Publications

pseudomonas mendocina native valve infective endocarditis: a case report.	gram-negative microorganisms are uncommon pathogens responsible for infective endocarditis. pseudomonas mendocina, a gram-negative water-borne and soil-borne bacterium, was first reported to cause human infection in 1992. since then, it has rarely been reported as a human pathogen in the literature. we describe the first case of native valve infective endocarditis due to p. mendocina in the usa.	2016	27716406
biodegradation of methyl tert-butyl ether by co-metabolism with a pseudomonas sp. strain.	co-metabolic bioremediation is supposed to be an impressive and promising approach in the elimination technology of methyl tert-butyl ether (mtbe), which was found to be a common pollutant worldwide in the ground or underground water in recent years. in this paper, bacterial strain dz13 (which can co-metabolically degrade mtbe) was isolated and named as pseudomonas sp. dz13 based on the result of 16s rrna gene sequencing analysis. strain dz13 could grow on n-alkanes (c₅-c₈), accompanied with the ...	2016	27608032
t4 lysozyme fused with cellulose-binding module for antimicrobial cellulosic wound dressing materials.	bacterial infection is a major challenge in wound care. antimicrobial wound dressings are of great value for treating wound infections. endolysins are evolving as a new class of antimicrobials with multiple applications. this study describes the production and evaluation of t4 lysozyme (t4lyz), product of gene e of the t4 bacteriophage, fused with cellulose binding module (cbm) for facile immobilization to cellulosic wound dressing.	2016	27028513
the native microbiome of the nematode caenorhabditis elegans: gateway to a new host-microbiome model.	host-microbe associations underlie many key processes of host development, immunity, and life history. yet, none of the current research on the central model species caenorhabditis elegans considers the worm's natural microbiome. instead, almost all laboratories exclusively use the canonical strain n2 and derived mutants, maintained through routine bleach sterilization in monoxenic cultures with an e. coli strain as food. here, we characterize for the first time the native microbiome of c. elega ...	2016	27160191
all the microbiology nematodes can teach us.	be it their pervasiveness, experimental tractability or their impact on human health and agriculture, nematode-bacterium associations are far-reaching research subjects. although the omics hype did not spare them and helped reveal mechanisms of communication and exchange between the associated partners, a huge amount of knowledge still awaits to be harvested from their study. here, i summarize and compare the kind of research that has been already performed on the model nematode caenorhabditis e ...	2016	26839382
the isolation and functional identification on producing cellulase of pseudomonas mendocina.	the straw can be degraded efficiently into humus by powerful enzymes from microorganisms, resulting in the accelerated circulation of n,p,k and other effective elements in ecological system. we isolated a strain through screening the straw degradation strains from natural humic straw in the low temperature area in northeast of china, which can produce cellulase efficiently. the strain was identified as pseudomonas mendocina by using morphological, physiological, biochemical test, and molecular b ...	2016	27710430
finished genome sequence and methylome of the cyanide-degrading pseudomonas pseudoalcaligenes strain cect5344 as resolved by single-molecule real-time sequencing.	pseudomonas pseudoalcaligenes cect5344 tolerates cyanide and is also able to utilize cyanide and cyano-derivatives as a nitrogen source under alkaline conditions. the strain is considered as candidate for bioremediation of habitats contaminated with cyanide-containing liquid wastes. information on the genome sequence of the strain cect5344 became available previously. the p. pseudoalcaligenes cect5344 genome was now resequenced by applying the single molecule, real-time (smrt(®)) sequencing tech ...	2016	27060556
efficient production of polyhydroxyalkanoates (phas) from pseudomonas mendocina psu using a biodiesel liquid waste (blw) as the sole carbon source.	conditions for the optimal production of polyhydroxyalkanoate (pha) by pseudomonas mendocina psu using a biodiesel liquid waste (blw) were determined by response surface methodology. these were an initial carbon to nitrogen ratio (c/n) of 40 (mole/mole), an initial ph of 7.0, and a temperature of 35 °c. a biomass and pha concentration of 3.65 g/l and about 2.6 g/l (77% dcw), respectively, were achieved in a growth associated process using 20 g/l glycerol in the blw after 36 h of exponential grow ...	2016	26981955
