Subject(s)
CD8-Positive T-Lymphocytes/immunology , Epitopes, T-Lymphocyte/immunology , Immunodominant Epitopes/immunology , Plague/prevention & control , Vaccines, Subunit/administration & dosage , Vaccines, Subunit/immunology , Acute Disease , Animals , CD8-Positive T-Lymphocytes/microbiology , CD8-Positive T-Lymphocytes/pathology , Cells, Cultured , Clone Cells , Disease Models, Animal , Epitopes, T-Lymphocyte/administration & dosage , Immunodominant Epitopes/administration & dosage , Mice , Mice, Inbred C57BL , Mice, Knockout , Plague/immunology , Plague/mortality , Pneumonia, Bacterial/immunology , Pneumonia, Bacterial/mortality , Pneumonia, Bacterial/prevention & control , Survival Analysis , Vaccines, Attenuated/administration & dosage , Vaccines, Attenuated/chemical synthesis , Vaccines, Attenuated/immunology , Vaccines, Subunit/chemical synthesis
15.
PLoS One ; 5(7): e11643, 2010 Jul 19.
Article in English | MEDLINE | ID: mdl-20657844

ABSTRACT

BACKGROUND: Nanolipoprotein particles (NLPs) are discoidal, nanometer-sized particles comprised of self-assembled phospholipid membranes and apolipoproteins. NLPs assembled with human apolipoproteins have been used for myriad biotechnology applications, including membrane protein solubilization, drug delivery, and diagnostic imaging. To expand the repertoire of lipoproteins for these applications, insect apolipophorin-III (apoLp-III) was evaluated for the ability to form discretely-sized, homogeneous, and stable NLPs. METHODOLOGY: Four NLP populations distinct with regards to particle diameters (ranging in size from 10 nm to >25 nm) and lipid-to-apoLp-III ratios were readily isolated to high purity by size exclusion chromatography. Remodeling of the purified NLP species over time at 4 degrees C was monitored by native gel electrophoresis, size exclusion chromatography, and atomic force microscopy. Purified 20 nm NLPs displayed no remodeling and remained stable for over 1 year. Purified NLPs with 10 nm and 15 nm diameters ultimately remodeled into 20 nm NLPs over a period of months. Intra-particle chemical cross-linking of apoLp-III stabilized NLPs of all sizes. CONCLUSIONS: ApoLp-III-based NLPs can be readily prepared, purified, characterized, and stabilized, suggesting their utility for biotechnological applications.


Subject(s)
Apolipoproteins/chemistry , Insect Proteins/chemistry , Lipoproteins/chemistry , Nanoparticles/chemistry , Animals , Bombyx/chemistry , Humans , Manduca/chemistry , Microscopy, Atomic Force
17.
J Biomed Biotechnol ; 2010: 258494, 2010.
Article in English | MEDLINE | ID: mdl-20130815

ABSTRACT

Quantifying the variation in the human plasma proteome is an essential prerequisite for disease-specific biomarker detection. We report here on the longitudinal and individual variation in human plasma characterized by two-dimensional difference gel electrophoresis (2-D DIGE) using plasma samples from eleven healthy subjects collected three times over a two week period. Fixed-effects modeling was used to remove dye and gel variability. Mixed-effects modeling was then used to quantitate the sources of proteomic variation. The subject-to-subject variation represented the largest variance component, while the time-within-subject variation was comparable to the experimental variation found in a previous technical variability study where one human plasma sample was processed eight times in parallel and each was then analyzed by 2-D DIGE in triplicate. Here, 21 protein spots had larger than 50% CV, suggesting that these proteins may not be appropriate as biomarkers and should be carefully scrutinized in future studies. Seventy-eight protein spots showing differential protein levels between different individuals or individual collections were identified by mass spectrometry and further characterized using hierarchical clustering. The results present a first step toward understanding the complexity of longitudinal and individual variation in the human plasma proteome, and provide a baseline for improved biomarker discovery.


Subject(s)
Biomarkers/blood , Blood Proteins/analysis , Computational Biology/methods , Proteome/analysis , Cluster Analysis , Data Interpretation, Statistical , Electrophoresis, Gel, Two-Dimensional/methods , Female , Humans , Image Processing, Computer-Assisted/methods , Male , Multivariate Analysis , Principal Component Analysis , Sex Factors
18.
Int J Mol Sci ; 10(7): 2958-2971, 2009 Jul 02.
Article in English | MEDLINE | ID: mdl-19742178

