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Pseudomonas aeruginosa

Most cited protocols related to «Pseudomonas aeruginosa»

Plasmid pDESTSIRV30, pDESTSIRV33 expressing the SIRV proteins (CAG38830 and CAG38833), pDESTAVRA expressing MRSA vraR protein (CAG40961) and pDESTFaBH2 expressing Pseudomonas aeruginosa FaBH2 protein (AAG06721)[28 (link)] were constructed using a modified Gateway technology with an N-terminal TEV protease cleavable His tag [29 (link)]. All the plasmids were propagated in DH5α E. coli cells (Stratagene, La Jolla) and plasmids were prepared using Qiagen miniprep kits (Qiagen, Germany). Pfu DNA polymerase, DpnI restriction enzyme are provided with QuikChange™ kit purchased from Stratagene, additional Pfu DNA polymerase was purchased from Promega when required. All the primers were synthesized by Eurogentec and simply purified by SePOP desalting. The melting temperature was calculated as T_m= 81.5 + 16.6(log([K+]/(1+0.7 [K+])) + 0.41(% [G+C]) – 500/(probe length in base) – 1.0(%mismatch) [30 (link)]. The T_{m pp}and T_{m no}were calculated for each primer. All primers and their T_{m no}and T_{m pp}are detailed in Table 1. PCR cycling was carried out using a Px2 thermal cycler (Thermo Electro Cooperation).
For single-site mutation, deletion or insertion, the PCR reaction of 50 μl contained 2–10 ng of template, 1 μM primer pair, 200 μM dNTPs and 3 units of Pfu DNA polymerase. The PCR cycles were initiated at 95°C for 5 minutes to denature the template DNA, followed by 12 amplification cycles. Each amplification cycle consisted of 95°C for 1 minute, T_{m no}-5°C for 1 minute and 72°C for 10 minutes or 15 minutes according to the length of the template constructs (about 500 bp per minute for Pfu DNA polymerase). The PCR cycles were finished with an annealing step at T_{m pp}-5 for 1 minute and an extension step at 72°C for 30 minutes. The PCR products were treated with 5 units of DpnI at 37°C for 2 hours and then 10 μl of each PCR reactions was analyzed by agarose gel electrophoresis. The full-length plasmid DNA was quantified by band density analysis against the 1636-bp band (equal to 10% of the mass applied to the gel) of the DNA ladders. An aliquot of 2 μl above PCR products, the PCR products generated using QuickChange™ or generated as described in [13 (link)] was transformed respectively into E. coli DH5α competent cells by heat shock. The transformed cells were spread on a Luria-Bertani (LB) plate containing antibiotics and incubated at 37°C over night. The number of colonies was counted and used as an indirect indication of PCR amplification efficiency. Four colonies from each plate were grown and the plasmid DNA was isolated. To verify the mutations, 500 ng of plasmid DNA was mixed with 50 pmole of T7 sequencing primer in a volume of 15 μl. DNA sequencing was carried out using the Sequencing Service, University of Dundee. For multiple site-directed mutations, deletions and insertions, the PCR was carried out in 50 μl of reaction containing 10 ng of template, 1 μM of each of the two primer pairs, 200 μM dNTPs and 3 units of Pfu DNA polymerase. The PCR cycles, DNA quantification, transformation and mutation verification were essentially the same as described above.

Liu H, & Naismith J.H. (2008). An efficient one-step site-directed deletion, insertion, single and multiple-site plasmid mutagenesis protocol. BMC Biotechnology, 8, 91.

Publication 2008

Antibiotics Cells Deletion Mutation DNA Restriction Enzymes Electrophoresis, Agar Gel Escherichia coli Gene Deletion Heat-Shock Response Insertion Mutation Methicillin-Resistant Staphylococcus aureus Mutation Oligonucleotide Primers Pfu DNA polymerase Plasmids Promega Proteins Pseudomonas aeruginosa TEV protease