enhancement of medium-chain-length polyhydroxyalkanoates biosynthesis from glucose by metabolic engineering in pseudomonas mendocina.	to enhance the biosynthesis of medium-chain-length polyhydroxyalkanoates (phamcl) from glucose in pseudomonas mendocina nk-01, metabolic engineering strategies were used to block or enhance related pathways.	2016	26476529
isolation and characterization of bacteria that use furans as the sole carbon source.	five bacterial strains were isolated from wastewater treatment facilities which were able to use furfural as the sole carbon source. based on 16s rrna phylogenetic analysis, these strains were identified as cupriavidus pinatubonensis (designated als1280), pigmentiphaga sp. (als1172), pseudomonas sp. bwdy (als1279), pseudomonas mendocina (als1131), and pseudomonas putida (als1267). in all cases, growth under oxygenated conditions on furfural was accompanied by the transient accumulation of 2-furo ...	2016	26419660
siderophore-mediated iron dissolution from nontronites is controlled by mineral cristallochemistry.	bacteria living in oxic environments experience iron deficiency due to limited solubility and slow dissolution kinetics of iron-bearing minerals. to cope with iron deprivation, aerobic bacteria have evolved various strategies, including release of siderophores or other organic acids that scavenge external fe(iii) and deliver it to the cells. this research investigated the role of siderophores produced by pseudomonas aeruginosa in the acquisition of fe(iii) from two iron-bearing colloidal nontron ...	2016	27064911
direct identification of urinary tract pathogens from urine samples, combining urine screening methods and matrix-assisted laser desorption ionization-time of flight mass spectrometry.	early diagnosis of urinary tract infections (utis) is essential to avoid inadequate or unnecessary empirical antibiotic therapy. microbiological confirmation takes 24 to 48 h. the use of screening methods, such as cytometry and automated microscopic analysis of urine sediment, allows the rapid prediction of negative samples. in addition, matrix-assisted laser desorption ionization-time of flight mass spectrometry (maldi-tof ms) is a widely established technique in clinical microbiology laborator ...	2016	26818668
molecular insights into toluene sensing in the tods/todt signal transduction system.	tods is a sensor kinase that responds to various monoaromatic compounds, which either cause an agonistic or antagonistic effect on phosphorylation of its cognate response regulator todt, and controls tod operon expression in pseudomonas putida strains. we describe a molecular sensing mechanism of tods that is activated in response to toluene. the crystal structures of the tods per-arnt-sim (pas) 1 sensor domain (residues 43-164) and its complex with toluene (agonist) or 1,2,4-trimethylbenzene (a ...	2016	26903514
protein sequence annotation tool (psat): a centralized web-based meta-server for high-throughput sequence annotations.	here we introduce the protein sequence annotation tool (psat), a web-based, sequence annotation meta-server for performing integrated, high-throughput, genome-wide sequence analyses. our goals in building psat were to (1) create an extensible platform for integration of multiple sequence-based bioinformatics tools, (2) enable functional annotations and enzyme predictions over large input protein fasta data sets, and (3) provide a web interface for convenient execution of the tools.	2016	26792120
novel m4c modification in type i restriction-modification systems.	we identify a new subgroup of type i restriction-modification enzymes that modify cytosine in one dna strand and adenine in the opposite strand for host protection. recognition specificity has been determined for ten systems using smrt sequencing and each recognizes a novel dna sequence motif. previously characterized type i systems use two identical copies of a single methyltransferase (mtase) subunit, with one bound at each half site of the specificity (s) subunit to form the mtase. the new m4 ...	2016	27580720
mechanistic insights into c-di-gmp-dependent control of the biofilm regulator fleq from pseudomonas aeruginosa.	bacterial biofilm formation during chronic infections confers increased fitness, antibiotic tolerance, and cytotoxicity. in many pathogens, the transition from a planktonic lifestyle to collaborative, sessile biofilms represents a regulated process orchestrated by the intracellular second-messenger c-di-gmp. a main effector for c-di-gmp signaling in the opportunistic pathogen pseudomonas aeruginosa is the transcription regulator fleq. fleq is a bacterial enhancer-binding protein (bebp) with a ce ...	2016	26712005
