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Staphylococcus epidermidis

Staphylococcus epidermidis: A Ubiquitous Skin Commensal with Untapped Research Potential.
This Gram-positive bacterium is a common inhabitant of human skin and mucous membranes, playing a crucial role in maintaining a healthy microbiome.
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Most cited protocols related to «Staphylococcus epidermidis»

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.
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
For all data sets, we removed all sequences that contained one or more ambiguous bases (Ns), that did not have an exact match to the expected bar-coded forward primers, or that had an average quality score less than 30 (the V6 region is short and generally low in homopolymer stretches and therefore has high average quality scores) (Sogin et al., 2006 (link); Huse et al., 2007 (link); Kunin et al., 2010 (link)). For V6 data sets, we also removed sequences that did not have a recognizable reverse primer sequence.
For non-environmental data sets, we compared all reads to a database of 16S rRNA sequences using GAST (Huse et al., 2008 (link)). Reads that had a best match to a non-target sequence that was at least 10% better than the match to the nearest template sequence were considered to be contamination and were removed. Reads that either did not have any match or did not have a match over at least 80% of their length were considered to represent non-target amplification, chimeras or reads with gross errors and were removed. These sequences were compared with the GenBank nt database using BLASTN (Altschul et al., 1990 (link)).
The likelihood of generating chimeras between short, hypervariable rRNA sequences of divergent taxa in the absence of the conserved regions of the gene is very small. The E. coli and S. epidermidis data sets, however, each include two very similar sequences in high density. Chimeras here are very similar to the correct sequences and map to the same species; therefore they are not identified by the minimum blast alignment requirement nor by standard chimera checking software, and would artificially increase the calculated error rate of PCR+pyrosequencing. Through visual examination we identified obvious chimeras and removed those specific sequences from the data. Some additional chimeras that contain sequencing errors and therefore do not exactly match predicted chimeras likely remain.
Publication 2010
Chimera Escherichia coli Genes Oligonucleotide Primers Ribosomal RNA RNA, Ribosomal, 16S Staphylococcus epidermidis
We inoculated 5 ml of filter-sterilized nutrient broth with a single colony of E. coli K12 ATCC 10798 or S. epidermidis ATCC 14990, and grew these cultures overnight at 37°C to an OD600 of ∼1 [nutrient broth is 8 g Difco nutrient broth powder (Invitrogen) in Milli-Q+ ultrapure water (Millipore) to 1 l; all loops, pipets, flasks, etc. were disposable sterile polycarbonate or polypropylene]. For each species, we inoculated three 250 ml flasks, each containing 50 ml nutrient broth, with 100 µl of the overnight culture. We incubated the flasks at 37°C with vigorous shaking and harvested the cultures at late stationary phase (OD600 of ∼1.25). We then divided each culture into three aliquots, extracted genomic DNA and used each DNA extraction in a separate amplification of the V6 region. We split one amplicon library from each species into two emPCR amplification prior to pyrosequencing for a total of 10 subsamples of single clones of E. coli and of S. epidermidis. We also generated an amplicon library from a previously prepared pool of plasmid DNA from 43 different cloned 16S rRNA genes from deep-sea vent organisms (Huse et al., 2007 (link); Huber et al., 2009 (link)).
We generated amplicon libraries using primer pools designed to span the V6 or V4-V5 hypervariable regions of as many known bacteria or archaea as possible (Tables S5 and S6). We used Invitrogen Platinum HiFi Taq polymerase for amplification, as we have found that the fidelity of standard Taq is insufficient for the level of deep sequencing provided by the GS FLX. We sequenced from the A adapter on a Roche GS FLX using standard Roche protocols and supplies and the amplicon base-calling pipeline. Sequences are available at the NCBI Short Read Archive (SRP001610).
