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crystal structure of the mobile metallo-β-lactamase aim-1 from pseudomonas aeruginosa: insights into antibiotic binding and the role of gln157.metallo-β-lactamase (mbl) genes confer resistance to virtually all β-lactam antibiotics and are rapidly disseminated by mobile genetic elements in gram-negative bacteria. mbls belong to three different subgroups, b1, b2, and b3, with the mobile mbls largely confined to subgroup b1. the b3 mbls are a divergent subgroup of predominantly chromosomally encoded enzymes. aim-1 (adelaide imipenmase 1) from pseudomonas aeruginosa was the first b3 mbl to be identified on a readily mobile genetic element. ...201222664968
klebsiella pneumoniae carbapenemase-producing enterobacteria in hospital, singapore. 201222840461
high resolution crystal structure of the endo-n-acetyl-β-d-glucosaminidase responsible for the deglycosylation of hypocrea jecorina cellulases.endo-n-acetyl-β-d-glucosaminidases (engases) hydrolyze the glycosidic linkage between the two n-acetylglucosamine units that make up the chitobiose core of n-glycans. the endo-n-acetyl-β-d-glucosaminidases classified into glycoside hydrolase family 18 are small, bacterial proteins with different substrate specificities. recently two eukaryotic family 18 deglycosylating enzymes have been identified. here, the expression, purification and the 1.3å resolution structure of the engase (endo t) from t ...201222859955
microbial profile and antibiotic sensitivity pattern in bile cultures from endoscopic retrograde cholangiography patients.to identify the frequency of bacterial growth, the most commonly grown bacteria and their antibiotic susceptibility, and risk factors for bacterial colonization in bile collected from patients with different biliary diseases.201222826624
comparing maldi-ms, rp-lc-maldi-ms and rp-lc-esi-ms glycomic profiles of permethylated n-glycans derived from model glycoproteins and human blood serum.the glycomic profiling of purified glycoproteins and biological specimen is routinely achieved through different analytical methods, but mainly through ms and lc-ms. the enhanced ionization efficiency and improved tandem ms interpretation of permethylated glycans have prompted the popularity of this approach. this study focuses on comparing the glycomic profiling of permethylated n-glycans derived from model glycoproteins and human blood serum using maldi-ms as well as rp-lc-maldi-ms and rp-lc-e ...201222740465
subunit isoform selectivity in assembly of na,k-atpase α-β heterodimers.to catalyze ion transport, the na,k-atpase must contain one α and one β subunit. when expressed by transfection in various expression systems, each of the four α subunit isoforms can assemble with each of the three β subunit isoforms and form an active enzyme, suggesting the absence of selective α-β isoform assembly. however, it is unknown whether in vivo conditions the α-β assembly is random or isoform-specific. the α(2)-β(2) complex was selectively immunoprecipitated by both anti-α(2) and anti ...201222696220
identification and characterization of peptide: n-glycanase from dictyostelium discoideum.peptide: n- glycanase (pngase) enzyme cleaves oligosaccharides from the misfolded glycoproteins and prepares them for degradation. this enzyme plays a role in the endoplasmic reticulum associated degradation (erad) pathway in yeast and mice but its biological importance and role in multicellular development remain largely unknown.201222682495
heavy metal tolerance (cr, ag and hg) in bacteria isolated from sewage.samples of sewage from a university hospital and a chemistry technical school were analysed for the percentage of bacterial tolerance to chromium (cr), silver (ag) and mercury (hg). additionally, we investigated the effect of these metals on pigmentation and on some enzymatic activities of the metal tolerant strains isolated, as well as antimicrobial resistance in some metal tolerant enterobacteriaceae strains. tolerance to cr was observed mainly in gram positive bacteria while in the case of ag ...201224031994
evaluation of the bruker biotyper and vitek ms matrix-assisted laser desorption ionization-time of flight mass spectrometry systems for identification of nonfermenting gram-negative bacilli isolated from cultures from cystic fibrosis patients.the bruker biotyper and vitek ms matrix-assisted laser desorption ionization-time of flight (maldi-tof) mass spectrometry (ms) instruments were evaluated for the identification of nonfermenting gram-negative bacilli (nfgnb) by a blinded comparison to conventional biochemical or molecular methods. two hundred nfgnb that were recovered from cultures from cystic fibrosis patients in the university of iowa health care (uihc) microbiology laboratory between 1 january 2006 and 31 october 2010 were sen ...201222495566
ultrasensitive capillary electrophoretic analysis of potentially immunogenic carbohydrate residues in biologics: galactose-α-1,3-galactose containing oligosaccharides.with the recent growth of the global monoclonal antibody market, ultrasensitive techniques are required for rapid analysis of possible immunogenic residues, such as galactose-α-1,3-galactose (α-1,3-gal) on therapeutic proteins expressed in murine or cho cell lines. we report a capillary electrophoretic approach in conjunction with exoglycosidase digestion for structural elucidation of igg n-glycans containing the above immunogenic epitope. the method uses commercially available reagents and inst ...201222571495
influenza virus partially counteracts restriction imposed by tetherin/bst-2.influenza virus infections lead to a burst of type i interferon (ifn) in the human respiratory tract, which most probably accounts for a rapid control of the virus. although in mice, ifn-induced mx1 factor mediates a major part of this response, the situation is less clear in humans. interestingly, a recently identified ifn-induced cellular protein, tetherin (also known as cd317, bst-2, or hm1.24), exerts potent antiviral activity against a broad range of retroviruses, as well as several other e ...201222493439
carbapenem resistance in elizabethkingia meningoseptica is mediated by metallo-β-lactamase blab.elizabethkingia meningoseptica, a gram-negative rod widely distributed in the environment, is resistant to most β-lactam antibiotics. three bla genes have been identified in e. meningoseptica, coding for the extended-spectrum serine-β-lactamase cme (class d) and two unrelated wide-spectrum metallo-β-lactamases, blab (subclass b1) and gob (subclass b3). e. meningoseptica is singular in being the only reported microorganism possessing two chromosomally encoded mbl genes. real-time pcr and biochemi ...201222290979
in vivo impact of met221 substitution in gob metallo-β-lactamase.metallo-β-lactamases (mβls) represent one of the main mechanisms of bacterial resistance against β-lactam antibiotics. the elucidation of their mechanism has been limited mostly by the structural diversity among their active sites. all mβls structurally characterized so far present a cys or a ser residue at position 221, which is critical for catalysis. gob lactamases stand as an exception within this picture, possessing a met residue in this location. we studied different mutants in this positi ...201222252824
