Rapid Identification of ESKAPE Bacterial Strains Using an Autonomous Microfluidic Device
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Mendeley | Further Information

{"title"=>"Rapid identification of eskape bacterial strains using an autonomous microfluidic device", "type"=>"journal", "authors"=>[{"first_name"=>"Jack Y.", "last_name"=>"Ho", "scopus_author_id"=>"55010953100"}, {"first_name"=>"Nate J.", "last_name"=>"Cira", "scopus_author_id"=>"55014364600"}, {"first_name"=>"John A.", "last_name"=>"Crooks", "scopus_author_id"=>"23004079600"}, {"first_name"=>"Josue", "last_name"=>"Baeza", "scopus_author_id"=>"55324412600"}, {"first_name"=>"Douglas B.", "last_name"=>"Weibel", "scopus_author_id"=>"6603885633"}], "year"=>2012, "source"=>"PLoS ONE", "identifiers"=>{"pui"=>"365338905", "sgr"=>"84864409564", "issn"=>"19326203", "pmid"=>"22848451", "scopus"=>"2-s2.0-84864409564", "doi"=>"10.1371/journal.pone.0041245"}, "id"=>"cd1659e2-3bdc-3a2f-9cbe-30a8da5a9f0f", "abstract"=>"This article describes Bacteria ID Chips ('BacChips'): an inexpensive, portable, and autonomous microfluidic platform for identifying pathogenic strains of bacteria. BacChips consist of a set of microchambers and channels molded in the elastomeric polymer, poly(dimethylsiloxane) (PDMS). Each microchamber is preloaded with mono-, di-, or trisaccharides and dried. Pressing the layer of PDMS into contact with a glass coverslip forms the device; the footprint of the device in this article is ∼6 cm(2). After assembly, BacChips are degased under large negative pressure and are stored in vacuum-sealed plastic bags. To use the device, the bag is opened, a sample containing bacteria is introduced at the inlet of the device, and the degased PDMS draws the sample into the central channel and chambers. After the liquid at the inlet is consumed, air is drawn into the BacChip via the inlet and provides a physical barrier that separates the liquid samples in adjacent microchambers. A pH indicator is admixed with the samples prior to their loading, enabling the metabolism of the dissolved saccharides in the microchambers to be visualized. Importantly, BacChips operate without external equipment or instruments. By visually detecting the growth of bacteria using ambient light after ∼4 h, we demonstrate that BacChips with ten microchambers containing different saccharides can reproducibly detect the ESKAPE panel of pathogens, including strains of: Enterococcus faecalis, Enteroccocus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, Enterobacter aerogenes, and Enterobacter cloacae. This article describes a BacChip for point-of-care detection of ESKAPE pathogens and a starting point for designing multiplexed assays that identify bacterial strains from clinical samples and simultaneously determine their susceptibility to antibiotics.", "link"=>"http://www.mendeley.com/research/rapid-identification-eskape-bacterial-strains-using-autonomous-microfluidic-device", "reader_count"=>46, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Professor > Associate Professor"=>1, "Researcher"=>15, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>12, "Student > Postgraduate"=>1, "Student > Master"=>6, "Student > Bachelor"=>3, "Lecturer"=>2, "Professor"=>2}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Professor > Associate Professor"=>1, "Researcher"=>15, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>12, "Student > Postgraduate"=>1, "Student > Master"=>6, "Student > Bachelor"=>3, "Lecturer"=>2, "Professor"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Engineering"=>8, "Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>3, "Materials Science"=>3, "Agricultural and Biological Sciences"=>19, "Medicine and Dentistry"=>4, "Physics and Astronomy"=>2, "Chemical Engineering"=>1, "Chemistry"=>1, "Computer Science"=>1, "Immunology and Microbiology"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>8}, "Materials Science"=>{"Materials Science"=>3}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>4}, "Chemistry"=>{"Chemistry"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>2}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>19}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>3}, "Unspecified"=>{"Unspecified"=>2}, "Environmental Science"=>{"Environmental Science"=>1}, "Chemical Engineering"=>{"Chemical Engineering"=>1}}, "reader_count_by_country"=>{"United States"=>1, "United Kingdom"=>2, "Chile"=>1, "Estonia"=>1}, "group_count"=>2}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/600249"], "description"=>"<p>The plot depicts the average time to <i>A. baumannii</i> identification using different starting concentrations of cells and loading the BacChip with media formulations consisting of LB diluted in saline. We ran assays with starting cell concentrations of 4.0 McF, 2.0 McF, and 0.5 McF. Parentheses indicate the consequent dilution into the loading media. We also tested single colonies from LB agar plates grown overnight at 37°C that were suspended in 100 µL of loading solution as a starting cell concentration. Based on our sampling time points, our temporal resolution for detection was ∼1 h. The colored bars indicate the most rapid (dark gray) and slowest conditions (black). Error bars indicate the standard deviation of the mean (n≥3).</p>", "links"=>[], "tags"=>["buffer", "conditions", "concentrations"], "article_id"=>270744, "categories"=>["Microbiology", "Medicine", "Biotechnology", "Infectious Diseases", "Chemistry"], "users"=>["Jack Y. Ho", "Nate J. Cira", "John A. Crooks", "Josue Baeza", "Douglas B. Weibel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0041245.g003", "stats"=>{"downloads"=>1, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Optimization_of_buffer_conditions_and_cell_concentrations_on_A_baumannii_identification_/270744", "title"=>"Optimization of buffer conditions and cell concentrations on <i>A. baumannii</i> identification.