Mock Community DNA Preparation

A single aliquot of the mock community was used throughout the sequencing effort analyzed in this study. This mock community represented 21 strains distributed among members of the Bacteria (n = 20) and Archaea (n = 1). Among the 20 bacterial sequences, there were 6 phyla, 10 classes, 12 orders, and 18 families and genera. The aliquot of mock community DNA was prepared by mixing genomic DNA from Acinetobacter baumanii (NC_009085), Actinomyces odontolyticus (DS264586), Bacillus cereus (AE017194), Bacteroides vulgatus (NC_009614), Clostridium beijerinckii (NC_009617), Deinococcus radiodurans (NC_001263), Enterococcus faecalis (NC_004668), Escherichia coli (NC_000913), Helicobacter pylori (NC_000915), Lactobacillus gasseri (NC_008530), Listeria monocytogenes (NC_003210), Neisseria meningitidis (NC_003112), Propionibacterium acnes (NC_006085), Pseudomonas aeruginosa (NC_002516), Rhodobacter sphaeroides (NC_007493, NC_007494), Staphylococcus aureus (NC_007793), Staphylococcus epidermidis (NC_004461), Streptococcus agalactiae (NC_004116), Streptococcus mutans (NC_004350), Streptococcus pneumoniae (NC_003028), and Methanobrevibacter smithii (NC_009515). Given the low homology between the three PCR primer pairs and the M. smithii 16S rRNA gene sequence, these sequences were rarely observed and have been omitted from the analysis of this study. The proportions of genomic DNAs added were calculated to have an equal number of 16S rRNA genes represented for each species; however, the original investigators did not verify the final relative abundances.

Schloss P.D., Gevers D, & Westcott S.L. (2011). Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies. PLoS ONE, 6(12), e27310.

Publication 2011

Acinetobacter Archaea Bacillus cereus Bacteria Bacteroides vulgatus Clostridium beijerinckii Deinococcus radiodurans DNA Enterococcus faecalis Escherichia coli Genes Genome Helicobacter pylori Lactobacillus gasseri Listeria monocytogenes Methanobrevibacter Neisseria meningitidis Oligonucleotide Primers Propionibacterium acnes Pseudomonas aeruginosa Rhodobacter sphaeroides Ribosomal RNA Genes RNA, Ribosomal, 16S Schaalia odontolytica Staphylococcus aureus Staphylococcus epidermidis Strains Streptococcus agalactiae Streptococcus mutans Streptococcus pneumoniae

Evaluating Viral Sequence Detection Tools

We first evaluated VirSorter results against the manually curated prophages from (Casjens, 2003 (link)). Each genome was processed with VirSorter, PhiSpy (Akhter, Aziz & Edwards, 2012 (link)), Phage_Finder (Fouts, 2006 (link)) and PHAST (Zhou et al., 2011 (link)). For each tool, a prophage was considered as “detected” when a prediction covered more than 75% of the known prophage. For a more detailed example case of prophage detection in a complete bacterial genome including both prophages and genomic islands, the same tools were applied to the manually annotated Pseudomonas aeruginosa LES B58 genome (Winstanley et al., 2009 (link)).
VirSorter was then compared with the same prophage detection tools on the set of simulated SAGs. In that case, a viral sequence was considered as detected if predicted as completely viral or as a prophage. All the additional detections were manually checked to verify if the region was indeed viral (originating from a prophage in one of the microbial genomes rather than from a viral genome) or a false positive. The same approach was used for the simulated microbial and viral metagenomes results.
For each set of predictions, two metrics are computed. First, the Recall value corresponds to the number of viral sequences correctly predicted divided by the total number of known viral sequences in the dataset, and reflects the ability of the tool to find every known viral sequence in the dataset. Second, the Precision value is computed as the total number of viral sequences correctly predicted divided by the total number of viral sequences predicted, and indicates how accurate the tool is in its identification of viral signal.

Roux S., Enault F., Hurwitz B.L, & Sullivan M.B. (2015). VirSorter: mining viral signal from microbial genomic data. PeerJ, 3, e985.

Publication 2015

Bacteriophages DMBT1 protein, human Genome Genome, Bacterial Genome, Microbial Genomic Islands Mental Recall Metagenome Prophages Pseudomonas aeruginosa Viral Genome