necrotizing fasciitis involving the chest and abdominal wall caused by raoultella planticola.raoultella planticola was originally considered to be a member of environmental klebsiella. the clinical significance of r. planticola is still not well known.201222423899
identification of the amino acid region involved in the intercellular interaction between the β1 subunits of na+/k+ -atpase.epithelial junctions depend on intercellular interactions between β(1) subunits of the na(+)/k(+)-atpase molecules of neighboring cells. the interaction between dog and rat subunits is less effective than the interaction between two dog β(1) subunits, indicating the importance of species-specific regions for β(1)-β(1) binding. to identify these regions, the species-specific amino acid residues were mapped on a high-resolution structure of the na(+)/k(+)-atpase β(1) subunit to select those expose ...201222328500
trends of antibiotic resistance in mesophilic and psychrotrophic bacterial populations during cold storage of raw milk.psychrotrophic bacteria in raw milk are most well known for their spoilage potential and cause significant economic losses in the dairy industry. despite their ability to produce several exoenzyme types at low temperatures, psychrotrophs that dominate the microflora at the time of spoilage are generally considered benign bacteria. it was recently reported that raw milk-spoiling gram-negative-psychrotrophs frequently carried antibiotic resistance (ar) features. the present study evaluated ar to f ...201223724333
reciprocal tripartite interactions between the aedes aegypti midgut microbiota, innate immune system and dengue virus influences vector competence.dengue virus is one of the most important arboviral pathogens and the causative agent of dengue fever, dengue hemorrhagic fever, and dengue shock syndrome. it is transmitted between humans by the mosquitoes aedes aegypti and aedes albopictus, and at least 2.5 billion people are at daily risk of infection. during their lifecycle, mosquitoes are exposed to a variety of microbes, some of which are needed for their successful development into adulthood. however, recent studies have suggested that th ...201222413032
use of therapeutic drug monitoring to treat elizabethkingia meningoseptica meningitis and bacteraemia in an adult. 201222357803
remarkable transglycosylation activity of glycosynthase mutants of endo-d, an endo-β-n-acetylglucosaminidase from streptococcus pneumoniae.endo-β-n-acetylglucosaminidase from streptococcus pneumoniae (endo-d) is an endoglycosidase capable of hydrolyzing the fc n-glycan of intact igg antibodies after sequential removal of the sialic acid, galactose, and internal glcnac residues in the n-glycan. endo-d also possesses transglycosylation activity with sugar oxazoline as the donor substrate, but the transglycosylation yield is low due to enzymatic hydrolysis of the donor substrate and the product. we report here our study on the hydroly ...201222318728
fermentative production of isobutene.isobutene (2-methylpropene) is one of those chemicals for which bio-based production might replace the petrochemical production in the future. currently, more than 10 million metric tons of isobutene are produced on a yearly basis. even though bio-based production might also be achieved through chemocatalytic or thermochemical methods, this review focuses on fermentative routes from sugars. although biological isobutene formation is known since the 1970s, extensive metabolic engineering is requi ...201222234536
intensive care unit-acquired bacteremia in mechanically ventilated patients: clinical features and outcomes.intensive care unit (icu)-acquired bacteremia (iab) is associated with high medical expenditure and mortality. mechanically ventilated patients represent one third of all patients admitted to icu, but the clinical features and outcomes in mechanically ventilated patients who develop iab remain unknown. we conducted a 3-year retrospective observational cohort study, and 1,453 patients who received mechanical ventilation on icu admission were enrolled. among patients enrolled, 126 patients who had ...201324376683
mechanism of action of novel lung edema therapeutic ap301 by activation of the epithelial sodium channel.ap301 [cyclo(cgqretpegaeakpwyc)], a cyclic peptide comprising the human tumor necrosis factor lectin-like domain (tip domain) sequence, is currently being developed as a treatment for lung edema and has been shown to reduce extravascular lung water and improve lung function in mouse, rat, and pig models. the current paradigm for liquid homeostasis in the adult mammalian lung is that passive apical uptake of sodium via the amiloride-sensitive epithelial na⁺ channel (enac) and nonselective cyclic- ...201324077967
polar lipids of burkholderia pseudomallei induce different host immune responses.melioidosis is a disease in tropical and subtropical regions of the world that is caused by burkholderia pseudomallei. in endemic regions the disease occurs primarily in humans and goats. in the present study, we used the goat as a model to dissect the polar lipids of b. pseudomallei to identify lipid molecules that could be used for adjuvants/vaccines or as diagnostic tools. we showed that the lipidome of b. pseudomallei and its fractions contain several polar lipids with the capacity to elicit ...201324260378
non-dietary forms of treatment for adult celiac disease.at present, treatment for celiac disease includes a strict gluten-free diet. compliance, however, is difficult and gluten-free food products are costly, and, sometimes very inconvenient. a number of potential alternative measures have been proposed to either replace or supplement gluten-free diet therapy. in the past, non-dietary forms of treatment were used (e.g., corticosteroids) by some clinicians, often to supplement a gluten-free diet in patients that appeared to be poorly responsive to a g ...201324199026
comparison of matrix-assisted laser desorption ionization-time of flight (maldi-tof) mass spectrometry platforms for the identification of gram-negative rods from patients with cystic fibrosis.we evaluated the performance of the bruker biotyper and the biomérieux vitek ms with both the saramis v4.09 and knowledge base v2.0 databases for the identification of 203 non-glucose-fermenting gram-negative rods that had previously been identified by 16s rrna gene sequencing. including those that underwent repeat testing, 96.6%, 90.1%, and 93.6% of isolates, respectively, had identifications that agreed with the previous identification.201323966494
matrix assisted laser desorption ionization imaging mass spectrometry workflow for spatial profiling analysis of n-linked glycan expression in tissues.a new matrix assisted laser desorption ionization imaging mass spectrometry (maldi-ims) method to spatially profile the location and distribution of multiple n-linked glycan species in tissues is described. application of an endoglycosidase, peptide n-glycosidase f (pngasef), directly on tissues followed by incubation releases n-linked glycan species amenable to detection by maldi-ims. the method has been designed to simultaneously profile the multiple glycan species released from intracellular ...201324050758