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 01:38:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/600176"], "description"=>"<p>The device consists of 10 microchambers; 9 of the microchambers are preloaded with a different saccharide and one is left empty as a control. We punched holes at the ends of the center PDMS channel to form an inlet port and a vacuum chamber. The PDMS layer was pressed into contact with a glass slide to form the microfluidic system. A plastic sheet was placed over the vacuum chamber to seal it. After removing the device from vacuum it is ready for sample loading by the user. (A) An image of an assembled device in which the channels and chambers are filled with a blue dye to make them visible. (B) After removal from vacuum, the user adds 20 µL of sample to the inlet port and the device fills and isolates cells in the microchambers autonomously.</p>", "links"=>[], "tags"=>["chemistry", "Infectious diseases", "public health and epidemiology", "microbiology", "biotechnology", "pediatrics and child health"], "article_id"=>270662, "categories"=>["Microbiology", "Medicine", "Biotechnology", "Infectious Diseases", "Chemistry"], "users"=>["Jack Y. Ho", "Nate J. Cira", "John A. Crooks", "Josue Baeza", "Douglas B. Weibel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0041245.g002", "stats"=>{"downloads"=>3, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Images_of_the_BacChip_/270662", "title"=>"Images of the BacChip.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 01:38:08"}
  • {"files"=>["https://ndownloader.figshare.com/files/600340"], "description"=>"<p>We loaded devices using a single isolated colony suspended in 100 µL of loading media consisting of 25% LB and 0.05% phenol red in saline. We incubated BacChips at 37°C and imaged the devices after 4 h. Yellow microchambers indicate a decrease in the pH below 6.8, which arises from fermentation of the saccharide; red microchambers match the control and indicate no fermentation (pH 8.2). Orange microchambers indicate that the bacterial are slowly metabolizing the saccharide and the pH is >6.8. Black lines were added to the edge of each device and microchamber to aid in visualization.</p>", "links"=>[], "tags"=>["colorimetric", "profiles", "eskape", "pathogens"], "article_id"=>270830, "categories"=>["Microbiology", "Medicine", "Biotechnology", "Infectious Diseases", "Chemistry"], "users"=>["Jack Y. Ho", "Nate J. Cira", "John A. Crooks", "Josue Baeza", "Douglas B. Weibel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0041245.g004", "stats"=>{"downloads"=>3, "page_views"=>17, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Different_colorimetric_profiles_of_ESKAPE_pathogens_in_BacChips_/270830", "title"=>"Different colorimetric profiles of ESKAPE pathogens in BacChips.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 01:38:59"}
  • {"files"=>["https://ndownloader.figshare.com/files/600080"], "description"=>"<p>A table comparing the BacChip device with commercial diagnostic systems that include comparable self-contained hand-held devices and advanced computerized systems. “Time to ID” refers to the identification time after a bacterium has been isolated and amplified (typically an additional 24–48 h required for all diagnostic devices listed). The designation ‘GN’ and ‘GP card’ for the Vitek 2 indicates that different test cards are required to identify these organisms. *The API 50 CH system is not marketed for Gram-positive bacteria nor does it have a GP database for identification of strains. However, the method of identification of the API 50 CH (carbohydrate metabolism) could in principle be used to determine Gram-positive bacteria.</p>", "links"=>[], "tags"=>["bacchip"], "article_id"=>270570, "categories"=>["Microbiology", "Medicine", "Biotechnology", "Infectious Diseases", "Chemistry"], "users"=>["Jack Y. Ho", "Nate J. Cira", "John A. Crooks", "Josue Baeza", "Douglas B. Weibel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0041245.g001", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_The_BacChip_versus_current_commercial_diagnostics_/270570", "title"=>"The BacChip versus current commercial diagnostics.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 01:37:37"}
  • {"files"=>["https://ndownloader.figshare.com/files/600461"], "description"=>"<p>We tested <i>S. aureus</i> ATCC 13565, ATCC 25923 and FRI-100 in triplicate. Devices were loaded using a single isolated colony suspended in 100 µL of loading media consisting of 25% LB and 0.05% phenol red in saline. We incubated BacChips at 37°C and imaged the devices after 4 h and 6 h. ATCC 13565 and 25923 developed into a stationary colorimetric profile within 4 h, however FRI-100 required 6 h of incubation. Black lines were added to the edge of each device and microchamber to aid in visualization. The configuration of saccharides and microchambers is as shown in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0041245#pone-0041245-g004\" target=\"_blank\">Figure 4</a>.</p>", "links"=>[], "tags"=>["chemistry", "Infectious diseases", "public health and epidemiology", "microbiology", "biotechnology", "pediatrics and child health"], "article_id"=>270951, "categories"=>["Microbiology", "Medicine", "Biotechnology", "Infectious Diseases", "Chemistry"], "users"=>["Jack Y. Ho", "Nate J. Cira", "John A. Crooks", "Josue Baeza", "Douglas B. Weibel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0041245.g005", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Strain_to_strain_variation_of_S_aureus_in_BacChips_/270951", "title"=>"Strain-to-strain variation of <i>S. aureus</i> in BacChips.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 01:39:37"}

PMC Usage Stats | Further Information

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Relative Metric

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