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https://www.readbyqxmd.com/read/28638468/current-and-emerging-techniques-for-antibiotic-susceptibility-tests
#1
REVIEW
Karan Syal, Manni Mo, Hui Yu, Rafael Iriya, Wenwen Jing, Sui Guodong, Shaopeng Wang, Thomas E Grys, Shelley E Haydel, Nongjian Tao
Infectious diseases caused by bacterial pathogens are a worldwide burden. Serious bacterial infection-related complications, such as sepsis, affect over a million people every year with mortality rates ranging from 30% to 50%. Crucial clinical microbiology laboratory responsibilities associated with patient management and treatment include isolating and identifying the causative bacterium and performing antibiotic susceptibility tests (ASTs), which are labor-intensive, complex, imprecise, and slow (taking days, depending on the growth rate of the pathogen)...
2017: Theranostics
https://www.readbyqxmd.com/read/28625155/applications-of-optical-dna-mapping-in-microbiology
#2
Diana Bogas, Lena Nyberg, Rui Pacheco, Nuno F Azevedo, Jason P Beech, Margarita Gomila, Jorge Lalucat, Célia M Manaia, Olga C Nunes, Jonas O Tegenfeldt, Fredrik Westerlund
Optical mapping (OM) has been used in microbiology for the past 20 years, initially as a technique to facilitate DNA sequence-based studies; however, with decreases in DNA sequencing costs and increases in sequence output from automated sequencing platforms, OM has grown into an important auxiliary tool for genome assembly and comparison. Currently, there are a number of new and exciting applications for OM in the field of microbiology, including investigation of disease outbreaks, identification of specific genes of clinical and/or epidemiological relevance, and the possibility of single-cell analysis when combined with cell-sorting approaches...
June 1, 2017: BioTechniques
https://www.readbyqxmd.com/read/28566082/-femoral-hemodialysis-catheter-related-bacteremia-due-to-globicatella-sanguinis-challenges-in-species-identification
#3
Elif Aktaş, Nafia Canan Gürsoy, Tamer Sakacı, Yener Koç, Aziz Ahmad Hamidi, Emin Bulut, Duygu Erdemir, Barış Otlu
In this case, catheter-related bacteremia due to Globicatella sanguinis in a 43 years old female patient undergoing hemodialysis with the diagnosis of diabetic nephropathy was presented and the methods in the laboratory diagnosis of the rare opportunistic pathogen, Globicatella cins, were nvestigated. A set of peripheral blood cultures and simultaneous catheter culture was obtained from the patient in third of May 2016. Biochemical tests, Phoenix (Becton Dickinson, USA) and MicroScan (Beckman Coulter, USA) automated systems and matrix assisted laser desorption/ionization-time of flight-mass spectrometry (MALDI-TOF MS) based Microflex MS (Bruker, Daltonics, Germany) and VITEK MS (database v2...
April 2017: Mikrobiyoloji Bülteni
https://www.readbyqxmd.com/read/28566080/-molecular-epidemiology-of-human-mycobacterium-bovis-infection-in-aegean-region-turkey
#4
Cengiz Çavuşoğlu, Fethiye Ferda Yılmaz
Mycobacterium bovis, which has a broader host spectrum as opposed to Mycobacterium tuberculosis that generally causes disease in humans, mainly leads to chronic progressive pulmonary disease in a large number of domestic and wild mammals, particularly cattle. The term "zoonotic tuberculosis (TB)" is used to describe M.bovis infection in humans. "Zoonotic TB" can not be differentiated clinically, radiologically or pathologically from TB caused by M.tuberculosis. The aim of this study was to evaluate the role of M...
April 2017: Mikrobiyoloji Bülteni
https://www.readbyqxmd.com/read/28559740/the-anti-staphylococcus-aureus-effect-of-combined-echinophora-platyloba-essential-oil-and-liquid-smoke-in-beef
#5
Zahra Pilevar, Hedayat Hosseini, Homa Hajimehdipoor, Farzaneh Shahraz, Leyla Alizadeh, Amin Mousavi Khaneghah, Maryam Mahmoudzadeh
In the current study, the antibacterial effect of Echinophora platyloba essential oil and common liquid smoke (individually and in combination) against Staphylococcus aureus in beef meat samples is investigated. Using an automated microbiological growth analyser and the turbidimetric technique, the minimum inhibitory concentrations (MIC) and the minimum bactericidal concentrations (MBC) of the essential oil and liquid smoke were determined. Anti-S. aureus activity of essential oil and liquid smoke (individually and in combination) was defined by disk diffusion assay, generation time and cell constituent release...