n-/o-glycosylation analysis of human fviia produced in the milk of transgenic rabbits.human coagulation factor viia is a glycoprotein that promotes haemostasis through activation of the coagulation cascade extrinsic pathway. most haemophilia a/b patients with inhibitors are treated by injection of plasma-derived or recombinant fviia. the use of recombinant products raises questions about the ability of the host cell to produce efficiently post-translationally modified proteins. glycosylation is especially critical considering that it can modulate protein safety and efficacy. the ...201324092837
nonfermenting gram-negative bacilli other than pseudomonas aeruginosa and acinetobacter spp. causing respiratory tract infections in a tertiary care center.nonfermenting gram-negative bacilli have emerged as important healthcare-associated pathogens. it is important to correctly identify all clinically significant nonfermenting gram-negative bacilli considering the intrinsic multidrug resistance exhibited by these bacteria.201324672175
elizabethkingia meningoseptica bacteremia in immunocompromised hosts: the first case series from india.although elizabethkingia meningoseptica (chryseobacterium meningosepticum) infections in immunocompromised hosts have been recognised, clinical data detailing these infections remain limited, especially from india. antimicrobial susceptibility data on e. meningoseptica remain very limited, with no established breakpoints by clinical and laboratory standards institute (clsi). the organism is usually multidrug resistant to antibiotics usually prescribed for treating gram-negative bacterial infecti ...201324455635
immunocompromised hosts: infections and biomarkers. 201324455632
endos2 is a unique and conserved enzyme of serotype m49 group a streptococcus that hydrolyses n-linked glycans on igg and α1-acid glycoprotein.many bacteria have evolved ways to interact with glycosylation functions of the immune system of their hosts. streptococcus pyogenes [gas (group a streptococcus)] secretes the enzyme endos that cleaves glycans on human igg and impairs the effector functions of the antibody. the ndos gene, encoding endos, has, until now, been thought to be conserved throughout the serotypes. however, in the present study, we identify endos2, an endoglycosidase in serotype m49 gas strains. we characterized endos2 ...201323865566
elizabethkingia meningoseptica: emerging nosocomial pathogen in bedside hemodialysis patients.elizabethkingia meningoseptica, a ubiquitous gram-negative aerobic bacillus, is an emerging hospital acquired pathogen in patients on dialysis. it has been isolated in the hospital environment in water supplies, disinfectants, and medical devices. we present here an analysis of eight healthcare-acquired infections with this organism in adults. to the best of our our knowledge, this is the first report of infections with this organism in patients on hemodialysis.201324339643
serine lipids of porphyromonas gingivalis are human and mouse toll-like receptor 2 ligands.the total cellular lipids of porphyromas gingivalis, a known periodontal pathogen, were previously shown to promote dendritic cell activation and inhibition of osteoblasts through engagement of toll-like receptor 2 (tlr2). the purpose of the present investigation was to fractionate all lipids of p. gingivalis and define which lipid classes account for the tlr2 engagement, based on both in vitro human cell assays and in vivo studies in mice. specific serine-containing lipids of p. gingivalis, cal ...201323836823
identification and characterization of an oleate hydratase-encoding gene from bifidobacterium breve.bifidobacteria are common commensals of the mammalian gastrointestinal tract. previous studies have suggested that a bifidobacterial myosin cross reactive antigen (mcra) protein plays a role in bacterial stress tolerance, while this protein has also been linked to the biosynthesis of conjugated linoleic acid (cla) in bifidobacteria. in order to increase our understanding on the role of mcra in bifidobacteria we created and analyzed an insertion mutant of the mcra-encoding gene of b. breve ncfb 2 ...201323851389
characterization of the carbohydrate components of taenia solium oncosphere proteins and their role in the antigenicity.this study examines the carbohydrate composition of taenia solium whole oncosphere antigens (woas), in order to improve the understanding of the antigenicity of the t. solium. better knowledge of oncosphere antigens is crucial to accurately diagnose previous exposure to t. solium eggs and thus predict the development of neurocysticercosis. a set of seven lectins conjugates with wide carbohydrate specificity were used on parasite fixations and somatic extracts. lectin fluorescence revealed that d ...201323982308
characterizing o-linked glycopeptides by electron transfer dissociation: fragmentation rules and applications in data analysis.studying protein o-glycosylation remains an analytical challenge. different from n-linked glycans, the o-glycosylation site is not within a known consensus sequence. additionally, o-glycans are heterogeneous with numerous potential modification sites. electron transfer dissociation (etd) is the method of choice in analyzing these glycopeptides since the glycan side chain remains intact in etd, and the glycosylation site can be localized on the basis of the c and z fragment ions. nonetheless, new ...201323909558
dna-dna hybridization study of strains of chryseobacterium, elizabethkingia and empedobacter and of other usually indole-producing non-fermenters of cdc groups iic, iie, iih and iii, mostly from human clinical sources, and proposals of chryseobacterium bernardetii sp. nov., chryseobacterium carnis sp. nov., chryseobacterium lactis sp. nov., chryseobacterium nakagawai sp. nov. and chryseobacterium taklimakanense comb. nov.the taxonomic classification of 182 phenotypically similar isolates was evaluated using dna-dna hybridization and 16s rrna gene sequence analysis. these bacterial isolates were mainly derived from clinical sources; all were gram-negative non-fermenters and most were indole-producing. phenotypically, they resembled species from the genera chryseobacterium, elizabethkingia or empedobacter or belonged to cdc groups iic, iie, iih and iii. based on these analyses, four novel species are described: ch ...201323934253
identification of c-terminal phosphorylation sites of n-formyl peptide receptor-1 (fpr1) in human blood neutrophils.accumulation, activation, and control of neutrophils at inflammation sites is partly driven by n-formyl peptide chemoattractant receptors (fprs). occupancy of these g-protein-coupled receptors by formyl peptides has been shown to induce regulatory phosphorylation of cytoplasmic serine/threonine amino acid residues in heterologously expressed recombinant receptors, but the biochemistry of these modifications in primary human neutrophils remains relatively unstudied. fpr1 and fpr2 were partially i ...201323873933
