journal
MENU ▼
Read by QxMD icon Read
search

Journal of Clinical Microbiology

journal
https://www.readbyqxmd.com/read/28515220/culture-based-methods-and-molecular-tools-for-azole-resistant-aspergillus-fumigatus-detection-in-a-belgian-university-hospital
#1
I Montesinos, M A Argudín, M Hites, F Ahajjam, M Dodémont, C Dagyaran, M Bakkali, I Etienne, F Jacobs, C Knoop, S Patteet, K Lagrou
Azole-resistant Aspergillus fumigatus is an increasing worldwide problem with major clinical implications. Surveillance is warranted to guide clinicians to provide optimal treatment to patients. To investigate azole resistance in clinical Aspergillus isolates in our institution, a Belgian university hospital, we conducted a laboratory-based surveillance between June 2015 and October 2016. Two different approaches were used: a prospective culture-based surveillance using VIPcheck™ on unselected A. fumigatus (n=109 patients, including 19 patients with proven or probable IA), followed by molecular detection of mutations conferring azole resistance and a retrospective detection of azole-resistant A...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515219/a-novel-stool-pcr-test-for-helicobacter-pylori-may-predict-clarithromycin-resistance-and-patient-eradication-at-a-high-rate
#2
Erin Beckman, Ilaria Saracino, Giulia Fiorini, Courtney Clark, Vladimir Slepnev, Denise Patel, Clarissa Gomez, Reddy Ponaka, Vecheslav Elagin, Dino Vaira
Objectives: Clarithromycin-based regimens are commonly used as a first line therapy in H. pylori positive patients, however treatment failures are associated with resistance to clarithromycin. The aim of this study was to evaluate the feasibility of using stool samples to detect the presence of H. pylori DNA, while concurrently detecting mutations associated with the resistance to clarithromycin.Methods: Total DNA was extracted from 294 raw stools of H pylori positive and negative patients. TaqMan real-time PCR amplification was used to detect the presence of H...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515218/group-b-streptococcus-among-pregnant-women-and-newborns-in-mirzapur-bangladesh-colonization-vertical-transmission-and-serotype-distribution
#3
Samir K Saha, Zabed B Ahmed, Joyanta K Modak, Hakka Naziat, Shampa Saha, Mohammad A Uddin, Maksuda Islam, Abdullah H Baqui, Gary L Darmstadt, Stephanie J Schrag
Group B Streptococcus (GBS) infection is a leading cause of death in newborns in developed countries. Data on burden of GBS in Asian countries is lacking. This study aimed to understand i) rate of maternal recto-vaginal GBS carriage, ii) vertical transmission of GBS as determined by culturing ear, umbilicus and nasal swabs, and iii) distribution of GBS serotypes. This prospective observational study was conducted from September 2012 to November 2013 at Kumudini Hospital, a secondary level hospital, at Mirzapur, Bangladesh...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515217/an-analytical-and-clinical-evaluation-of-the-pathonostics-aspergenius%C3%A2-assay-for-the-detection-of-invasive-aspergillosis-and-resistance-to-azole-antifungal-drugs-direct-from-plasma-samples
#4
P Lewis White, Raquel B Posso, Rosemary A Barnes
With the proposal to include Aspergillus PCR in the revised EORTC/MSG definitions for fungal disease, commercially manufactured assays may be required to provide standardisation and accessibility. The PathoNostics AsperGenius® assay represents one such test that has the ability to detect a range of Aspergillus species and azole-resistance in A. fumigatus Performance has been validated when testing BAL and serum specimens, but recent evidence suggests that testing plasma may enhance sensitivity over serum. It was decided to evaluate the analytical and clinical performance of the PathoNostics AsperGenius® assay when testing plasma...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515216/assessment-of-the-cavidi-exavir%C3%A2-load-assay-for-monitoring-plasma-viral-load-in-hiv-2-infected-patients
#5