March 2017: Food Technology and Biotechnology
https://www.readbyqxmd.com/read/28559002/assessment-of-the-automated-multiplex-pcr-unyvero-i60-iti-%C3%A2-cartridge-system-to-diagnose-prosthetic-joint-infection-a-multicenter-study
#6
D Malandain, P Bémer, A G Leroy, J Léger, C Plouzeau, A S Valentin, A Jolivet-Gougeon, D Tandé, G Héry-Arnaud, C Lemarié, M Kempf, L Bret, C Burucoa, S Corvec
OBJECTIVES: Prosthetic joint infections (PJI) are responsible for significant morbidity and mortality and their number continues to rise. Their management remains complex, especially the microbiological diagnosis. Besides "homemade" tests developed by several teams, new molecular biology methods are now available with different analytical performance and usability. METHODS: We studied the performances of one of these tests: ITI(®) multiplex PCR (mPCR) by the Curetis(®) company and compared it either to "optimized" culture or to 16S rRNA PCR...
May 27, 2017: Clinical Microbiology and Infection
https://www.readbyqxmd.com/read/28460559/discrimination-of-streptococcus-equi-subsp-equi-and-streptococcus-equi-subsp-zooepidemicus-using-matrix-assisted-laser-desorption-ionization-time-of-flight-mass-spectrometry
#7
Rinosh J Mani, Anil J Thachil, Akhilesh Ramachandran
Accurate and timely identification of infectious etiologies is of great significance in veterinary microbiology, especially for critical diseases such as strangles, a highly contagious disease of horses caused by Streptococcus equi subsp. equi. We evaluated a matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) platform for use in species- and subspecies-level identification of S. equi isolates from horses and compared it with an automated biochemical system. We used 25 clinical isolates each of S...
April 1, 2017: Journal of Veterinary Diagnostic Investigation
https://www.readbyqxmd.com/read/28455579/-new-microbiological-techniques
#8
REVIEW
S Schubert, A Wieser, G Bonkat
Microbiological diagnostic procedures have changed rapidly in recent years. This is especially true in the field of molecular diagnostics. Classical culture-based techniques are still the gold standard in many areas; however, they are already complemented by automated and also molecular techniques to guarantee faster and better quality results. The most commonly used techniques include real-time polymerase chain reaction (RT-PCR) based systems and nucleic acid hybridization. These procedures are used most powerfully from direct patient samples or in assays to detect the presence of nonculturable or fastidious organisms...
April 28, 2017: Der Urologe. Ausg. A
https://www.readbyqxmd.com/read/28412378/project-management-importance-for-diagnostic-laboratories
#9
REVIEW
Antony Croxatto, Gilbert Greub
BACKGROUND: The constraints applied on diagnostic laboratories to improve both quality and productivity together with personal shortages incite laboratory managers to constantly optimize the laboratory workflows, organization and technology. These continuous modifications of the laboratories should be conducted using efficient project and change management approaches in order to maximize the opportunities to achieve the project successfully. AIM: This review aims at presenting a general overview of project management with an emphasis on selected critical aspects...
April 12, 2017: Clinical Microbiology and Infection
https://www.readbyqxmd.com/read/28409124/hospital-dissemination-of-tst-1-positive-clonal-complex-5-cc5-methicillin-resistant-staphylococcus-aureus
#10
Min Wang, Yi Zheng, Jose R Mediavilla, Liang Chen, Barry N Kreiswirth, Yajun Song, Ruifu Yang, Hong Du
Methicillin-resistant Staphylococcus aureus (MRSA), is one of the most prevalent clinical pathogens isolated from hospital settings, and has increasingly identified in community settings. In China, the SCCmecIII-ST239 strains are disseminated in different geographic regions, accounting for >75% of all MRSA isolates in some national studies. Here we characterized 150 non-duplicate MRSA isolates collected from February 2012 to May 2013 in a tertiary hospital in Suzhou, Eastern China, to explore the molecular epidemiology...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/28402209/culturomics-a-new-kid-on-the-block-of-omics-to-enable-personalized-medicine
#11
Manousos E Kambouris, Cristiana Pavlidis, Efthymios Skoufas, Michael Arabatzis, Maria Kantzanou, Aristea Velegraki, George P Patrinos
This innovation analysis highlights the underestimated and versatile potential of the new field of culturomics and examines its relation to other OMICS system sciences such as infectiomics, metabolomics, phenomics, and pharmacomicrobiomics. The advent of molecular biology, followed by the emergence of various disciplines of the genomics, and most importantly metagenomics, brought about the sharp decline of conventional microbiology methods. Emergence of culturomics has a natural synergy with therapeutic and clinical genomic approaches so as to realize personalized medicine...