the glycosylation of agp and its associations with the binding to methadone.methadone remains the most common form of pharmacological therapy for opioid dependence; however, there is a lack of explanation for the reports of its relatively low success rate in achieving complete abstinence. one hypothesis is that in vivo binding of methadone to the plasma glycoprotein alpha-1-acid glycoprotein (agp), to a degree dependent on the molecular structure, may render the drug inactive. this study sought to determine whether alterations present in the glycosylation pattern of agp ...201323936770
draft genome sequences of elizabethkingia meningoseptica.elizabethkingia meningoseptica is ubiquitous in nature, exhibits a multiple-antibiotic resistance phenotype, and causes rare opportunistic infections. we now report two draft genome sequences of e. meningoseptica type strains that were sequenced independently in two laboratories.201323846266
n-glycosylation profile of undifferentiated and adipogenically differentiated human bone marrow mesenchymal stem cells: towards a next generation of stem cell markers.mesenchymal stem cells (mscs) are multipotent cells that are easy to isolate and expand, develop into several tissues, including fat, migrate to diseased organs, have immunosuppressive properties and secrete regenerative factors. this makes mscs ideal for regenerative medicine. for application and regulatory purposes, knowledge of (bio)markers characterizing mscs and their development stages is of paramount importance. the cell surface is coated with glycans that possess lineage-specific nature, ...201323829188
the galectin cvgal1 from the eastern oyster (crassostrea virginica) binds to blood group a oligosaccharides on the hemocyte surface.the galectin cvgal1 from the eastern oyster (crassostrea virginica), which possesses four tandemly arrayed carbohydrate recognition domains, was previously shown to display stronger binding to galactosamine and n-acetylgalactosamine relative to d-galactose. cvgal1 expressed by phagocytic cells is "hijacked" by the parasite perkinsus marinus to enter the host, where it proliferates and causes systemic infection and death. in this study, a detailed glycan array analysis revealed that cvgal1 prefer ...201323824193
intraoperative cerebrospinal fluid sample from first ventriculoperitoneal shunt operation: is it indicated? 201324044006
genetic requirement for hemagglutinin glycosylation and its implications for influenza a h1n1 virus evolution.influenza a virus has evolved and thrived in human populations. since the 1918 influenza a pandemic, human h1n1 viruses had acquired additional n-linked glycosylation (nlg) sites within the globular head region of hemagglutinin (ha) until the nlg-free ha head pattern of the 1918 h1n1 virus was renewed with the swine-derived 2009 pandemic h1n1 virus. moreover, the ha of the 2009 h1n1 virus appeared to be antigenically related to that of the 1918 h1n1 virus. hence, it is possible that descendants ...201323637398
modification of glycosylation mediates the invasive properties of murine hepatocarcinoma cell lines to lymph nodes.among the various posttranslational modification reactions, glycosylation is the most common, and nearly 50% of all known proteins are thought to be glycosylated. in fact, changes in glycosylation readily occur in carcinogenesis, invasion and metastasis. this report investigated the modification of glycosylation mediated the invasive properties of hca-f and hca-p murine hepatocarcinoma cell lines, which have high, low metastatic potential in the lymph nodes, respectively. analysis revealed that ...201323840320
angling for uniqueness in enzymatic preparation of glycosides.in the early days of biocatalysis, limitations of an enzyme modeled the enzymatic applications; nowadays the enzyme can be engineered to be suitable for the process requirements. this is a general bird's-eye view and as such cannot be specific for articulated situations found in different classes of enzymes or for selected enzymatic processes. as far as the enzymatic preparation of glycosides is concerned, recent scientific literature is awash with examples of uniqueness related to the features ...201324970171
comparative analysis of glycoside hydrolases activities from phylogenetically diverse marine bacteria of the genus arenibacter.a total of 16 marine strains belonging to the genus arenibacter, recovered from diverse microbial communities associated with various marine habitats and collected from different locations, were evaluated in degradation of natural polysaccharides and chromogenic glycosides. most strains were affiliated with five recognized species, and some presented three new species within the genus arenibacter. no strains contained enzymes depolymerizing polysaccharides, but synthesized a wide spectrum of gly ...201323752354
direct bacterial identification in positive blood cultures by use of two commercial matrix-assisted laser desorption ionization-time of flight mass spectrometry systems.matrix-assisted laser desorption ionization-time of flight mass spectrometry (maldi-tof ms) for the identification of bacteria and fungi was recently introduced in microbiology laboratories. this technology could greatly improve the clinical management of patients and guidance for chemotherapy. in this study, we used a commercial maldi sepsityper extraction method to evaluate the performance of two commercial maldi-tof ms systems, the vitek ms ivd (biomérieux) and the microflex lt biotyper (bruk ...201323515548
antibiotic consumption and healthcare-associated infections caused by multidrug-resistant gram-negative bacilli at a large medical center in taiwan from 2002 to 2009: implicating the importance of antibiotic stewardship.better depicting the relationship between antibiotic consumption and evolutionary healthcare-associated infections (hais) caused by multidrug-resistant gram-negative bacilli (mdr-gnb) may help highlight the importance of antibiotic stewardship.201323738018
comparative glycomic profiling of isotopically permethylated n-glycans by liquid chromatography/electrospray ionization mass spectrometry.mass spectrometry based comparative glycomics is essential for disease biomarker discovery. however, developing a reliable quantification method is still a challenging task.201323495056
automated annotation and quantification of glycans using liquid chromatography-mass spectrometry.as a common post-translational modification, protein glycosylation plays an important role in many biological processes, and it is known to be associated with human diseases. mass spectrometry (ms)-based glycomic profiling techniques have been developed to measure the abundances of glycans in complex biological samples and applied to the discovery of putative glycan biomarkers. to automate the annotation of glycomic profiles in the liquid chromatography-ms (lc-ms) data, we present here a user-fr ...201323610369