Bacterial Pathogenicity Genome Database

All available complete bacterial genomes (NCBI Genome Project, accessed on 10^th Nov. 2010) were considered for the creation of the training-sets.
The pathogenicity information for the retrieved organisms were taken from NCBI genome project pages as described in Andreatta et al. [31] (link), and for 885 of the 1,224 downloaded organisms, we were able to find pathogenicity information. The final complete training-set (Table S1) was composed of 513 organisms tagged as human non-pathogens and 372 tagged as human pathogens. For the human pathogenic organisms we checked for evidence in the literature.Opportunistic pathogens (e.g. from species like Staphylococcus aureus[56] or Pseudomonas aeruginosa[57] (link)) were still tagged as pathogenic even though it has been shown that some of them can live inside the host without causing any disease, and their pathogenicity is sometimes related to the host’s health conditions.
From January 2012, NCBI removed pathogenicity information from its pages, redirecting the users to Genomes Online Database (GOLD) [58] (link). On 26^th Feb. 2012 we queried GOLD for pathogenicity information about organisms that had been published after 5^th Nov. 2010 (the date of the latest published bacteria in the training-set). We were able to extract pathogenicity information for 449 organisms, and subsequently retrieved the corresponding complete genomes and plasmids from NCBI based on the NCBI project ids.
The final test data (Table S1) was composed of 449 organisms, 294 of which were tagged as human non-pathogens and 155 as human pathogens.

Cosentino S., Voldby Larsen M., Møller Aarestrup F, & Lund O. (2013). PathogenFinder - Distinguishing Friend from Foe Using Bacterial Whole Genome Sequence Data. PLoS ONE, 8(10), e77302.

Publication 2013

Bacteria Genome Genome, Bacterial Homo sapiens Pathogenicity Plasmids Pseudomonas aeruginosa Staphylococcus aureus

Subcellular Proteome Analysis of P. aeruginosa

We performed a laboratory analysis to construct an experimental dataset of proteins from a Gram-negative bacterium, Pseudomonas aeruginosa PA01, which was used to assess PSORTb 2.0, PSORTb 3.0, PA 2.5 and PA 3.0. This represents an independent dataset that includes hypothetical and uncharacterized proteins with previously unknown SCLs. P.aeruginosa is a bacterium noted for its diverse metabolic capacity and large genome/proteome size, and so represents an excellent organism with which to generate such a dataset (Stover et al., 2000 (link)). To generate this experimental dataset, we extracted protein samples from the cytoplasmic, periplasmic and secreted fractions of P.aeruginosa PA01. The resulting proteins in each fraction were digested to peptides and differentially labeled using formaldehyde isotopologues (Chan and Foster, 2008 (link)) prior to analysis by liquid chromatography–tandem mass spectrometry (LC–MS/MS), exactly as previously described (Chan et al., 2006 (link)). Abundance ratios between SCL were calculated using MSQuant (http://msquant.sourceforge.net/). To ensure a high-quality dataset with minimal contaminating proteins from other subcellular compartments, proteins that were only found in the cytoplasmic fraction and never in the other two soluble fractions were used to assess PSORTb 3.0 and PA 3.0 prediction results. This dataset was also felt to be most appropriate for assessment, since our analysis had suggested that most proteins of previously unknown localization in the old version of PSORTb were most likely cytoplasmic proteins. Further details on the experimental protocols for this proteomics analysis of the subcellular fractions can be found in Supplementary Material—methods for mass spectrometry protein identification.

Yu N.Y., Wagner J.R., Laird M.R., Melli G., Rey S., Lo R., Dao P., Sahinalp S.C., Ester M., Foster L.J, & Brinkman F.S. (2010). PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes. Bioinformatics, 26(13), 1608-1615.

Publication 2010

Bacteria Cytoplasm Feelings Formaldehyde Gram Negative Bacteria Liquid Chromatography Mass Spectrometry Peptides Periplasm Proteins Proteome Proto-Oncogene Mas Pseudomonas aeruginosa Spectrometry Staphylococcal Protein A Subcellular Fractions Tandem Mass Spectrometry

Most recents protocols related to «Pseudomonas aeruginosa»

Engineered Alginate Production in P. aeruginosa

Not available on PMC !

Example 2

PAO1, the parent strain of PGN5, is a wild-type P. aeruginosa strain that produces relatively small amounts of alginate and exhibits a non-mucoid phenotype; thus, PGN5 is also non-mucoid when cultured (FIG. 3A). In PAO1, the alginate biosynthetic operon, which contains genes required for alginate production, is negatively regulated. Activation of this operon leads to alginate production and a mucoid phenotype. For example, over-expression of mucE, an activator of the alginate biosynthetic pathway, induces a strong mucoid phenotype in the PAO1 strain (e.g., P. aeruginosa strain VE2; FIG. 3B). The plasmid pUCP20-pGm-mucE, which constitutively over-expresses MucE, was used to test whether the genetically-modified PGN5 strain could produce alginate. Indeed, the presence of this plasmid in PGN5 (PGN5+mucE) induced a mucoid phenotype (FIG. 3B). To measure the amount of alginate produced by PGN5+mucE on a cellular level, a standard carbazole assay was performed, which showed that the PGN5+mucE and VE2 (i.e., PAO1+mucE) strains produce comparable amounts of alginate (FIG. 3C; 80-120 g/L wet weight).

