scholarly journals Development of a DNA microarray assay for rapid detection of fifteen bacterial pathogens in pneumonia

2020 ◽  
Author(s):  
Xiuqing Ma ◽  
Yanqin Li ◽  
Yuan Liang ◽  
Yang Liu ◽  
Ling Yu ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Legionella Pneumophila ◽  
Burkholderia Cepacia ◽  
Pathogenic Bacteria ◽  
Chlamydia Pneumoniae ◽  
Bacterial Pathogens ◽  
Bacterial Species ◽  
Simultaneous Detection ◽  
Clinical Isolates ◽  
Microarray Assay

Abstract Background: The rapid identification of pathogenic bacteria is important for determining an appropriate antimicrobial therapy for pneumonia, but traditional bacterial culture is time-consuming and labourious. The aim of this study was to develop and evaluate a DNA microarray assay for the simultaneous detection of fifteen bacterial species directly from respiratory tract specimens in patients with pneumonia. These species included Streptococcus pneumoniae, Staphylococcus aureus, Haemophilus influenzae, Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, Acinetobacter baumannii, Mycoplasma pneumoniae, Enterococcus faecalis, Enterococcus faecium, Enterobacter cloacae, Stenotrophomonas maltophilia, Burkholderia cepacia, Legionella pneumophila and Chlamydia pneumoniae. The 16S rDNA genes and other specific genes of each pathogen were chosen as the amplification targets, amplified via multiplex polymerase chain reaction (PCR), and hybridized to oligonucleotide probes in a microarray.Results: The DNA microarray detection limit was 103 copies/μL. Nineteen standard strains and 119 clinical isolates were correctly detected with our microarray, and 3 nontarget species from 4 clinical isolates were not detected. Additionally, bacterial pathogens were accurately identified when two or three bacterial targets were mixed together. Furthermore, the results for 99.4% (156/157) of clinical specimens were the same as those from a conventional assay.Conclusions: We developed a DNA microarray that could simultaneously detect various bacterial pathogens in pneumonia. The method described here has the potential to provide considerable labour and time savings due to its ability to screen for 15 bacterial pathogens simultaneously.

scholarly journals Development of a DNA microarray assay for rapid detection of fifteen bacterial pathogens in pneumonia

2020 ◽  
Author(s):  
Xiuqing Ma ◽  
Yanqin Li ◽  
Yuan Liang ◽  
Yang Liu ◽  
Ling Yu ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Legionella Pneumophila ◽  
Burkholderia Cepacia ◽  
Pathogenic Bacteria ◽  
Chlamydia Pneumoniae ◽  
Bacterial Pathogens ◽  
Positive Control ◽  
Negative Control ◽  
Clinical Isolates ◽  
Microarray Assay

Abstract Background: Rapid identification of pathogenic bacteria is important for appropriate antimicrobial therapy of pneumonia, but traditional bacteria culture is time-consuming and laborious. The aim of this study was to develop and evaluate a DNA microarray assay for the simultaneously detection of fifteen bacteria species directly from respiratory tract specimens in patients with pneumonia. These species included Streptococcus pneumoniae, Staphylococcus aureus, Haemophilus influenzae, Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, Acinetobacter baumannii, Mycoplasma pneumoniae, Enterococcus faecalis, Enterococcus faecium, Enterobacter cloacae, Stenotrophomonas maltophilia, Burkholderia cepacia, Legionella pneumophila and Chlamydia pneumoniae. The 16S rDNA and specific genes of each pathogen were chosen as the amplification target, amplified with multiplex polymerase chain reaction (PCR), and hybridized to the oligonucleotide probes on the microarray. Results: The DNA microarray can reach a detection limit of 10 3 copies/μL. Nineteen standard strains, 119 positive control clinical isolates and 4 negative control clinical isolates were correctly detected with our microarray. Meanwhile, bacterial pathogens were accurately identified when two or three bacterial targets were mixed together. Furthermore, the results of 99.4% (156/157) clinical specimens were the same to that from the conventional assay. Conclusions: we developed a DNA microarray that could simultaneously detect various bacterial pathogens in pneumonia. The method described here has the potential to provide considerable labor and time savings due to its ability to screen for 15 bacterial pathogens simultaneously.

scholarly journals Development of a DNA microarray assay for rapid detection of fifteen bacterial pathogens in pneumonia

2020 ◽  
Author(s):  
Xiuqing Ma ◽  
Yanqin Li ◽  
Yuan Liang ◽  
Yang Liu ◽  
Ling Yu ◽  
...  
Keyword(s):  
Dna Microarray ◽  
Legionella Pneumophila ◽  
Burkholderia Cepacia ◽  
Pathogenic Bacteria ◽  
Chlamydia Pneumoniae ◽  
Bacterial Pathogens ◽  
Rapid Identification ◽  
Clinical Isolates ◽  
Microarray Assay ◽  
Bacteria Culture