mechanistic insights into c-di-gmp-dependent control of the biofilm regulator fleq from pseudomonas aeruginosa.	bacterial biofilm formation during chronic infections confers increased fitness, antibiotic tolerance, and cytotoxicity. in many pathogens, the transition from a planktonic lifestyle to collaborative, sessile biofilms represents a regulated process orchestrated by the intracellular second-messenger c-di-gmp. a main effector for c-di-gmp signaling in the opportunistic pathogen pseudomonas aeruginosa is the transcription regulator fleq. fleq is a bacterial enhancer-binding protein (bebp) with a ce ...	2016	26712005
it all starts with a sandwich: identification of sialidases with trans-glycosylation activity.	sialidases (3.2.1.18) may exhibit trans-sialidase activity to catalyze sialylation of lactose if the active site topology is congruent with that of the trypanosoma cruzi trans-sialidase (ec 2.4.1.-). the present work was undertaken to test the hypothesis that a particular aromatic sandwich structure of two amino acids proximal to the active site of the t. cruzi trans-sialidase infers trans-sialidase activity. on this basis, four enzymes with putative trans-sialidase activity were identified thro ...	2016	27367145
diversity of culturable aerobic denitrifying bacteria in the sediment, water and biofilms in liangshui river of beijing, china.	aerobic denitrification is a process reducing the nitrate into gaseous nitrogen forms in the presence of oxygen gas, which makes the nitrification and denitrification performed simultaneously. however, little was known on the diversity of the culturable aerobic denitrifying bacteria in the surface water system. in this study, 116 strains of aerobic denitrifying bacteria were isolated from the sediment, water and biofilm samples in liangshui river of beijing. these bacteria were classified into 1 ...	2017	28855587
comparative investigation on a hexane-degrading strain with different cell surface hydrophobicities mediated by starch and chitosan.	bioremediation usually exhibits low removal efficiency toward hexane because of poor water solubility, which limits the mass transfer rate between the substrate and microorganism. this work aimed to enhance the hexane degradation rate by increasing cell surface hydrophobicity (csh) of the degrader, pseudomonas mendocina nx-1. the csh of p. mendocina nx-1 was manipulated by treatment with starch and chitosan solution of varied concentrations, reaching a maximum hydrophobicity of 52%. the biodegra ...	2017	28091789
biodegradation of p(3hb-co-4hb) powder by pseudomonas mendocina for preparation low-molecular-mass p(3hb-co-4hb).	poly(3-hydroxybutyrate-co-4-hydroxybutyrate) (p(3hb-co-4hb)) is a biodegradable plastic that is extensively utilized in many fields. in this work, p(3hb-co-4hb) powder was degraded by pseudomonas mendocina for the preparation of low-molecular-mass (lmw) p(3hb-co-4hb). after degradation, the remaining p(3hb-co-4hb) powder was analyzed via gel permeation chromatography (gpc), differential scanning calorimetry (dsc), x-ray powder diffraction (xrd), fourier transform infrared (ftir) spectroscopy, an ...	2017	28828288
degradation and conversion of endosulfan by newly isolated pseudomonas mendocina zam1 strain.	endosulfan contamination is one of the major concerns of soil ecosystem, which causes detrimental effects not only to humans but also to animals and plants. therefore, the aim of this study was to isolate and identify a novel bacterial strain capable of degrading endosulfan in agriculture contaminated soils. a novel bacterial strain was isolated from the sugarcane field contaminated with endosulfan, and was named as zam1 strain. the zam1 bacterial strain was further identified as pseudomonas men ...	2017	28667651
pseudomonas mendocina: the first case of peritonitis on peritoneal dialysis.		2017	28655401
phenotypic and genomic survey on organic acid utilization profile of pseudomonas mendocina strain s5.2, a vineyard soil isolate.	root exudates are chemical compounds that are released from living plant roots and provide significant energy, carbon, nitrogen and phosphorus sources for microbes inhabiting the rhizosphere. the exudates shape the microflora associated with the plant, as well as influences the plant health and productivity. therefore, a better understanding of the trophic link that is established between the plant and the associated bacteria is necessary. in this study, a comprehensive survey on the utilization ...	2017	28655216