Pedro Borrego, Maria Fátima Gonçalves, Perpétua Gomes, Lavínia Araújo, Inês Moranguinho, Inês Brito Figueiredo, Isabel Barahona, José Rocha, Claudino Mendonça, Maria Cesarina Cruz, Jorge Barreto, Nuno Taveira
HIV plasma viral load is an established marker of disease progression and of response to antiretroviral therapy but currently there is no commercial assay validated for the quantification of viral load in HIV-2 infected individuals. The aim of this study was to make the first clinical evaluation of Cavidi ExaVir™ Load version 3 in HIV-2 infected patients. Samples were collected from a total of 102 individuals living in Cape Verde and HIV-2 viral load was quantified by both ExaVir™ Load and a reference in-house real-time quantitative PCR (qPCR) used in Portugal in 91 samples...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515215/an-outbreak-of-ndm-1-producing-klebsiella-pneumoniae-in-a-dutch-hospital-with-interspecies-transfer-of-the-resistance-plasmid-and-unexpected-occurrence-in-unrelated-healthcare-centers
#6
Thijs Bosch, Suzanne P M Lutgens, Mirjam H A Hermans, Peter C Wever, Peter M Schneeberger, Nicole H M Renders, Alexander C A P Leenders, Jan A J W Kluytmans, Annelot Schoffelen, Daan Notermans, Sandra Witteveen, Erik Bathoorn, Leo M Schouls
Introduction. In the Netherlands, the number of cases with New Delhi metallo-beta-lactamase (NDM)-positive Enterobacteriaceae is low. Here, we report an outbreak of NDM-1 producing Klebsiella pneumoniae in a Dutch hospital with interspecies transfer of the resistance plasmid and unexpected occurrence in other unrelated healthcare centers (HCCs).Methods. Next-generation sequencing was performed on 250 carbapenemase-producing Enterobacteriaceae isolates including 42 NDM-positive isolates obtained from 29 persons at the outbreak site...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515214/assessment-of-a-new-lower-cost-real-time-pcr-detection-assay-for-high-risk-hpv-useful-for-cervical-screening-in-limited-resource-settings
#7
Joel Fokom Domgue, Mark Schiffman, Nicolas H Wentzensen, Julia C Gage, Philip E Castle, Tina R Raine-Bennett, Barbara Fetterman, Thomas Lorey, Nancy E Poitras, Brian Befano, Yi Xie, Lais S Miachon, Michael Dean
Background Inexpensive and easy-to-perform HPV tests are needed for primary cervical cancer screening in lower-resource regions.Methods In a convenience sample of 516 residual exfoliative cervical specimens from the Kaiser Permanente Northern California and US National Cancer Institute Persistence and Progression study, we compared agreement and clinical performance of a simple, inexpensive real-time PCR assay for detection of 13 carcinogenic HPV types (H13, Hybribio, Hong Kong) that is marketed in limited resource settings, to previous testing by HC2 (Qiagen, Germantown, MD) and Onclarity (BD Diagnostics, Sparks, MD)...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28515213/rapid-identification-of-five-classes-of-carbapenem-resistance-genes-directly-from-rectal-swabs-using-the-xpert%C3%A2-carba-r-assay
#8
Nicholas M Moore, Rafael Cantón, Edoardo Carretto, Lance R Peterson, Robert L Sautter, Maria M Traczewski
Carbapenemase-producing organisms (CPO) have been identified by global health leaders as an urgent threat. Detection of patients with gastrointestinal carriage of CPO is necessary to interrupt their spread within healthcare facilities. In this multi-site study, we assessed the performance of the Xpert® Carba-R test, a rapid real-time PCR (qPCR) assay that detects five families of carbapenemase genes (blaIMP, blaKPC, blaNDM, blaOXA-48, and blaVIM) directly from rectal swab specimens. Using dual swabs, specimens from 755 patients were collected and tested prospectively...
May 17, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490493/problems-with-the-oxford-mlst-scheme-for-acinetobacter-baumannii-do-st92-and-st109-exist
#9
Mohammad Hamidian, Steven J Nigro, Ruth M Hall
Even in the genomic era, multi-locus sequence typing (MLST) remains a method of choice for bacterial typing, quickly revealing relationships within and between bacterial lineages.….