ABSTRACT

Heterogeneity is a fact that plagues the characterization and application of many self-assembled biological constructs. The importance of obtaining particle homogeneity in biological assemblies is a critical goal, as bulk analysis tools often require identical species for reliable interpretation of the results-indeed, important tools of analysis such as x-ray diffraction typically require over 90% purity for effectiveness. This issue bears particular importance in the case of lipoproteins. Lipid-binding proteins known as apolipoproteins can self assemble with liposomes to form reconstituted high density lipoproteins (rHDLs) or nanolipoprotein particles (NLPs) when used for biotechnology applications such as the solubilization of membrane proteins. Typically, the apolipoprotein and phospholipids reactants are self assembled and even with careful assembly protocols the product often contains heterogeneous particles. In fact, size polydispersity in rHDLs and NLPs published in the literature are frequently observed, which may confound the accurate use of analytical methods. In this article, we demonstrate a procedure for producing a pure, monodisperse NLP subpopulation from a polydisperse self-assembly using size exclusion chromatography (SEC) coupled with high resolution particle imaging by atomic force microscopy (AFM). In addition, NLPs have been shown to self assemble both in the presence and absence of detergents such as cholate, yet the effects of cholate on NLP polydispersity and separation has not been systematically examined. Therefore, we examined the separation properties of NLPs assembled in both the absence and presence of cholate using SEC and native gel electrophoresis. From this analysis, NLPs prepared with and without cholate showed particles with well defined diameters spanning a similar size range. However, cholate was shown to have a dramatic affect on NLP separation by SEC and native gel electrophoresis. Furthermore, under conditions where different sized NLPs were not sufficiently separated or purified by SEC, AFM was used to deconvolute the elution pattern of different sized NLPs. From this analysis we were able to purify an NLP subpopulation to 90% size homogeneity by taking extremely fine elutions from the SEC. With this purity, we generate high quality NLP crystals that were over 100 microm in size with little precipitate, which could not be obtained utilizing the traditional size exclusion techniques. This purification procedure and the methods for validation are broadly applicable to other lipoprotein particles.


Subject(s)
Lipoproteins, HDL/chemistry , Nanoparticles/chemistry , Cholates/chemistry , Chromatography, Gel , Lipid Bilayers/chemistry
19.
Cell Host Microbe ; 6(1): 45-53, 2009 Jul 23.
Article in English | MEDLINE | ID: mdl-19616765

ABSTRACT

Curli fibrils are proteinaceous bacterial structures formed by amyloid fibrils composed of the major curli subunit CsgA. Like beta-amyloid 1-42, which is associated with brain inflammation and Alzheimer's disease, curli fibrils have been implicated in the induction of host inflammatory responses. However, the underlying mechanisms of amyloid-induced inflammation are not fully understood. In a mouse sepsis model, we show that curli fibrils contributed to Nos2 expression, a hallmark of inflammation, by stimulating Toll-like receptor (TLR) 2. The TLR2 agonist activity was reduced by an amyloidogenicity-lowering amino acid substitution (N122A) in CsgA. Amyloid-forming synthetic peptides corresponding to beta-amyloid 1-42 or CsgA 111-151 stimulated Nos2 production in macrophages and microglia cells through a TLR2-dependent mechanism. This activity was abrogated when an N122A substitution was introduced into the synthetic CsgA peptide. The induction of TLR2-mediated responses by bacterial and eukaryotic amyloids may explain the inflammation associated with amyloids and the resulting pathologies.


Subject(s)
Amyloid beta-Peptides/immunology , Amyloid/immunology , Bacterial Proteins/immunology , Peptide Fragments/immunology , Toll-Like Receptor 2/immunology , Amino Acid Substitution/genetics , Animals , Cells, Cultured , Female , Gene Expression Profiling , Macrophages/immunology , Mice , Microglia/immunology , Mutagenesis, Site-Directed , Nitric Oxide Synthase Type II/biosynthesis , Sepsis/immunology
20.
J Am Chem Soc ; 131(22): 7508-9, 2009 Jun 10.
Article in English | MEDLINE | ID: mdl-19449869

ABSTRACT

Hydrogenases constitute a promising class of enzymes for ex vivo hydrogen production. Implementation of such applications is currently hindered by oxygen sensitivity and, in the case of membrane-bound hydrogenases (MBHs), poor water solubility. Nanolipoprotein particles (NLPs) formed from apolipoproteins and phospholipids offer a novel means of incorporating MBHs into a well-defined water-soluble matrix that maintains the enzymatic activity and is amenable to incorporation into more complex architectures. We report the synthesis, hydrogen-evolving activity, and physical characterization of the first MBH-NLP assembly. This may ultimately lead to the development of biomimetic hydrogen-production devices.


Subject(s)
Apolipoproteins/chemistry , Enzymes, Immobilized/chemistry , Hydrogen/chemistry , Hydrogenase/chemistry , Nanoparticles/chemistry , Phospholipids/chemistry , Cell Membrane/enzymology , Pyrococcus furiosus/enzymology , Solubility , Water/chemistry
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