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Conventional and molecular techniques for the early diagnosis of bacteraemia

Michela Paolucci, Maria Paola Landini, Vittorio Sambri
2010 International Journal of Antimicrobial Agents  
An ideal diagnostic technology would identify the infecting organism(s) and their determinants of antibiotic resistance, in a timely manner, so that appropriate pathogen-driven therapy could begin promptly  ...  Several efforts have been made to optimize the performance of blood culture, such as the development of technologies to obtain rapid detection of microorganism(s) directly in blood samples or in a positive  ...  presence of genes encoding antibiotic resistance.  ... 
doi:10.1016/j.ijantimicag.2010.11.010 pmid:21129933 fatcat:7ve6y4j7knabdkbhyoofrdzcsy

Predictors of Occurrence and 30-Day Mortality for Co-Infection of Carbapenem-Resistant Klebsiella pneumoniae and Carbapenem-Resistant Acinetobacter baumannii

Dongmei Lv, Yan Zuo, Yuerong Wang, Zhongxin Wang, Yuanhong Xu
2022 Frontiers in Cellular and Infection Microbiology  
The clinical characteristics and predictors of mortality were analyzed.  ...  This study aimed to analyze predictors of occurrence and 30-day mortality for carbapenem-resistant Klebsiella pneumoniae and carbapenem-resistant Acinetobacter baumannii co-infection.MethodsFrom June 2018  ...  ACKNOWLEDGMENTS We would like to thank the First Affiliated Hospital of Anhui Medical University staffs for their support in sample and clinical data collections.  ... 
doi:10.3389/fcimb.2022.919414 fatcat:d5idq4rpa5czporu4bw43bvhmy

Propensity Score Synthetic Augmentation Matching using Generative Adversarial Networks (PSSAM-GAN)

Shantanu Ghosh, Christina Boucher, Jiang Bian, Mattia Prosperi
2021 Computer Methods and Programs in Biomedicine Update  
Understanding causality is of crucial importance in biomedical sciences, where developing prediction models is insufficient because the models need to be actionable.  ...  Experiments performed on both semi-synthetic (perinatal interventions) and real-world observational data (antibiotic treatments, and job interventions) show that the PSSAM-GAN approach effectively creates  ...  Funding This work was supported in part by the National Institutes of Health [grant numbers R01AI145552; R01AI141810; R21AI138815; R01CA246418; U18DP006512; R21AG068717; and R21CA245858].  ... 
doi:10.1016/j.cmpbup.2021.100020 pmid:34386786 pmcid:PMC8357304 fatcat:x7ls6gbdgzepfgkv4bwvbs6lhy

A decade of advances in transposon-insertion sequencing

Amy K. Cain, Lars Barquist, Andrew L. Goodman, Ian T. Paulsen, Julian Parkhill, Tim van Opijnen
2020 Nature reviews genetics  
contribution or essentiality of each genetic component in a bacterial genome.  ...  In this Review, we discuss the recent applications of TIS to answer overarching biological questions.  ...  Identifying genes and networks involved in antibiotic resistance. The emergence of antibiotic resistance is a major global health problem, exacerbated by a lack of development of new antibiotics.  ... 
doi:10.1038/s41576-020-0244-x pmid:32533119 pmcid:PMC7291929 fatcat:dklgzio6xjbynerp2hdavmosd4

Poster presentations

2017 International Journal of Antimicrobial Agents  
On the basis of seven independent predictors of 28-day mortality recognized by the multivariate regression.566 of the 1,487 patients in the Gramnegative group were matched to 566 patients in the Gram-positive  ...  The propensity score was calculated by the independent predictors of 28-day crude mortality recognized by a multivariable logistic regression model.  ...  Keywords: Staphylococcus aureus, vancomycin resistance, VRSA, VISA  ... 
doi:10.1016/s0924-8579(17)30342-4 fatcat:37t5vj7gwrdvri57w3mquptxzq

Staphylococcus aureus Extracellular Vesicles Elicit an Immunostimulatory Response in vivo on the Murine Mammary Gland

Natayme R. Tartaglia, Koen Breyne, Evelyne Meyer, Chantal Cauty, Julien Jardin, Denis Chrétien, Aurélien Dupont, Kristel Demeyere, Nadia Berkova, Vasco Azevedo, Eric Guédon, Yves Le Loir
2018 Frontiers in Cellular and Infection Microbiology  
However, they induced the gene expression of inflammatory cytokines at levels similar to those induced by live S. aureus N305.  ...  Staphylococcus aureus is a major pathogen responsible for bovine mastitis, the most common and costly disease affecting dairy cattle.  ...  NRT, YLL, and EG wrote the manuscript and all of the authors critically reviewed the manuscript and approved the final version. FUNDING  ... 
doi:10.3389/fcimb.2018.00277 fatcat:y5g4gxiwavalln3hfwdx3ffzf4


2005 Clinical Microbiology and Infection  
W4b Unexpected resistance mechanisms behind known antibiotic resistance in anaerobic pathogen and their detection L. Dubreuil, J. Behra, L.  ...  Vancomycin-and methicillin-resistant Staphylococcus aureus (VMRSA): how to cope with it in the hospital setting?  ... 
doi:10.1111/j.1469-0691.2005.clm_1133.x pmid:15796719 pmcid:PMC7129694 fatcat:feugscxipbbq7cijfrjupvxffi

Atypical Bacteria in the CF Airways: Diversity, Clinical Consequences, Emergence and Adaptation [chapter]