April 12, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28397472/comparison-of-novel-blood-culture-system-dl-bt112tm-with-bact-alert-3dtm-by-using-clinical-samples
#12
Mustafa Altindis, Tayfur Demiray, Mehmet Koroglu, Umit Kilic, Aybala Neslihan Alagoz, Aziz Ogutlu, Oguz Karabay
BACKGROUND: Blood cultures are the main diagnostic laboratory tool to detect bloodstream infections. Many clinical microbiology laboratories utilize automated blood culture systems to isolate infectious agents from blood samples. The diagnostic performance and time-to-detection values of the novel automated blood culture system, DLBt112TM (DL), was compared with BacT/Alert 3DTM (B3D) in this prospective comparative study with clinical samples. METHODS: A total of 356 blood culture sets (178 sets for each system) were evaluated over a 6-month period in a university hospital...
April 1, 2017: Clinical Laboratory
https://www.readbyqxmd.com/read/28391814/antibiogramj-a-tool-for-analysing-images-from-disk-diffusion-tests
#13
C A Alonso, C Domínguez, J Heras, E Mata, V Pascual, C Torres, M Zarazaga
BACKGROUND AND OBJECTIVES: Disk diffusion testing, known as antibiogram, is widely applied in microbiology to determine the antimicrobial susceptibility of microorganisms. The measurement of the diameter of the zone of growth inhibition of microorganisms around the antimicrobial disks in the antibiogram is frequently performed manually by specialists using a ruler. This is a time-consuming and error-prone task that might be simplified using automated or semi-automated inhibition zone readers...
May 2017: Computer Methods and Programs in Biomedicine
https://www.readbyqxmd.com/read/28376782/image-analysis-driven-single-cell-analytics-for-systems-microbiology
#14
Athanasios D Balomenos, Panagiotis Tsakanikas, Zafiro Aspridou, Anastasia P Tampakaki, Konstantinos P Koutsoumanis, Elias S Manolakos
BACKGROUND: Time-lapse microscopy is an essential tool for capturing and correlating bacterial morphology and gene expression dynamics at single-cell resolution. However state-of-the-art computational methods are limited in terms of the complexity of cell movies that they can analyze and lack of automation. The proposed Bacterial image analysis driven Single Cell Analytics (BaSCA) computational pipeline addresses these limitations thus enabling high throughput systems microbiology. RESULTS: BaSCA can segment and track multiple bacterial colonies and single-cells, as they grow and divide over time (cell segmentation and lineage tree construction) to give rise to dense communities with thousands of interacting cells in the field of view...
April 4, 2017: BMC Systems Biology
https://www.readbyqxmd.com/read/28366154/-evaluation-of-mycobacterial-microscopy-and-culture-results-of-sureyyapasa-chest-diseases-and-chest-surgery-training-and-research-hospital-a-3-year-analysis
#15
Elçin Akduman Alaşehir, Ahmet Balıkçı, Mualla Partal, Gülay Çatmabacak, Görkem Yaman
Introduction: Effective diagnosis of tuberculosis is of great importance for transmission control and treatment success. The purpose of this study is to evaluate microscopic examination results of Ehrlich-Ziehl Neelsen (EZN) and Auramine-Rhodamine staining methods and automated BACTEC MGIT 960™ system and Löwenstein-Jensen (L-J) culture results of various clinical samples in the light of recent data from the world and Turkey. Materials and Methods: Specimens that were sent from various clinics to Sureyyapasa Chest Diseases and Chest Surgery Training and Research Hospital Microbiology Laboratory from January 2012 to December 2015 were evaluated retrospectively...