Abstract Background: Rapid identification of pathogenic bacteria is important for appropriate antimicrobial therapy of pneumonia, but traditional bacteria culture is time-consuming and laborious. The aim of this study was to develop and evaluate a DNA microarray assay for the simultaneously detection of fifteen bacteria species directly from respiratory tract specimens in patients with pneumonia. These species included Streptococcus pneumoniae, Staphylococcus aureus, Haemophilus influenzae, Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, Acinetobacter baumannii, Mycoplasma pneumoniae, Enterococcus faecalis, Enterococcus faecium, Enterobacter cloacae, Stenotrophomonas maltophilia, Burkholderia cepacia, Legionella pneumophila and Chlamydia pneumoniae. The 16S rDNA and specific genes of each pathogen were chosen as the amplification target, amplified with multiplex polymerase chain reaction (PCR), and hybridized to the oligonucleotide probes on the microarray. Results: The DNA microarray can reach a detection limit of 10 3 copies/μL. Nineteen standard strains and 119 clinical isolates were correctly detected with our microarray and 3 non-target species from 4 clinical isolates were not detected. Meanwhile, bacterial pathogens were accurately identified when two or three bacterial targets were mixed together. Furthermore, the results of 99.4% (156/157) clinical specimens were the same to that from the conventional assay. Conclusions: we developed a DNA microarray that could simultaneously detect various bacterial pathogens in pneumonia. The method described here has the potential to provide considerable labor and time savings due to its ability to screen for 15 bacterial pathogens simultaneously.

Application of DNA microarray technology for detection, identification, and characterization of food-borne pathogens

2006 ◽  
Vol 52 (1) ◽  
pp. 1-8 ◽  
Author(s):  
M Kostrzynska ◽  
A Bachand
Keyword(s):  
Dna Microarray ◽  
Dna Sequences ◽  
Pathogenic Bacteria ◽  
Dna Microarrays ◽  
Simultaneous Detection ◽  
Microarray Technology ◽  
Food Borne Pathogens ◽  
Food Borne ◽  
Target Dna

DNA microarrays represent the latest advance in molecular technology. In combination with bioinformatics, they provide unparalleled opportunities for simultaneous detection of thousands of genes or target DNA sequences and offer tremendous potential for studying food-borne microorganisms. This review provides an up-to-date look at the application of DNA microarray technology to detect food-borne pathogenic bacteria, viruses, and parasites. In addition, it covers the advantages of using microarray technology to further characterize microorganisms by providing information for specific identification of isolates, to understand the pathogenesis based on the presence of virulence genes, and to indicate how new pathogenic strains evolved epidemiologically and phylogenetically.Key words: DNA microarrays, food-borne pathogens, detection.

scholarly journals Advanced Proteomics as a Powerful Tool for Studying Toxins of Human Bacterial Pathogens

Toxins ◽  
2019 ◽  
Vol 11 (10) ◽  
pp. 576 ◽  
Author(s):  
Duport ◽  
Alpha-Bazin ◽  
Armengaud
Keyword(s):  
Mechanism Of Action ◽  
Environmental Conditions ◽  
Pathogenic Bacteria ◽  
Bacterial Pathogens ◽  
Bacterial Species ◽  
Host Tissue ◽  
Recent Advances ◽  
Tissue Damages

Exotoxins contribute to the infectious processes of many bacterial pathogens, mainly by causing host tissue damages. The production of exotoxins varies according to the bacterial species. Recent advances in proteomics revealed that pathogenic bacteria are capable of simultaneously producing more than a dozen exotoxins. Interestingly, these toxins may be subject to post-transcriptional modifications in response to environmental conditions. In this review, we give an outline of different bacterial exotoxins and their mechanism of action. We also report how proteomics contributed to immense progress in the study of toxinogenic potential of pathogenic bacteria over the last two decades.

scholarly journals T Cell Immunity to Bacterial Pathogens: Mechanisms of Immune Control and Bacterial Evasion

2020 ◽  
Vol 21 (17) ◽  
pp. 6144 ◽  
Author(s):  
Freya R. Shepherd ◽  
James E. McLaren
Keyword(s):  
T Cells ◽  
T Cell ◽  
Immune Responses ◽  
Pathogenic Bacteria ◽  
Bacterial Pathogens ◽  
Bacterial Species ◽  
Immune Defense ◽  
T Cell Immunity ◽  
Cell Immunity ◽  
Bacterial Antigens

The human body frequently encounters harmful bacterial pathogens and employs immune defense mechanisms designed to counteract such pathogenic assault. In the adaptive immune system, major histocompatibility complex (MHC)-restricted αβ T cells, along with unconventional αβ or γδ T cells, respond to bacterial antigens to orchestrate persisting protective immune responses and generate immunological memory. Research in the past ten years accelerated our knowledge of how T cells recognize bacterial antigens and how many bacterial species have evolved mechanisms to evade host antimicrobial immune responses. Such escape mechanisms act to corrupt the crosstalk between innate and adaptive immunity, potentially tipping the balance of host immune responses toward pathological rather than protective. This review examines the latest developments in our knowledge of how T cell immunity responds to bacterial pathogens and evaluates some of the mechanisms that pathogenic bacteria use to evade such T cell immunosurveillance, to promote virulence and survival in the host.