from soil to structure, a novel dimeric β-glucosidase belonging to glycoside hydrolase family 3 isolated from compost using metagenomic analysis.a recent metagenomic analysis sequenced a switchgrass-adapted compost community to identify enzymes from microorganisms that were specifically adapted to switchgrass under thermophilic conditions. these enzymes are being examined as part of the pretreatment process for the production of "second-generation" biofuels. among the enzymes discovered was jmb19063, a novel three-domain β-glucosidase that belongs to the gh3 (glycoside hydrolase 3) family. here, we report the structure of jmb19063 in com ...201323580647
rare elizabethkingia meningosepticum meningitis case in an immunocompetent adult.though elizabethkingia meningosepticum typically causes meningitis in neonates, its occurrence in adult is rare, with sixteen cases described worldwide. we report a case of e. meningosepticum meningitis in an immunocompetent adult. bacterial identification was made a day earlier than conventional method by using matrix assisted laser desorption ionization time-of-flight (maldi-tof) vitek mass spectrometry ruo (vms), which resulted in successful treatment with rifampin, trimethoprim-sulfamethoxaz ...201326038458
usefulness of a selective neutrophil elastase inhibitor, sivelestat, in acute lung injury patients with sepsis.neutrophil elastase plays a crucial role in the development of acute lung injury (ali) in patients with systemic inflammatory response syndrome (sirs). the clinical efficacy of the neutrophil elastase inhibitor, sivelestat, for patients with ali associated with sirs has not been convincingly demonstrated. the aim of this study was to determine if there are clinical features of patients with this condition that affect the efficacy of sivelestat.201323596346
septic shock caused by elizabethkingia meningoseptica: a case report and review of literature.a 70-year-old woman, resident of a nursing home presented with complaints of fever for 1 day. initial history, physical examination and laboratory tests were consistent with the diagnosis of systemic inflammatory response syndrome; blood culture from peripheral and central perm catheter were sent. patient was started on empiric antibiotics and aggressive hydration. blood cultures from peripheral access and central perm catheter grew elisabethkingia meningoseptica on the second day. patient was t ...201323559661
glycomic profiling of tissue sections by lc-ms.because routine preparation of glycan samples involves multiple reaction and cleaning steps at which sample loss occurs, glycan analysis is typically performed using large tissue samples. this type of analysis yields no detailed molecular spatial information and requires special care to maintain proper storage and shipping conditions. we describe here a new glycan sample preparation protocol using minimized sample preparation steps and optimized procedures. tissue sections and spotted samples fi ...201323438902
platelets recognize brain-specific glycolipid structures, respond to neurovascular damage and promote neuroinflammation.platelets respond to vascular damage and contribute to inflammation, but their role in the neurodegenerative diseases is unknown. we found that the systemic administration of brain lipid rafts induced a massive platelet activation and degranulation resulting in a life-threatening anaphylactic-like response in mice. platelets were engaged by the sialated glycosphingolipids (gangliosides) integrated in the rigid structures of astroglial and neuronal lipid rafts. the brain-abundant gangliosides gt1 ...201323555611
exo- and endoglycosidases revisited.many glycosidases, which work as useful reagents for the studies of structures and functions of free and conjugated oligosaccharides, have been found and thoroughly purified. these enzymes are classified into exo- and endoglycosidases by their glycon specificities. their usefulness and limits as reagents are explained in detail in this review.endoglycosidases, which were originally found in the culture fluid of bacteria and in the extracts of plants, are now widely found in the mammals including ...201323474886
keratitis with elizabethkingia meningoseptica occurring after contact lens wear: a case report.to report keratitis with elizabethkingia meningoseptica, which occurred in a healthy patient after wearing contact lenses for 6 months. a 24-year-old male patient visited our hospital with ocular pain. this patient had a history of wearing soft contact lenses for 6 months, about 10 hours per day. at initial presentation, slit lamp examination showed corneal stromal infiltrations and small epithelial defect. microbiological examinations were performed from corneal scrapings, contact lenses, and t ...201323543626
characterization of host-cell line specific glycosylation profiles of early transmitted/founder hiv-1 gp120 envelope proteins.glycosylation plays an essential role in regulating protein function by modulating biological, structural, and therapeutic properties. however, due to its inherent heterogeneity and diversity, the comprehensive analysis of protein glycosylation remains a challenge. as part of our continuing effort in the analysis of glycosylation profiles of recombinant hiv-1 envelope-based immunogens, we evaluated and compared the host-cell specific glycosylation pattern of recombinant hiv-1 surface glycoprotei ...201323339644
efficacy of oral ribavirin in hematologic disease patients with paramyxovirus infection: analytic strategy using propensity scores.few antiviral agents are available for treating paramyxovirus infections, such as those involving respiratory syncytial virus (rsv), parainfluenza virus (piv), and human metapneumovirus (hmpv). we evaluated the effect of oral ribavirin on clinical outcomes of paramyxovirus infections in patients with hematological diseases. all adult patients with paramyxovirus were retrospectively reviewed over a 2-year period. patients who received oral ribavirin were compared to those who received supportive ...201323229488
in vivo deglycosylation of recombinant proteins in plants by co-expression with bacterial pngase f.at present, several eukaryotic expression systems including yeast, insect and mammalian cells and plants are used for the production of recombinant proteins. proteins with potential n-glycosylation sites are efficiently glycosylated when expressed in these systems. however, the ability of the eukaryotic expression systems to glycosylate may be not desirable for some proteins. if target proteins that do not carry n-linked glycans in the native host contain potential n-linked glycosylation sites, ...201323328084
simple approach to assign disulfide connectivity using extracted ion chromatograms of electron transfer dissociation spectra.increasing interest in production of protein-based pharmaceuticals (biotherapeutics) is accompanied by an increased need for verification of protein folding and correct disulfide bonding. recombinant protein expression may produce aberrant disulfide bonds and could result in safety concerns or decreased efficacy. thus, the thorough analysis of disulfide bonding is a necessity for protein therapeutics. the use of electron transfer dissociation (etd) facilitates this analysis because disulfide bon ...201323210856