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490492/molecular-diagnosis-of-orthopaedic-device-infection-direct-from-sonication-fluid-by-metagenomic-sequencing
#10
Teresa L Street, Nicholas D Sanderson, Bridget L Atkins, Andrew J Brent, Kevin Cole, Dona Foster, Martin A McNally, Sarah Oakley, Leon Peto, Adrian Taylor, Tim E A Peto, Derrick W Crook, David W Eyre
Culture of multiple periprosthetic tissue samples is the current gold-standard for microbiological diagnosis of prosthetic joint infections (PJI). Additional diagnostic information may be obtained through sonication fluid culture of explants. However, current techniques can have relatively low sensitivity, with prior antimicrobial therapy and infection by fastidious organisms influencing results. We assessed if metagenomic sequencing of total DNA extracts obtained direct from sonication fluid can provide an alternative rapid and sensitive tool for diagnosis of PJI...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490491/comparison-of-the-vitek-ms-and-bruker-maldi-tof-ms-mass-spectrometry-systems-for-the-identification-of-rhodococcus-equi-and-dietzia-spp
#11
Carlos Ruiz de Alegría Puig, Lilian Pilares, Francesc Marco, Jordi Vila, Luis Martínez-Martínez, Jesús Navas
Rhodococcus equi causes pyogranulomatous pneumonia in domesticated animals and immunocompromised humans. Dietzia spp. are environmental bacteria that have been rarely associated with human infections. R. equi and Dietzia spp. are closely related actinomycetes. Phenotypic discrimination between R. equi and Dietzia on the basis of their Gram stain morphology and colony appearance is problematic. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) is a fast, reliable and cost-effective method for identification of a wide variety of microorganisms...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490490/analysis-of-morphologically-similar-staphylococcus-aureus-colonies-to-assess-phenotypic-and-genotypic-correlation
#12
Marissa Totten, Tracy Ross, Annie Voskertchian, Elizabeth Colantuoni, Aaron M Milstone, Karen C Carroll
In an effort to track and control transmission of Staphylococcus aureus (S. aureus), patient isolates are saved for epidemiological studies (1-3).….
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490489/single-negative-van-qpcr-on-enrichment-broth-can-replace-five-rectal-swab-cultures-for-the-screening-of-vancomycin-resistent-enterococci
#13
J M Fonville, C M C van Herk, P H A C Das, J H B van de Bovenkamp, L van Dommelen
The increased incidence of vancomycin resistant Enterococcus spp. (VRE) causes an accumulation of patients that are either VRE-colonized or flagged as potentially VRE-colonized. Since such patients require precautionary isolation upon admission to a hospital, rapid methods to establish VRE-colonization status would improve patient care and optimize hospital operation. We evaluated van qPCR on one enrichment broth as a VRE-screening approach.We obtained 255 sets of five rectal specimens from 243 patients. The specimens were cultured using an amoxicillin-containing enrichment broth...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490488/genetic-and-epidemiologic-trends-of-norovirus-outbreaks-in-the-us-demonstrated-emergence-of-novel-gii-4-recombinant-viruses-2013-2016
#14
Jennifer L Cannon, Leslie Barclay, Nikail R Collins, Mary E Wikswo, Christina J Castro, Laura Cristal Magaña, Nicole Gregoricus, Rachel L Marine, Preeti Chhabra, Jan Vinjé
Noroviruses are the most frequent cause of epidemic acute gastroenteritis in the United States (US). Between September 2013 and August 2016, 2,715 genotyped norovirus outbreaks were submitted to CaliciNet. GII.4 Sydney viruses caused 58% of outbreaks during these years. A GII.4 Sydney variant with a novel GII.P16 polymerase emerged in November 2015, causing 60% of all GII.4 outbreaks in the 2015-2016 season. Multiple polymerase types were found associated with GII.2 (3), GII.3 (3), GII.4 Sydney (3), GII.13 (2) and GII...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490487/bifidobacterium-bacteremia-clinical-characteristics-and-a-genomic-approach-to-assess-pathogenicity
#15
Eirin Esaiassen, Erik Hjerde, Jorunn Pauline Cavanagh, Gunnar Skov Simonsen, Claus Klingenberg
Bifidobacteria are commensals that colonize the orogastrointestinal tract, and rarely cause invasive human infections. However, an increasing number of bifidobacterial blood culture isolates has lately been observed in Norway. In order to investigate the pathogenicity of Bifidobacterium species responsible for bacteremia, we studied Bifidobacterium isolates from 15 patients with a positive blood culture obtained during 2013 to 2015. We collected clinical data and analyzed phenotypic and genotypic antibiotic susceptibility...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490486/meatal-swabs-contain-less-cellular-material-and-are-associated-with-a-decrease-in-gram-stain-smear-quality-compared-to-urethral-swabs-in-men