Marchandin Hlne, Michon Anne-Laure, Jumas-Bilak Estelle
2012 Cystic Fibrosis - Renewed Hopes Through Research  
Introduction The inventory of atypical 1 bacteria that may be found in the airways of cystic fibrosis (CF) patients besides well-known typical CF pathogens like Staphylococcus aureus, Haemophilus influenzae  ...  Both systems permit genus-level identification and sequencing of either 16S rRNA gene or another housekeeping gene should be performed for species identification.  ...  Though they narrowed down to a single target gene, the tentacles of the disease reach many unknown corners of the human body.  ... 
doi:10.5772/30253 fatcat:64jlfqloffdsho4t4gyu57qkem

The evolution of genome mining in microbes – a review

Nadine Ziemert, Mohammad Alanjary, Tilmann Weber
2016 Natural product reports (Print)  
This article reviews the development of genome mining strategies in bacteria during the last decade.  ...  The work of TW is funded by a grant of the Novo Nordisk Foundation.  ...  BGC0000308 Search for conserved NRPS genes in S. aureus and other Staphylococcus strains 105 Coelichelin BGC0000325 Search for NRPS genes in S. coelicolor M145 106 Poeamide BGC0001208 Search  ... 
doi:10.1039/c6np00025h pmid:27272205 fatcat:acr3utuiz5h7fjio2zvtgzakn4

Oral presentations

2008 Clinical Microbiology and Infection  
Staphylococcus aureus, especially meticillin-resistant Staphylococcus aureus (MRSA), and penicillin-resistant pneumococci are replacing Gram-negative bacteria as predominant causes of nosocomial pneumonia  ...  K172 Community meticillin-resistant Staphylococcus aureus: hypervirulent or just hype? F.  ...  The unexpected and widespread occurrence of hospital-adapted clones in dogs raises an important question concerning the evolution of this clonal complex: does CC17 originate from humans (anthropozoonosis  ... 
doi:10.1111/j.1469-0691.2008.02006.x pmid:18399911 pmcid:PMC7129943 fatcat:tbctrv2iwfc45dc4oxavr4crla

Molecular Characterization of the Acute Inflammatory Response to Infections with Gram-Negative versus Gram-Positive Bacteria

R. J. Feezor, C. Oberholzer, H. V. Baker, D. Novick, M. Rubinstein, L. L. Moldawer, J. Pribble, S. Souza, C. A. Dinarello, W. Ertel, A. Oberholzer
2003 Infection and Immunity  
leukocytes stimulated ex vivo with Escherichia coli lipopolysaccharide or heat-killed Staphylococcus aureus.  ...  We investigated plasma proinflammatory cytokine profiles in patients with sepsis due to gram-positive and gram-negative bacteria and studied the cytokine production and differential gene regulation of  ...  These responses are not generally unexpected, given that T-cell activation occurs rapidly in response to S. aureus.  ... 
doi:10.1128/iai.71.10.5803-5813.2003 pmid:14500502 pmcid:PMC201043 fatcat:4mptrtbmibhjxlghde4xphzl2a

Symposia and Oral Presentations

2012 Clinical Microbiology and Infection  
Methods: The murl1 and murl2 mutants of A. baumannii ATCC 17978 were obtained by disruption of the target genes by single homologous recombination events with internal fragments of these genes cloned into  ...  In the presence of another source of carbon, the murl1 mutant still produced no visible biofilm, while murl2 showed similar levels to the  ...  Staphylococcus aureus (MRSA) and vancomycin-resistant Enterococci (VRE).  ... 
doi:10.1111/j.1469-0691.2012.03801.x fatcat:rwuon454ynfynchhmoma6id2gm

Abstracts accepted for publication only

2011 Clinical Microbiology and Infection  
Objectives: It has been hypothesized that disturbances in the intestinal flora could be a factor in the onset and persistence of IBS complaints.  ...  Material and Methods: Review of radiological findings of 110 patients with confirmed influenza A virus infection admitted to two Hospitals in Cantabria, Spain.  ...  Three types of actinomycosis were found in this study: thoracic (44%), abdominopelvic (31%), cervicofacial organs (25%). In  ... 
doi:10.1111/j.1469-0691.2011.03559.x fatcat:5jh6fneuevex3kqilvn2rtqfiu


2009 Antonie van Leeuwenhoek. International Journal of General and Molecular Microbiology  
Additionally, there were conflicting data about the treatment of specific patient groups and there were questions about the efficacy of the newer antibiotic for the treatment of Q-fever, etc.  ...  In the spring of 2007 a large Q fever outbreak occurred in northeast Brabant. The epicenter was the village of Herpen.  ...  This research was funded by the Kluyver Centre for Genomics of Industrial Fermentation, which is supported by The Netherlands Genomics Initiative (NGI).  ... 
doi:10.1007/s10482-009-9328-5 pmid:19343545 fatcat:vliejbeyvvhgnasah7ei7khzhe

From Theory to Practice: Translating Whole-Genome Sequencing (WGS) into the Clinic

Francois Balloux, Ola Brønstad Brynildsrud, Lucy van Dorp, Liam P. Shaw, Hongbin Chen, Kathryn A. Harris, Hui Wang, Vegard Eldholm
2018 Trends in Microbiology  
Common applications of WGS in diagnostic microbiology include isolate characterization, antimicrobial resistance (AMR) profiling, and establishing the sources of recurrent infections and between-patient  ...  Limiting infections and providing patients with optimal drug regimens require timely strain identification as well as virulence and drug-resistance profiling.  ...  For example, the presence of the SCCmec cassette is a reliable predictor for broad-spectrum beta-lactam resistance in Staphylococcus aureus, with strains carrying this element referred to as methicillin-resistant  ... 
doi:10.1016/j.tim.2018.08.004 pmid:30193960 pmcid:PMC6249990 fatcat:mknha4auqrhc7aylsxdmef4lgu
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