a method to produce and purify full-length recombinant alpha dystroglycan: analysis of n- and o-linked monosaccharide composition in cho cells with or without large overexpression.α dystroglycan (αdg) is part of the dystrophin-associated glycoprotein (dag) complex, a series of cytoskeletal, transmembrane, and membrane-associated proteins that serve to link the extracellular matrix (ecm) surrounding individual skeletal myofibers to the intracellular f-actin cytoskeleton. glycosylation and ecm protein binding to αdg are regulated by a number of genes that, when defective, give rise to congenital or limb-girdle forms of muscular dystrophy termed dystroglycanopathies. one suc ...201323390591
structural separations by ion mobility-ms for glycomics and glycoproteomics.this chapter describes the utility of ion mobility-mass spectrometry (im-ms) for the detection and characterization of glycoproteins and associated glycoconjugates. im-ms provides separations in two dimensions; one on the basis of molecular surface area or structure, and the other on molecular mass which creates the ability to differentiate biomolecular classes and isobaric species. when applied to the characterization of glycoproteins, im-ms separates peptides from the associated glycans in the ...201323296531
structural insights into the subclass b3 metallo-β-lactamase smb-1 and the mode of inhibition by the common metallo-β-lactamase inhibitor mercaptoacetate.a novel subclass b3 metallo-β-lactamase (mbl), smb-1, recently identified from a serratia marcescens clinical isolate, showed a higher hydrolytic activity against a wide range of β-lactams than did the other subclass b3 mbls, i.e., bjp-1 and fez-1, from environmental bacteria. to identify the mechanism underlying the differences in substrate specificity among the subclass b3 mbls, we determined the structure of smb-1, using 1.6-å diffraction data. consequently, we found that smb-1 reserves a spa ...201323070156
draft genome sequence of elizabethkingia meningoseptica, isolated from a postoperative endophthalmitis patient.we present the draft genome assembly of an elizabethkingia meningoseptica strain isolated from a 67-year-old postoperative endophthalmitis patient who suffered loss of vision in the right eye. the draft genome assembly has 167 contigs with a total size of 4,019,665 bp encoding multiple drug-resistant genes.201425540348
n-linked (n-) glycoproteomics of urinary exosomes. [corrected].epithelial cells lining the urinary tract secrete urinary exosomes (40-100 nm) that can be targeted to specific cells modulating their functionality. one potential targeting mechanism is adhesion between vesicle surface glycoproteins and target cells. this makes the glycopeptide analysis of exosomes important. exosomes reflect the physiological state of the parent cells; therefore, they are a good source of biomarkers for urological and other diseases. moreover, the urine collection is easy and ...201425452312
n-linked (n-) glycoproteomics of urinary exosomes. [corrected].epithelial cells lining the urinary tract secrete urinary exosomes (40-100 nm) that can be targeted to specific cells modulating their functionality. one potential targeting mechanism is adhesion between vesicle surface glycoproteins and target cells. this makes the glycopeptide analysis of exosomes important. exosomes reflect the physiological state of the parent cells; therefore, they are a good source of biomarkers for urological and other diseases. moreover, the urine collection is easy and ...201425452312
elizabethkingia meningoseptica engodenous endophthalmitis - a case report.elizabethkingia meningoseptica is a nosocomial non-fermenting gram-negative bacillus that has an increasing prevalence in health care settings, especially in intensive care environments. while it has long been recognized as a rare but serious cause of neonatal meningitis and sepsis, its role as a cause of ocular pathology is not well-known. we report the first case of e. meningoseptica endogenous endophthalmitis caused by bacteraemia by the same organism. in view of its aggressiveness and virule ...201425671096
discovery and characterization of a novel extremely acidic bacterial n-glycanase with combined advantages of pngase f and a.peptide-n4-(n-acetyl-β-glucosaminyl) asparagine amidases [pngases (peptide n-glycosidases), n-glycanases, ec 3.5.1.52] are essential tools in the release of n-glycans from glycoproteins. we hereby report the discovery and characterization of a novel bacterial n-glycanase from terriglobus roseus with an extremely low ph optimum of 2.6, and annotated it therefore as pngase h+. the gene of pngase h+ was cloned and the recombinant protein was successfully expressed in escherichia coli. the recombina ...201425294009
emerging flavobacterial infections in fish: a review.flavobacterial diseases in fish are caused by multiple bacterial species within the family flavobacteriaceae and are responsible for devastating losses in wild and farmed fish stocks around the world. in addition to directly imposing negative economic and ecological effects, flavobacterial disease outbreaks are also notoriously difficult to prevent and control despite nearly 100 years of scientific research. the emergence of recent reports linking previously uncharacterized flavobacteria to syst ...201426257926
emerging flavobacterial infections in fish: a review.flavobacterial diseases in fish are caused by multiple bacterial species within the family flavobacteriaceae and are responsible for devastating losses in wild and farmed fish stocks around the world. in addition to directly imposing negative economic and ecological effects, flavobacterial disease outbreaks are also notoriously difficult to prevent and control despite nearly 100 years of scientific research. the emergence of recent reports linking previously uncharacterized flavobacteria to syst ...201426257926
neurological complications after neonatal bacteremia: the clinical characteristics, risk factors, and outcomes.neonates with bacteremia are at risk of neurologic complications. relevant information warrants further elucidation.201425364821
biochemical, mechanistic, and spectroscopic characterization of metallo-β-lactamase vim-2.this study examines metal binding to metallo-β-lactamase vim-2, demonstrating the first successful preparation of a co(ii)-substituted vim-2 analogue. spectroscopic studies of the half- and fully metal loaded enzymes show that both zn(ii) and co(ii) bind cooperatively, where the major species present, regardless of stoichiometry, are apo- and di-zn (or di-co) enzymes. we determined the di-zn vim-2 structure to a resolution of 1.55 å, and this structure supports results from spectroscopic studies ...201425356958
posttranslational modifications of ferredoxin-nadp+ oxidoreductase in arabidopsis chloroplasts.rapid responses of chloroplast metabolism and adjustments to photosynthetic machinery are of utmost importance for plants' survival in a fluctuating environment. these changes may be achieved through posttranslational modifications of proteins, which are known to affect the activity, interactions, and localization of proteins. recent studies have accumulated evidence about the crucial role of a multitude of modifications, including acetylation, methylation, and glycosylation, in the regulation o ...201425301888