#16
Stephen J Jordan, Jane R Schwebke, Kristal J Aaron, Barbara Van Der Pol, Edward W Hook
Urethral swabs are the test of choice for point-of-care Gram stain testing to diagnose Neisseria gonorrhoeae (NG) and non-gonococcal urethritis (NGU) in men. As an alternative to urethral swabs, meatal swabs have been recommended for collection of urethral discharge to diagnose NG and Chlamydia trachomatis (CT) in certain populations by nucleic acid amplification testing (NAAT), as they are a less invasive collection method. However, as meatal swabs could be sampling a reduced surface area and result in fewer collected epithelial cells when compared to urethral swabs, the adequacy of meatal swab specimens to collect sufficient cellular material for Gram stain testing remains unknown...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28490485/molecular-characterization-of-mycoplasma-pneumoniae-infections-in-two-rural-populations-of-thailand-from-2009-2012
#17
Toni Whistler, Pongpun Sawatwong, Maureen H Diaz, Alvaro J Benitez, Bernard J Wolff, Patranuch Sapchookul, Somsak Thamthitiwat, Jonas M Winchell
Studies on Mycoplasma pneumoniae in Thailand have focused on urban centers and have not included the molecular characterization. In an attempt to provide a more comprehensive understanding of this organism, we conducted a systematic random sampling to identify 3000 nasopharyngeal swab specimens, collected from January 2009 through July 2012 during population-based surveillance for influenza-like illness in two rural provinces. M. pneumoniae was detected by real-time PCR in 175 (5.8%) specimens. Genotyping was performed using the major adhesion protein (P1) and multilocus variable-number tandem-repeat analysis (MLVA)...
May 10, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28468861/detection-of-emerging-vaccine-related-polioviruses-by-deep-sequencing
#18
Malaya K Sahoo, Marisa Holubar, ChunHong Huang, Alisha Mohamed-Hadley, Yuanyuan Liu, Jesse J Waggoner, Stephanie B Troy, Lourdes Garcia-Garcia, Leticia Ferreyra-Reyes, Yvonne Maldonado, Benjamin A Pinsky
Oral poliovirus vaccine (OPV) can mutate to regain neurovirulence. To date, evaluation of these mutations has primarily been performed on culture-enriched isolates using conventional Sanger sequencing. We therefore developed a culture-independent, deep sequencing method targeting the 5' untranslated region (UTR) and P1 genomic region to characterize vaccine-related poliovirus variants. Error analysis of the deep sequencing method demonstrated reliable detection of poliovirus mutations at levels <1%, depending on read depth...
May 3, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28468860/evaluation-of-the-sensitivity-and-specificity-performance-of-the-elecsys%C3%A2-htlv-i-ii-assay-in-a-multicenter-study-in-europe-and-japan
#19
Syria Laperche, Silvia Sauleda, Maria Piron, Annelies Mühlbacher, Harald Schennach, Volkmar Schottstedt, Lucinda Queirós, Naoki Uno, Katsunori Yanagihara, Roland Imdahl, Ariann Hey, Markus Klinkicht, Walter Melchior, Peter Muench, Toshiki Watanabe
Screening of blood for human T-cell lymphotropic virus type I and type II (HTLV-I/II) is important to diagnose and prevent infection and ensure the safety of blood supplies. The Elecsys® HTLV-I/II assay is a newly developed, electrochemiluminescence screening assay for the detection of HTLV-I/II infection. The sensitivity and specificity of the Elecsys® HTLV-I/II assay were determined using well-characterized HTLV-I/II-positive serum and plasma samples, and routine diagnostic and blood donor samples expected to be HTLV-negative, respectively...
May 3, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28468859/isolation-of-campylobacter-species-from-stool-samples-using-a-filtration-method-assessment-from-a-u-s-based-population
#20
Irving Nachamkin, Phi Nguyen
Fecal samples submitted to our clinical microbiology laboratory from patients in the Philadelphia region were prospectively analyzed for Campylobacter species other than C. jejuni and C. coli using a filtration method and microaerobic conditions with increased H2 concentrations. Of 225 samples tested, 13 (5.8%) yielded Campylobacter species with frequent isolation of C. concisus. The majority of Campylobacter species were not clinically significant. Additional studies in U.S. populations are warranted.
May 3, 2017: Journal of Clinical Microbiology
journal
journal
26018
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"