To examine whether the alginate produced by PGN5+mucE was similar in composition to alginate produced by VE2, HPLC was performed to compare the M and G content of alginate produced by each strain. The chromatograms obtained from alginate prepared from VE2 and PGN5+mucE were identical (FIG. 3D), and the M:G ratios were comparable to a commercial alginate control (data not shown). To confirm that the physical properties of VE2 and PGN5+mucE alginates were also similar, alginate gels were prepared from alginate produced by each strain and the viscosity and yield stress was measured. The viscosities of VE2 and PGN5+mucE alginate gels were comparable at 73.58 and 72.12 mPa, respectively (FIG. 3E). Similarly, the yield stress of VE2 and PGN5+mucE alginate gels were comparable at 47.34 and 47.16 Pa, respectively (FIG. 3G).

US11873477B2. Bacterial cultures and methods for production of alginate (2024-01-16). Marshall University Research Corporation [US]. Inventors: Hongwei D. Yu [US], Meagan E. Valentine [US], Richard M. Niles [US], Thomas Ryan Withers [US], Brandon D. Kirby [US].

Patent 2024

Alginate Alginates Anabolism Biological Assay Biosynthetic Pathways carbazole Cells Gels Genes High-Performance Liquid Chromatographies Operon Parent Phenotype Physical Processes Plasmids Pseudomonas aeruginosa Strains Viscosity

Truncated Lys68 Endolysin Variants Exhibit Activity

Not available on PMC !

Example 1

Lys68 is a globular endolysin, i.e. does not exhibit an apparent domain structure with an enzymatic domain and a cell wall binding domain, as encountered for various other endolysins. The inventor hypothesized, that Lys68 endolysin may nonetheless exhibit a core region responsible for enzymatic activity and tested this hypothesis with truncated versions of Lys68, namely Lys68(1-132) (SEQ ID NO:32), Lys68(1-148) (SEQ ID NO:33) and Lys68(7-162) (SEQ ID NO:34).

Briefly, the following experiment was carried out: Exponentially growing P. aeruginosa cells were harvested by centrifugation and subsequently resuspended in 0.05 M Tris/HCl pH 7.7 buffer saturated with chloroform. This cell suspension was incubated for 45 minutes at room temperature. Afterwards, cells were washed with 20 mM HEPES pH 7.4 and finally adjusted to an OD600 of ca. 1.5 with 20 mM HEPES pH 7.4. In order to test the muralytic activity, 270 μl of chloroform treated cells were mixed with 30 μl of purified variants of Lys68 in a 96 well plate and the OD600 was monitored in a microplate reader.

The result is shown in FIG. 1. All constructs showed activity.

US11866750B2. Endolysin variant (2024-01-09). SASINAPAS CO., LTD. [TH]. Inventors: Martin Griessl [DE].

Patent 2024

Cells Cell Wall Centrifugation Chloroform endolysin enzyme activity Enzymes Eye HEPES Inventors Pseudomonas aeruginosa Tromethamine

Engineering Attenuated Pseudomonas Strain for Alginate

Not available on PMC !

Example 1

To generate an attenuated strain of P. aeruginosa for production of alginate, the following virulence factor genes were sequentially deleted from the chromosome of the wild-type strain PAO1: toxA, plcH, phzM, wapR, and aroA. toxA encodes the secreted toxin Exotoxin A, which inhibits protein synthesis in the host by deactivating elongation factor 2 (EF-2). plcH encodes the secreted toxin hemolytic phospholipase C, which acts as a surfactant and damages host cell membranes. phzM encodes phenazine-specific methyltransferase, an enzyme required for the production of the redox active, pro-inflammatory, blue-green secreted pigment, pyocyanin. wapR encodes a rhamnosyltransferase involved in synthesizing O-antigen, a component of lipopolysaccharide (LPS) of the outer membrane of the organism. aroA encodes 3-phosphoshikimate 1-carboxyvinyltransferase, which is required intracellularly for aromatic amino acid synthesis. Deletion of aroA from the P. aeruginosa genome has previously been shown to attenuate the pathogen. Each gene was successfully deleted using a homologous recombination strategy with the pEX100T-Not1 plasmid. The in-frame, marker-less deletion of these five gene sequences was verified by Sanger sequencing and by whole genome resequencing (FIG. 1 and FIG. 8). This engineered strain was designated as PGN5. The whole genome sequence of PGN5 has been deposited to NCBI Genbank with an accession number of CP032541. All five in-frame gene deletions were detected and validated to be the deletion as designed using PCR (FIG. 7).