Filtration effects of zebra mussels on pathogens and total bacterial burden in the Odra Lagoon (South Baltic)

2015 ◽  
Vol 71 (9) ◽  
pp. 1354-1360
Author(s):  
G. Daeschlein ◽  
C. Fenske ◽  
S. Scholz ◽  
S. Dahlke ◽  
M. Jünger ◽  
...  
Keyword(s):  
Burkholderia Cepacia ◽  
Dreissena Polymorpha ◽  
Pathogenic Bacteria ◽  
Bacterial Species ◽  
Antimicrobial Effect ◽  
Zebra Mussels ◽  
Water Bodies ◽  
North East ◽  
Wastewater Pollution

As a result of their mode of filter feeding, zebra mussels (Dreissena polymorpha Pall.) have been observed to purify natural water bodies and in vitro. Therefore, the possibility of using zebra mussels for water purification was investigated in a slightly brackish water body of a large lagoon. In this study, water samples were taken above, near and at distance from zebra mussel beds (MB) in the Odra Lagoon in North East Germany. Near typical bacterial species like Aeromonas spp. pathogenic bacteria with potential relation to hospital wastewater pollution (Burkholderia cepacia, Staphylococcus aureus, Weeksella spp.) were detected. There were no correlations found between either total bacteria or pathogens and distance to MB and no antimicrobial effect of the mussels could be deduced. For bioremediation in larger water bodies like lagoons, natural zebra MB do not seem to play a major antimicrobial role and the effect of artificial mussel grids especially against hospital pathogens should be investigated.

scholarly journals 2191. The Sputum FilmArray Pneumonia Panel (SFAPP) Outperforms a Diagnostic Bundle in Patients with Community-Acquired Pneumonia (CAP)

2019 ◽  
Vol 6 (Supplement_2) ◽  
pp. S746-S746
Author(s):  
David N Gilbert ◽  
Emma White ◽  
Shirin Ferdosian ◽  
Gita Gelfer ◽  
Lian Wang ◽  
...  
Keyword(s):  
Legionella Pneumophila ◽  
Pathogenic Bacteria ◽  
Pathogen Detection ◽  
Bacterial Colonization ◽  
Bacterial Species ◽  
Pneumonia Severity Index ◽  
Bacterial Pathogen ◽  
Severity Index ◽  
Final Diagnosis ◽  
Respiratory Pathogens

Abstract Background This study compares the detection of respiratory pathogens between a multitest “Bundle” (MTB) and the Sputum FilmArray Pneumonia Panel (SFAPP). Methods Patients admitted from the ED with CAP were enrolled. The SFAPP probed for the presence of 18 bacterial species and 17 viral targets. The results were compared with pathogen detection with an MTB: (a) culture of sputum and blood; (b) urine antigens of S. pneumoniae and Legionella pneumophila; (c) Nasopharyngeal (NP) Respiratory FilmArray (NPRFA) panel which detects 17 viruses and 3 bacteria; and (d) nasal NAATs for S. pneumoniae and S. aureus. Two serum procalcitonin (PCT) levels helped separate bacterial colonization from invasion. Results Of 400 enrolled patients, 121 (30%) were non-evaluable due to a lack of a sputum specimen, 72 (18%) with a final diagnosis other than CAP, and other reasons in 21 (5%). Herein, the results of 186 (47%) evaluable patients with CAP and the Pneumonia Severity Index values of over 90 in 64.5%. The SFAPP detected viruses in 114/186 (61.3%) patients compared with 73/186 (39.2%) with the NPRFAP, p. The SFAPP detected bacterial pathogen(s) in 140/186 (75.3%) of patients vs. 117/183 (62.9%) with the MTB, pH. influenzae, M. catarrhalis, and S. agalactiae, p. A potential pathogenic bacteria and/or virus was detected in 176 of the 186 (95%) evaluable patients. Patients were classified as: virus detected (22); bacteria detected (57); bacteria and virus (97); CAP but no pathogen detected (10). The distribution of serum PCT levels by pathogen detected is shown in Figure 1. The dashed line is the 0.25 ng/mL “cut-off” to help separate colonization from invasion by bacteria. Antibiotic use was less in influenza patients with low PCT levels, p. In 22 patients with only virus detected and PCT. Conclusion The Sputum FilmArray Pneumonia Panel detected more bacteria and viral potential pathogens than the Multitest Bundle that included the Nasopharyngeal FilmArray Panel. The Sputum FilmArray Pneumonia Panel may allow removal of nasopharyngeal swabs and urine antigens from the MTB. Disclosures All authors: No reported disclosures.

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