Data from environmental samples were collected as previously described (Sogin et al., 2006 (link); Huber et al., 2007 (link); Gilbert et al., 2009 (link); Turnbaugh et al., 2009 (link); McLellan et al., 2010 (link)) using the amplification and processing methods outlined above.
Publication 2010
Archaea Bacteria DNA Library Escherichia coli Escherichia coli K12 Genes Genome Hydrothermal Vents Nutrients Oligonucleotide Primers Plasmids Platinum polycarbonate Polypropylenes Powder RNA, Ribosomal, 16S Staphylococcus epidermidis Sterility, Reproductive Taq Polymerase
The following bacterial species were used: Bacillus subtilis (ATCC 10707), Enterobacter cloacae (human isolate), Escherichia coli (ATCC 0157:H7), Micrococcus flavus (ATCC 9341),Proteus mirabilis (human isolate), Pseudomonas aeruginosa (ATCC 27853), Salmonella enteritidis (ATCC 13076), S. epidermidis (ATCC 12228) S. typhimurium (ATCC 13311) Staphylococcus aureus (ATCC 25923). The antibacterial assays were carried out by the disc-diffusion [25 (link)] and microdilution method [26 ,27 (link),28 (link)] in order to determine the antibacterial activity of oils and their components against the human pathogenic bacteria. The bacterial suspensions were adjusted with sterile saline to a concentration of 1.0 × 105 CFU/mL. The inocula were prepared daily and stored at +4 °C until use. Dilutions of the inocula were cultured on solid medium to verify the absence of contamination and to check the validity of the inoculum.
Publication 2010
Anti-Bacterial Agents Bacillus subtilis Bacteria Biological Assay Culture Media Diffusion Enterobacter cloacae Escherichia coli Homo sapiens Micrococcus flavus Oils Pathogenicity Proteus mirabilis Pseudomonas aeruginosa Saline Solution Salmonella enteritidis Staphylococcus aureus Staphylococcus epidermidis Sterility, Reproductive Technique, Dilution
Sterilized titanium (Ti6Al4V) and steel (AIS1316-L) discs were colonized by 1 of 4 different bacterial strains (Figure 1). All strains were clinical isolates from patients with chronic PJI. The bacterial strains were identified to the species level by biotyping and/or standard microbiological procedures: Staphylococcus aureus (coagulase-positive, nuc-positive staphylococcus), Staphylococcus epidermidis (ID-32 STAPH; bioMèrièux, Marcy l'Etoile, France; profile: 166010210), Enterococcus faecalis (rapid ID 32 STREP; bioMèrièux; profile: 30721715171), and Propionibacterium acnes (rapid ID 32A; bioMèrièux; profile: 2503377604).
Confocal scanning laser microscopy (CSLM) was employed to confirm the 24-hour biofilm formation ability of each strain. 8 study groups were examined (Table 1). Bacteria were suspended in 25 mL of Mueller Hinton broth (BD, Franklin Lakes, NJ) and incubated at 35ºC until a spectrophotometric density of approximately 1 × 108 colony forming units/mL (CFU/mL) had been reached in the exponential growth phase. A batch of 40 discs (one study group) was immersed in this bacterial suspension bath and incubated at 35ºC for 24 h on a gently stirring agitator (20 rpm).
To remove non-adherent bacteria, the discs were rinsed 6 times in sterile saline. First, the discs for each study group were placed in a sterile plastic tube (Sarstedt, Norway) containing 25 mL saline and gently vortex mixed (MS2 Minishaker; IKA Works Inc., Wilmington, NC) at 100 rpm for 10 seconds. The discs were then transferred to another tube, and the procedure was repeated twice. Each single disc was then transferred to a sterile glass test tube containing 5 mL saline and subjected to vortex mixing at 100 rpm. The single disc rinsing was also repeated 3 times.
Aliquots of 50 µL saline were incubated on agar (Merck, Darmstadt, Germany) with 5% ox blood at 35ºC for 3 days. For culture of P. acnes, FAA agar (Merck) was incubated in an anaerobic cabinet for 7 days. The bacteria cultured were enumerated by colony counting. The number of CFU after final rinsing was recorded as a quantitative baseline, facilitating evaluation of the different detachment methods.
Each experimental group (10 discs) was subjected to 1 of 4 methods for biofilm detachment and bacterial recovery. The experimental design is summarized in Table 1.
Publication 2009
Acne Agar Bacteria Bath Biofilms Blood Coagulase Enterococcus faecalis Microbiological Techniques Microscopy, Confocal, Laser Scanning Neoplasm Metastasis Patients Propionibacterium acnes Saline Solution Spectrophotometry Staphylococcal Infections Staphylococcus Staphylococcus aureus Staphylococcus epidermidis Steel Sterility, Reproductive Strains Streptococcal Infections Titanium titanium alloy (TiAl6V4)