To verify gene deletion and attenuation of the PGN5 strain, the presence of the products of the deleted genes was measured and was either undetectable, or significantly reduced in the PGN5 strain. To test for the toxA gene deletion in PGN5, a Western blot analysis was performed for the presence of Exotoxin A in the culture medium. Exotoxin A secretion was detected in wild-type PAO1 control, but not in the PGN5 strain (FIG. 2A). To confirm the loss of plcH, hemolysis was assessed on blood agar. The hemolytic assay was carried out by streaking PAO1, PGN5, P. aeruginosa mucoid strain VE2, and a negative control, Escherichia coli strain BL21 on blood agar plates. A clear zone was observed surrounding PAO1 and VE2 cell growth, indicating complete (β-) hemolysis (FIG. 2B). In contrast, the blood agar remained red and opaque surrounding PGN5 and BL21 growth, indicating negligible or no hemolytic activity in these strains (FIG. 2B). To assess for deletion of phzM, the amount of pyocyanin secreted by PAO1 and PGN5 was extracted and measured. The amount of pyocyanin detected was significantly reduced in PGN5 (FIG. 2C). In fact, the difference in pigment production between PAO1 and PGN5 was immediately apparent on agar plates (FIG. 3A-3B). To test for wapR gene deletion, an LPS extraction was performed, followed by silver-stained SDS-PAGE and Western blot on the following strains: PAO1, PGN4 (PGN5 without aroA deletion), VE2, and PAO1_wbpL, which serves as a negative control due to a deletion in the O-antigen ligase gene, and thus produces no O-antigen. The presence of O-antigen was detected in PGN4, but the level of LPS banding was significantly reduced compared to the LPS banding profile observed in PAO1 and VE2 (FIG. 2D). Lastly, to test for aroA deletion, ELISA was performed to detect the presence of 3-phosphoshikimate 1-carboxyvinyltransferase in cell lysates prepared from PAO1 and PGN5. The ELISA results showed that the amount of 3-phosphoshikimate 1-carboxyvinyltransferase was significantly reduced in PGN5, compared to that in PAO1 (FIG. 2E). Additionally, the deletion of aroA resulted in slower growth in the PGN5 strain, a growth defect that was restored with the addition of 1 mg/mL of aromatic amino acids (W, Y, F) to the culture medium (data not shown).

Patent 2024

1-Carboxyvinyltransferase, 3-Phosphoshikimate Agar Alginate Anabolism Aromatic Amino Acids Biological Assay BLOOD Cardiac Arrest Chromosomes Culture Media Deletion Mutation Enzyme-Linked Immunosorbent Assay Enzymes Escherichia coli Exotoxins Gene Deletion Genes Genetic Markers Genome Hemolysis Homologous Recombination Inflammation Ligase Lipopolysaccharides Methyltransferase O Antigens Oxidation-Reduction Pathogenicity Peptide Elongation Factor 2 Phenazines Phospholipase C Pigmentation Plasma Membrane Plasmids Protein Biosynthesis Pseudomonas aeruginosa Pyocyanine Reading Frames SDS-PAGE secretion SERPINA3 protein, human Silver Strains Surface-Active Agents Tissue, Membrane Toxins, Biological Virulence Factors Western Blot Western Blotting

Survival Rates in Bacterial Challenge

Not available on PMC !