September 2016: Tüberküloz Ve Toraks
https://www.readbyqxmd.com/read/28348806/aerococcus-urinae-a-cause-of-cystitis-with-malodorous-urine-in-a-child-clinical-and-microbiological-challenges
#16
Tilemachos Skalidis, Josef Papaparaskevas, Dimitrios Konstantinou, Eleni Kapolou, Mathhew E Falagas, Nicholas Legakis
Introduction. An infection of the lower urinary tract associated with an extremely unpleasant odour due to Aerococcus urinae in an otherwise healthy 5-year-old boy is described herein. Case presentation. Interestingly, imaging examination revealed the presence of a bladder diverticulum. Routine microbiological examination based on Gram staining, colony morphology and catalase reactivity suggested that the responsible pathogen could belong either to staphylococci, α-haemolytic streptococci or enterococci, which are more common urine isolates...
February 2017: JMM Case Reports
https://www.readbyqxmd.com/read/28344947/factors-associated-with-odontogenic-bacteraemia-in-orthodontic-patients
#17
O D Umeh, O O Sanu, I L Utomi, F O Nwaokorie
BACKGROUND: Various researches have investigated factors associated with the prevalence and intensity of bacteraemia following oral procedures including orthodontic procedures. AIM: The aim of this study was to determine the effect of age, gender, plaque and gingival indices on the occurrence of odontogenic bacteraemia following orthodontic treatment procedures. SETTING: Orthodontic Clinic, Lagos University Teaching Hospital (LUTH), Lagos, Nigeria...
April 2016: Journal of the West African College of Surgeons
https://www.readbyqxmd.com/read/28322712/implementation-and-initial-analysis-of-a-laboratory-based-weekly-biosurveillance-system-provence-alpes-c%C3%A3-te-d-azur-france
#18
Michael Huart, Gabriel Bedubourg, Cédric Abat, Philippe Colson, Jean Marc Rolain, Hervé Chaudet, Pierre Edouard Fournier, Didier Raoult, Xavier Deparis
We describe the implementation of an automated infectious disease surveillance system that uses data collected from 210 microbiologic laboratories throughout the Provence-Alpes-Côte d'Azur region in France. Each week, these facilities report bacterial species that have been isolated from patients in their area. An alarm is triggered whenever the case count for a bacterial species infection exceeds 2 SDs of the historical mean for that species at the participating laboratory. At its inception in July 2013, the system monitored 611 bacterial species...
April 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28274300/national-automated-surveillance-of-hospital-acquired-bacteremia-in-denmark-using-a-computer-algorithm
#19
Sophie Gubbels, Jens Nielsen, Marianne Voldstedlund, Brian Kristensen, Henrik C Schønheyder, Svend Ellermann-Eriksen, Jørgen H Engberg, Jens K Møller, Christian Østergaard, Kåre Mølbak
BACKGROUND In 2015, Denmark launched an automated surveillance system for hospital-acquired infections, the Hospital-Acquired Infections Database (HAIBA). OBJECTIVE To describe the algorithm used in HAIBA, to determine its concordance with point prevalence surveys (PPSs), and to present trends for hospital-acquired bacteremia SETTING Private and public hospitals in Denmark METHODS A hospital-acquired bacteremia case was defined as at least 1 positive blood culture with at least 1 pathogen (bacterium or fungus) taken between 48 hours after admission and 48 hours after discharge, using the Danish Microbiology Database and the Danish National Patient Registry...
March 9, 2017: Infection Control and Hospital Epidemiology
https://www.readbyqxmd.com/read/28274291/an-audit-of-cryptosporidium-and-giardia-detection-in-scottish-national-health-service-diagnostic-microbiology-laboratories
#20
C L Alexander, S Currie, K Pollock, A Smith-Palmer, B L Jones
Giardia duodenalis and Cryptosporidium species are protozoan parasites capable of causing gastrointestinal disease in humans and animals through the ingestion of infective faeces. Whereas Cryptosporidium species can be acquired locally or through foreign travel, there is the mis-conception that giardiasis is considered to be largely travel-associated, which results in differences in laboratory testing algorithms. In order to determine the level of variation in testing criteria and detection methods between diagnostic laboratories for both pathogens across Scotland, an audit was performed...
June 2017: Epidemiology and Infection
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