golgi n-glycan branching n-acetylglucosaminyltransferases i, v and vi promote nutrient uptake and metabolism.nutrient transporters are critical gate-keepers of extracellular metabolite entry into the cell. as integral membrane proteins, most transporters are n-glycosylated, and the n-glycans are remodeled in the golgi apparatus. the golgi branching enzymes n-acetylglucosaminyltransferases i, ii, iv, v and avian vi (encoded by mgat1, mgat2, mgat4a/b/c mgat5 and mgat6), each catalyze the addition of n-acetylglucosamine (glcnac) in n-glycans. here, we asked whether n-glycan branching promotes nutrient tra ...201425395405
golgi n-glycan branching n-acetylglucosaminyltransferases i, v and vi promote nutrient uptake and metabolism.nutrient transporters are critical gate-keepers of extracellular metabolite entry into the cell. as integral membrane proteins, most transporters are n-glycosylated, and the n-glycans are remodeled in the golgi apparatus. the golgi branching enzymes n-acetylglucosaminyltransferases i, ii, iv, v and avian vi (encoded by mgat1, mgat2, mgat4a/b/c mgat5 and mgat6), each catalyze the addition of n-acetylglucosamine (glcnac) in n-glycans. here, we asked whether n-glycan branching promotes nutrient tra ...201425395405
maldi imaging mass spectrometry profiling of n-glycans in formalin-fixed paraffin embedded clinical tissue blocks and tissue microarrays.a recently developed matrix-assisted laser desorption/ionization imaging mass spectrometry (maldi-ims) method to spatially profile the location and distribution of multiple n-linked glycan species in frozen tissues has been extended and improved for the direct analysis of glycans in clinically derived formalin-fixed paraffin-embedded (ffpe) tissues. formalin-fixed tissues from normal mouse kidney, human pancreatic and prostate cancers, and a human hepatocellular carcinoma tissue microarray were ...201425184632
burden of carbapenem-resistant organisms in the frankfurt/main metropolitan area in germany 2012/2013 - first results and experiences after the introduction of legally mandated reporting.the federal state of hesse, germany, introduced a laboratory-based reporting scheme for carbapenem-resistant organisms (cros).201425139410
polysialylated n-glycans identified in human serum through combined developments in sample preparation, separations, and electrospray ionization-mass spectrometry.the n-glycan diversity of human serum glycoproteins, i.e., the human blood serum n-glycome, is both complex and constrained by the range of glycan structures potentially synthesizable by human glycosylation enzymes. the known glycome, however, has been further limited by methods of sample preparation, available analytical platforms, e.g., based upon electrospray ionization-mass spectrometry (esi-ms), and software tools for data analysis. in this report several improvements have been implemented ...201425118826
elizabethkingia meningosepticum in a patient with six-year bilateral perma-catheters.elizabethkingia meningosepticum (em) is a saprophyte which is ubiquitous in nature, but not normally present in the human flora. instances of infection are rare in the usa, but em may be an emerging pathogen among immune-compromised patients. em can cause a variety of infections, but nosocomial pneumonia and bacteremia have been the most commonly reported among immune-compromised adults. em has proven difficult to treat with a mortality rate of 23%-41% in adult bacteremia. this is likely due to ...201425161782
wound management in disaster settings.few guidelines exist for the initial management of wounds in disaster settings. as wounds sustained are often contaminated, there is a high risk of further complications from infection, both local and systemic. healthcare workers with little to no surgical training often provide early wound care, and where resources and facilities are also often limited, and clear appropriate guidance is needed for early wound management.201425085100
wound management in disaster settings.few guidelines exist for the initial management of wounds in disaster settings. as wounds sustained are often contaminated, there is a high risk of further complications from infection, both local and systemic. healthcare workers with little to no surgical training often provide early wound care, and where resources and facilities are also often limited, and clear appropriate guidance is needed for early wound management.201425085100
performance of the verigene gram-negative blood culture assay for rapid detection of bacteria and resistance determinants.nonduplicate blood cultures that were positive for gram-negative bacilli (n = 125) were tested by the verigene gram-negative blood culture (bc-gn) assay; 117 (90.7%) isolates were members of the panel. for identification and resistance markers, the agreements with routine methods were 97.4% (114/117) and 92.3% (12/13). the bc-gn assay is a rapid and accurate tool for the detection of pathogens from blood cultures and could be integrated alongside conventional systems to enable faster patient man ...201424899026
lc-ms profiling of n-glycans derived from human serum samples for biomarker discovery in hepatocellular carcinoma.defining clinically relevant biomarkers for early stage hepatocellular carcinoma (hcc) in a high-risk population of cirrhotic patients has potentially far-reaching implications for disease management and patient health. changes in glycan levels have been associated with the onset of numerous diseases including cancer. in the present study, we used liquid chromatography coupled with electrospray ionization mass spectrometry (lc-esi-ms) to analyze n-glycans in sera from 183 participants recruited ...201425077556
glycosylation and disulfide bond analysis of transiently and stably expressed clade c hiv-1 gp140 trimers in 293t cells identifies disulfide heterogeneity present in both proteins and differences in o-linked glycosylation.the hiv-1 envelope protein (env) mediates viral entry into host cells to initiate infection and is the sole target of antibody-based vaccine development. significant efforts have been made toward the design, engineering, and expression of various soluble forms of hiv env immunogen, yet a highly effective immunogen remains elusive. one of the key challenges in the development of an effective hiv vaccine is the presence of the complex set of post-translational modifications (ptms) on env, namely, ...201425026075
isolation of environmental bacteria from surface and drinking water in mafikeng, south africa, and characterization using their antibiotic resistance profiles.the aim of this study was to isolate and identify environmental bacteria from various raw water sources as well as the drinking water distributions system in mafikeng, south africa, and to determine their antibiotic resistance profiles. water samples from five different sites (raw and drinking water) were analysed for the presence of faecal indicator bacteria as well as aeromonas and pseudomonas species. faecal and total coliforms were detected in summer in the treated water samples from the mod ...201425105027