Example 3

To test whether the pathogenesis of PGN5 was attenuated, C57BL/6 mice were challenged with intraperitoneal injection of 5×10⁸cells of the PCR- and phenotype-validated strains VE2, PGN5+mucE, or E. coli BL21, or PBS as a negative control. Injection with the VE2 strain was fatal in 95% of mice within 48 h (FIGS. 4A-4C). In contrast, injection with BL21 cells resulted in 20% mortality within 48 h, while no mortality was observed from injection with either the PGN5+mucE strain or PBS (FIGS. 4A-4C). The mice were monitored for 4 weeks post-injection, and no change in mortality was observed.

Patent 2024

Cells Escherichia coli Figs Injections, Intraperitoneal Mice, Inbred C57BL Mus pathogenesis Phenotype Pseudomonas aeruginosa Strains

Epitope-based Vaccine Design for K. pneumoniae and P. aeruginosa

The reference proteomes of K. pneumoniae (strain ATCC 700721/MGH 78578) and P. aeruginosa (strain ATCC 15692/DSM 22644/CIP 104116/JCM 14847/LMG 12228/1C/PRS 101/PAO1) were downloaded from the UniProt webserver (https://www.uniprot.org/) under the proteome ID of UP000000265 and UP000002438, respectively. As mentioned in the introduction section, the current study aims to design an epitope-based vaccine through the filtration of protein candidates belonging to the outer membrane and iron uptake proteins. Therefore, we selected nine K. pneumoniae protein candidates namely FepA, FepB, FepC, FhuA, FhuF, FuR (iron uptake proteins), OmpA, OmpC, and OmpF (outer membrane proteins), and filtered them through their antigenicity score estimated by VaxiJen v2.0 (Doytchinova and Flower, 2007 (link)) with the cutoff score of 0.4 (the threshold value of bacterial antigenic proteins). The assessment of the antigenicity score revealed that there were 8 antigenic proteins, out of the selected 9 ones therefore we selected the top 2 proteins (one protein from each category) based on their antigenicity score where the final 2 protein candidates of K. pneumoniae were FepA and OmpF with antigenicity scores of 0.76 and 0.81 respectively. Moving to P. aeruginosa, we followed the same approach where six protein candidates namely FoxA, FpvA, HasR, HitA (iron uptake proteins), OprF, and OprH (outer membrane proteins) were filtered and 2 proteins (also one from each category) namely HasR and OprF with the antigenicity scores of 0.59 and 0.8 respectively were selected as our final candidates for P. aeruginosa.

Gouda A.M., Soltan M.A., Abd-Elghany K., Sileem A.E., Elnahas H.M., Ateya M.A., Elbatreek M.H., Darwish K.M., Bogari H.A., Lashkar M.O., Aldurdunji M.M., Elhady S.S., Ahmad T.A, & Said A.M. (2023). Integration of immunoinformatics and cheminformatics to design and evaluate a multitope vaccine against Klebsiella pneumoniae and Pseudomonas aeruginosa coinfection. Frontiers in Molecular Biosciences, 10, 1123411.

Publication 2023

Antigens Antigens, Bacterial Bacterial Proteins Epitopes Filtration Iron Klebsiella pneumoniae Membrane Proteins OmpC protein Proteins Proteome Pseudomonas aeruginosa Tissue, Membrane vaccin

Top products related to «Pseudomonas aeruginosa»

Pseudomonas aeruginosa by American Type Culture Collection

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Pseudomonas aeruginosa is a bacterial strain available from the American Type Culture Collection (ATCC). It is a Gram-negative, aerobic bacterium commonly found in soil and water environments. This strain can be used for various research and testing purposes.

Staphylococcus aureus by American Type Culture Collection

Sourced in United States, China, United Kingdom, Germany, Brazil, Malaysia, Italy, Portugal

Staphylococcus aureus is a bacterial strain available in the American Type Culture Collection (ATCC) product portfolio. It is a Gram-positive, spherical-shaped bacterium commonly found in the human nasal passages and on the skin. This strain is widely used in research and laboratory settings for various applications.

Escherichia coli by American Type Culture Collection

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Escherichia coli is a bacterium that is commonly used in laboratory settings. It serves as a model organism for microbiology and molecular biology research. Escherichia coli can be cultivated and studied to understand fundamental cellular processes and mechanisms.

Enterococcus faecalis by American Type Culture Collection

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Enterococcus faecalis is a Gram-positive, facultatively anaerobic bacterium. It is commonly found in the human gastrointestinal tract and is known for its ability to survive in diverse environments.