Most recents protocols related to «Staphylococcus epidermidis»

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Example 4

Detection of MRSA was tested in a model of co-infection with excess methicillin-resistant Staphylococcus epidermidis (MRSE). In the specific model tested, MRSA (GP1822) was present at 10′ CFU/mL, either alone (MRSA Control); with MRSE at 106 CFU/mL (MRSA_MRSE 1e6); or with MRSE at 107 CFU/mL (MRSA_MRSE 1e7) (FIG. 4). Results showed no loss in detection under any condition, with positivity seen in 12/12 samples tested. Thus, the assay was able to detect MRSA in the presence of 1,000-fold and 10,000-fold excesses of MRSE.

Patent 2024
Biological Assay Coinfection Methicillin-Resistant Methicillin-Resistant Staphylococcus aureus Staphylococcus epidermidis Vision
TBLASTN 2.11.0+ [74 (link)] was used to compare TnaA [E. coli], TrpA [E. coli], TrpB [E. coli],TDC [Staphylococcus epidermidis], DDC [Bacillus licheniformis], IpdC [Azospirillum], AofH [Bacillus subtilis], and AldA [E. coli] protein sequences to publicly available sequenced bacterial genomes for isolates GNE6609, GNE6603, GNE6686, and GNE6624 (Genbank: GCF_000011065.1, GCF_900106755.1, GCA_000177015.3, and GCA_003202955.1). Searches yielding high-scoring segment pairs (HSPs) satisfying e value ≤ 0.1 and query coverage ≥ 60% were considered putative evidence of the presence of the query protein in the target genome.
Publication 2023
Amino Acid Sequence Azospirillum Bacillus licheniformis Bacillus subtilis Escherichia coli Genome Genome, Bacterial Proteins Staphylococcus epidermidis
Primary normal human epidermal keratinocytes were cultured at 37°C in 5% CO2 in Epilife medium supplemented with human keratinocyte growth supplement (Gibco, USA). Human microvascular endothelial cells (HMVECs) were cultured at 37°C in 5% CO2 in EBM-2 basal medium supplemented with EBM-2 growth medium (Lonza, USA).
M. furfur (ATCC 12078) was cultured at 30°C on Difco YM agar supplemented with 1% olive oil. S. epidermidis (Staphylococcus epidermidis, ATCC 12228) was cultured at 37°C on Difco tryptic soy agar. C. acnes (Cutibacterium acnes, ATCC 6919) was cultured at 37°C on forced clostridial medium (CM0149; Oxoid) with 2% agar. To induce hypoxia, a BD GasPakTM EZ Pouch was used. All the media were sterilized by autoclaving at 121°C for 15 min.
Organisms were harvested by centrifugation, and the pellet was suspended in the corresponding media. The organisms were heat-killed by incubation at 80°C for 3 min, and then co-cultured with normal human epidermal keratinocytes or human microvascular endothelial cells for 24 h at a density of 1 × 105 cells/mL. To induce allergic environments, recombinant thymic stromal lymphopoietin (TSLP) (50 ng/mL) or IL-4 (50 ng/mL) was used.
Publication 2023
Acne Agar Centrifugation Clostridium Endothelial Cells Epidermis Homo sapiens Hypoxia Keratinocyte Oil, Olive Propionibacterium acnes Staphylococcus epidermidis Thymic Stromal Lymphopoietin Trypsin
A 222 nm‐KrCl excimer lamp, emitting primarily at 222 nm, was used for laboratory testing for susceptibility. The lamp was operated with an optical bandpass filter to reduce the nonpeak emissions (Buonanno et al., 2021 (link)) and was used as a light source in laboratory experiments to assess the effectiveness of far‐UVC light to inactivate two of the most relevant Staphylococcus species identified as S. hominis and S. epidermidis. The three S. hominis isolates used for testing susceptibility to 222 nm‐far‐UVC were M1018, M1020, and M1022; and the two S. epidermidis isolates were A#2 and A#4; all of them isolated on February 24, 2022. Modified from Burlage (1998 ), chosen isolates were grown overnight in 50 mL Trypticase Soy Broth (TSB) in a shaker at 37°C/140 rpm. Then, 400 μL from this overnight culture were inoculated into 50 mL of fresh TSB, and cells were regrown to mid‐exponential phase for approximately 2.5–3 h until the absorption at 600 nm was verified to be between 0.3 and 0.4 using an Eppendorf Biophotometer D30. The cells were pelleted by centrifugation at 2103g for 8 min then resuspended to the same volume in phosphate‐buffered saline (PBS). Cells were centrifugated to a pellet again and resuspended again in 50 mL of PBS. A volume of 2 mL of this cell suspension was spread in a 4 cm diameter Petri dish swirling gently to cover the bottom of the plate. Dishes were exposed using the filtered excimer lamp at a distance of 20 cm. The irradiance at this distance was measured at 120 µW/cm2 using a Hamamatsu C9536 UV power meter with an H9535‐222 sensor head (Hamamatsu Corporation). Radiant exposure doses of 2, 10, or 20 mJ/cm2 were administered using respective exposure times of 17 s, 1 min 23 s, or 2 min 47 s. Plates were prepared in triplicate for each irradiation, and control plates remained unirradiated. Serial dilutions were prepared and 100 μL were spread onto TSA plates, incubated at 37°C in the dark, and colony forming units (CFUs) were counted after 48 h.
Publication 2023
Cells Centrifugation Head Hyperostosis, Diffuse Idiopathic Skeletal Light Phosphates Radiotherapy Saline Solution Staphylococcus Staphylococcus epidermidis Susceptibility, Disease Technique, Dilution trypticase-soy broth
In total, 68 S. epidermidis isolates were included: 4 from the patient and 64 from a strain collection comprising S. epidermidis isolated from PJIs (hip or knee) between 2007 and 2018 in Region Örebro, Sweden. No clinical data were available for the isolates from this strain collection. Species were confirmed by MALDI-TOF MS. For isolates displaying phenotypical heterogeneity during growth on dalbavancin-containing agar, MALDI-TOF MS was repeated after subculturing to exclude contamination. All isolates were stored at −80°C in preservation medium (trypticase soy broth; BD Diagnostic Systems, Sparks, MD, USA) supplemented with 0.3% yeast extract (BD Diagnostic Systems) and 29% horse serum (SVA, Uppsala, Sweden) at the Department of Laboratory Medicine, Clinical Microbiology, Örebro University Hospital, Sweden.
For antibiotic susceptibility testing, isolates were subcultured on Mueller–Hinton II agar 3.8% w/v plates (BD Diagnostic Systems) at 36°C. The MICs for dalbavancin and vancomycin were determined on 0.5 McFarland bacterial suspension in 0.85% (w/v) NaCl on Mueller–Hinton II agar plates with gradient strips (Liofilchem, Roseto degli Abruzzi, Italy; and Etest, bioMérieux, Marcy l’Etoile, France, respectively) incubated for 20 h at 35°C. The DAL0.125 method, a modification of the VAN4 method,20 (link) was developed to screen for S. epidermidis isolates with reduced susceptibility to dalbavancin. Briefly, 10 μL of a 0.5 McFarland bacterial suspension was pipetted on four agar plates containing different antibiotic concentrations (0.064 mg/L, 0.125 mg/L, 0.25 mg/L and 0.5 mg/L). Isolates were incubated at 35°C, and subsequently evaluated according to a protocol of ‘no growth’, ‘growth’ and ‘confluent growth’ at 24 and 48 h. When phenotypical heterogeneity was detected during growth on dalbavancin-containing agar (n = 16), the species was confirmed to be S. epidermidis with MALDI-TOF MS, and isolates were subcultured and re-evaluated by MIC gradient strip test.
Publication 2023
Agar Antibiotics Bacteria Biologic Preservation dalbavancin Diagnosis Epsilometer Test Equus caballus Genetic Heterogeneity Juvenile polyposis syndrome Knee Patients Pharmaceutical Preparations Serum Sodium Chloride Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization Staphylococcus epidermidis Strains Susceptibility, Disease trypticase-soy broth Vancomycin Yeast, Dried