nmr-based structural analysis of the complete rough-type lipopolysaccharide isolated from capnocytophaga canimorsus.we here describe the nmr analysis of an intact lipopolysaccharide (lps, endotoxin) in water with 1,2-dihexanoyl-sn-glycero-3-phosphocholine as detergent. when hplc-purified rough-type lps of capnocytophaga canimorsus was prepared, (13)c,(15)n labeling could be avoided. the intact lps was analyzed by homonuclear ((1)h) and heteronuclear ((1)h,(13)c, and (1)h,(31)p) correlated one- and two-dimensional nmr techniques as well as by mass spectrometry. it consists of a penta-acylated lipid a with an α ...201424993825
evolution of metallo-β-lactamases: trends revealed by natural diversity and in vitro evolution.the production of β-lactamase enzymes is one of the most distributed resistance mechanisms towards β-lactam antibiotics. metallo-β-lactamases constitute a worrisome group of these kinds of enzymes, since they present a broad spectrum profile, being able to hydrolyze not only penicillins, but also the latest generation of cephalosporins and carbapenems, which constitute at present the last resource antibiotics. the vim, imp, and ndm enzymes comprise the main groups of clinically relevant metallo- ...201425364574
novel selective medium for isolation of staphylococcus lugdunensis from wound specimens.we compared a novel selective staphylococcus lugdunensis (ssl) medium with routine media (blood and chocolate agars) for the detection of s. lugdunensis in 990 clinical specimens (from tissue, pus, or wound swabs). significantly more s. lugdunensis isolates were detected on ssl medium (34/990) than on routine medium (7/990) (p = 0.001, mcnemar's test).201424759715
coeliac disease - new pathophysiological findings and their implications for therapy.coeliac disease (cd) is one of the most common diseases worldwide, resulting from a combination of environmental (gluten) and genetic (human leucocyte antigen (hla) and non-hla genes) factors. depending on the geographical location, the prevalence of cd has been estimated to approximate 0.5-1%. the only treatment currently available for cd is a gluten-free diet (gfd) excluding gluten-containing cereals such as wheat, rye, and barley, and other foodstuffs with natural or added gluten. however, ad ...201426288589
exploring the role of conformational heterogeneity in cis-autoproteolytic activation of thnt.in the past decade, there have been major achievements in understanding the relationship between enzyme catalysis and protein structural plasticity. in autoprocessing systems, however, there is a sparsity of direct evidence of the role of conformational dynamics, which are complicated by their intrinsic chemical reactivity. thnt is an autoproteolytically activated enzyme involved in the biosynthesis of the β-lactam antibiotic thienamycin. conservative mutation of thnt results in multiple conform ...201424933323
specific glycosylation of membrane proteins in epithelial ovarian cancer cell lines: glycan structures reflect gene expression and dna methylation status.epithelial ovarian cancer is the fifth most common cause of cancer in women worldwide bearing the highest mortality rate among all gynecological cancers. cell membrane glycans mediate various cellular processes such as cell signaling and become altered during carcinogenesis. the extent to which glycosylation changes are influenced by aberrant regulation of gene expression is nearly unknown for ovarian cancer and remains crucial in understanding the development and progression of this disease. to ...201424855066
insights from the genome annotation of elizabethkingia anophelis from the malaria vector anopheles gambiae.elizabethkingia anophelis is a dominant bacterial species in the gut ecosystem of the malaria vector mosquito anopheles gambiae. we recently sequenced the genomes of two strains of e. anophelis, r26t and ag1, isolated from different strains of a. gambiae. the two bacterial strains are identical with a few exceptions. phylogenetically, elizabethkingia is closer to chryseobacterium and riemerella than to flavobacterium. in line with other bacteroidetes known to utilize various polymers in their ec ...201424842809
draft genome sequence of elizabethkingia meningoseptica isolated from a traumatic wound.we report the draft genome assembly of elizabethkingia meningoseptica strain 502. the sample was isolated from the wound of a repatriated military serviceperson who suffered major trauma from an improvised explosive device (ied), resulting in wounds with extensive environmental contamination. e. meningoseptica was isolated from wounds in both legs. the draft genome assembly has 21 contigs with a total size of 3,960,744 bases. the genome contains genes encoding 26 putative β-lactamases.201424812216
comparative genomic analysis of malaria mosquito vector-associated novel pathogen elizabethkingia anophelis.acquisition of elizabethkingia infections in intensive care units (icus) has risen in the past decade. treatment of elizabethkingia infections is challenging due to the lack of effective therapeutic regimens, leading to a high mortality rate. elizabethkingia infections have long been attributed to elizabethkingia meningoseptica. recently, we used whole-genome sequencing to reveal that e. anophelis is the pathogenic agent for an elizabethkingia outbreak at two icus. we performed comparative genom ...201424803570
chryseobacterium indologenes in a woman with acute leukemia in senegal: a case report.this report documents a rare case of chryseobacterium indologenes urinary tract infection in senegal. chryseobacterium indologenes is an uncommon human pathogen reported in hospital outbreaks in taiwan and there have been some sporadic cases reported in europe and in the usa mainly from immune-suppressed patients.201424886628
the value of matrix-assisted laser desorption/ionization time-of-flight mass spectrometry in identifying clinically relevant bacteria: a comparison with automated microbiology system.matrix-assisted laser desorption ionization-time of flight mass spectrometry (maldi-tof ms) has been developed as a new-type soft ionization mass spectrometry in the recent year. increasing number of clinical microbiological laboratories consider it as an innovate approach for bacterial identification.201424822117
spectroscopic and mechanistic studies of heterodimetallic forms of metallo-β-lactamase ndm-1.in an effort to characterize the roles of each metal ion in metallo-β-lactamase ndm-1, heterodimetallic analogues (coco-, znco-, and cocd-) of the enzyme were generated and characterized. uv-vis, (1)h nmr, epr, and exafs spectroscopies were used to confirm the fidelity of the metal substitutions, including the presence of a homogeneous, heterodimetallic cluster, with a single-atom bridge. this marks the first preparation of a metallo-β-lactamase selectively substituted with a paramagnetic metal ...201424754678
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