Klebsiella pneumoniae by American Type Culture Collection

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Klebsiella pneumoniae is a Gram-negative, non-spore-forming, encapsulated, lactose-fermenting, facultatively anaerobic, rod-shaped bacterium. It is a common inhabitant of the human gastrointestinal tract and can cause various types of infections, including pneumonia, urinary tract infections, and septicemia.

P aeruginosa by American Type Culture Collection

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P. aeruginosa is a bacterial strain available from the American Type Culture Collection. It is a Gram-negative, aerobic bacterium commonly found in soil and water environments. The strain can be used for various laboratory applications, but no further details on intended use are provided.

Candida albicans by American Type Culture Collection

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Staphylococcus epidermidis by American Type Culture Collection

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Staphylococcus epidermidis is a type of bacteria commonly found on the human skin and mucous membranes. It is a Gram-positive, coagulase-negative, and non-spore-forming coccus. Staphylococcus epidermidis is a prevalent microorganism and is often used in research and laboratory settings for various applications.

What are some common clinical manifestations of Pseudomonas aeruginosa infections?

Pseudomonas aeruginosa can cause a wide range of infections, including pneumonia, urinary tract infections, sepsis, and skin/soft tissue infections. It is particularly problematic in immunocompromised individuals and those with cystic fibrosis, where it can lead to severe and persistent respiratory infections. The bacterium's ability to form biofilms and adapt to diverse environments contributes to its persistence and virulence in clinical settings.

How does Pseudomonas aeruginosa differ from other common bacterial pathogens?

Unlike many other bacteria, Pseudomonas aeruginosa is intrinsically resistant to a wide range of antibiotics. This is due to its complex cell wall structure, the production of antibiotic-inactivating enzymes, and the upregulation of efflux pumps that expel antimicrobial agents. This innate resistance makes P. aeruginosa infections particularly challenging to treat, underscoring the need for optimized research protocols and the development of novel therapeutic approaches.

What are some key applications of Pseudomonas aeruginosa in research?

Researchers often use Pseudomonas aeruginosa as a model organism to study bacterial pathogenesis, quorum sensing, and the development of new antimicrobial therapies. Its versatility and well-characterized genetic and physiological properties make it a valuable tool for investigating fundamental aspects of bacterial biology and the host-pathogen interactions that contribute to its virulence. Optimizing research protocols for this important pathogen is crucial for reproducibility and advancing our understanding of its clinical implications.

How can PubCompare.ai assist with Pseudomonas aeruginosa research?

PubCompare.ai allows researchers to more efficiently screen protocol literature and leverage AI to pinpoint critical insights that can help identify the most effective protocols related to Pseudomonas aeruginosa. The platform's AI-driven analysis can highlight key differences in protocol effectiveness, enabling researchers to choose the best option for reproducibility and accuracy in their studies. This can be particularly helpful for researchers working to optimize their Pseudomonas research protocols and improve the overall quality and consistency of their work.

More about "Pseudomonas aeruginosa"

Pseudomonas aeruginosa is a ubiquitous, Gram-negative, rod-shaped bacterium known for its opportunistic infections and intrinsic antibiotic resistance.
It is a leading cause of nosocomial (hospital-acquired) infections, particularly in immunocompromised individuals and those with cystic fibrosis.
P. aeruginosa can cause a wide range of diseases, including pneumonia, urinary tract infections, sepsis, and skin and soft tissue infections.
This versatile pathogen is able to adapt to diverse environments and form biofilms, which contribute to its persistence and virulence.
Researchers often use P. aeruginosa as a model organism to study bacterial pathogenesis, quorum sensing (a communication system used by bacteria), and the development of novel antimicrobial therapies.
In addition to P. aeruginosa, other important pathogens include Staphylococcus aureus, Escherichia coli, Enterococcus faecalis, Klebsiella pneumoniae, Candida albicans, and Bacillus subtilis.
These microorganisms can also cause serious infections and are commonly studied in the laboratory.
The Vitek 2 system is a widely used automated platform for the identification and antimicrobial susceptibility testing of these and other clinically relevant bacteria and fungi.
Optimizing research protocols for P. aeruginosa and other key pathogens is crucial for reproducibility and advancing our understanding of their biology and clinical implications.
PubCompare.ai is a tool that can help researchers locate and compare protocols from the literature, preprints, and patents, using AI-driven analysis to identify the best approaches for their Pseudmonas aeruginosa and other microbial studies.