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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.
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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.
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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.
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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.
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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.
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Bacillus subtilis is a Gram-positive, rod-shaped bacterium commonly found in soil and the gastrointestinal tract of humans and animals. It is a widely used laboratory strain for research and industrial applications.
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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.
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S. epidermidis is a reference strain of the bacterial species Staphylococcus epidermidis. It is a non-pathogenic, coagulase-negative Staphylococcus species commonly found on human skin and mucous membranes. This strain is widely used in research and development applications.

More about "Staphylococcus epidermidis"

Staphylococcus epidermidis, a ubiquitous Gram-positive bacterium, is a common inhabitant of human skin and mucous membranes, playing a crucial role in maintaining a healthy microbiome.
This versatile organism, also known as CoNS (Coagulase-Negative Staphylococcus), has untapped research potential that can be explored with the help of innovative AI-driven platforms like PubCompare.ai.
Compared to its more well-known counterpart, Staphylococcus aureus, S. epidermidis is generally considered less pathogenic.
However, it can still cause opportunistic infections, particularly in immunocompromised individuals or those with indwelling medical devices.
Other common skin and mucous membrane bacteria include Pseudomonas aeruginosa, Escherichia coli, Enterococcus faecalis, Bacillus subtilis, Klebsiella pneumoniae, and Candida albicans.
By utilizing PubCompare.ai's cutting-edge technology, researchers can optimize their investigations into S. epidermidis, accessing the best protocols from literature, preprints, and patents to enhance reproducibility and accuracy.
This can lead to a deeper understanding of the role S. epidermidis plays in the human microbiome, its interactions with other commensal and pathogenic bacteria, and its potential clinical applications, such as in the development of probiotics or antimicrobial strategies.
Discover how PubCompare.ai can streamline your Staphylococcus epidermidis research journey, delivering seamless, data-driven insights to advance this field of study and unlock new possibilities in the realm of human health and the microbiome.