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https://www.readbyqxmd.com/read/29776709/rapid-real-time-pcr-for-the-detection-of-imp-ndm-vim-kpc-and-oxa-48-carbapenemase-genes-in-isolates-and-spiked-stool-samples
#1
Marianne Lund, Marianne Bøgild Petersen, Anders Lægaard Jørgensen, Dorte Paulmann, Mikala Wang
An in-house real-time PCR was developed to detect the carbapenemase genes IMP, NDM, VIM, KPC and OXA-48 from both bacterial colonies and directly from fecal material. The assay is a multiplex PCR performed in two tubes with NDM, VIM and IMP genes detected in one tube and OXA-48 and KPC genes in the other. Despite the large amount of primers and probes necessary to cover all variants of especially the VIM and IMP genes, the efficiency of the PCR reactions was from 95 to 100%. When tested on 170 clinical strains and compared to culture results from a reference laboratory, 100% correspondence was found...
April 13, 2018: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/29696375/genomic-characterization-of-nitrospirillum-amazonense-strain-cbamc-a-nitrogen-fixing-bacterium-isolated-from-surface-sterilized-sugarcane-stems
#2
Stefan Schwab, Leonardo Araujo Terra, José Ivo Baldani
Nitrospirillum amazonense is a nitrogen-fixing bacterium that shows potential to promote plant growth when inoculated into sugarcane and rice plants. This microorganism has been the subject of biochemical and genetic characterization to elucidate important functions related to host plant interaction and growth promotion, including the determination of draft genome sequences of two strains, Y2 and CBAmC, the second of which is the aim of the present study. CBAmC has been isolated from sugarcane (Saccharum spp...
April 25, 2018: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/29679603/chromogenic-culture-media-or-rapid-immunochromatographic-test-which-is-better-for-detecting-klebsiella-pneumoniae-that-produce-oxa-48-and-can-they-be-used-in-blood-and-urine-specimens
#3
Ozlem Genc, Evrim Aksu
Our goal was to compare a rapid test (OXA-48K-SeT) and four different chromogenic media (CHROMagar KPC, CHROMagar mSuperCARBA, ChromID Carba and ChromID OXA-48) for the detection of OXA-48 producing Klebsiella pneumoniae isolates and spiked urine/blood samples with these bacteria. In total 100 K.pneumoniae isolates, including 60 OXA-48 positive, 15 other carbapenemase producing, 15 Extended spectrum betalactamases (ESBL) positive and 10 carbapenem sensitive K.pneumoniae were included in the study. After all samples were inoculated into all chromogenic media, temocillin discs were placed onto the media...
April 18, 2018: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/29608935/comparative-analysis-of-rhizobial-chromosomes-and-plasmids-to-estimate-their-evolutionary-relationships
#4
Xinye Wang, Dongying Liu, Yantao Luo, Liang Zhao, Zhenshan Liu, Minxia Chou, Entao Wang, Gehong Wei
In the present study, complete genomic sequences retrieved from 57 rhizobial strains that covered four genera including 11 species were analyzed comprehensively. The four types of replicons: chromosomes, chromids, nonsymbiotic plasmids, and symbiotic plasmids were investigated and compared among these strains. Results showed that co-evolution occurred among these four replicons based on the similarities in average nucleotide identity. High correlation coefficient r values were observed between chromosomes and chromids, as well as between chromosomes and nonsymbiotic plasmids...
March 30, 2018: Plasmid
https://www.readbyqxmd.com/read/29563186/inter-replicon-gene-flow-contributes-to-transcriptional-integration-in-the-sinorhizobium-meliloti-multipartite-genome
#5
George C diCenzo, Deelaka Wellappili, G Brian Golding, Turlough M Finan
Integration of newly acquired genes into existing regulatory networks is necessary for successful horizontal gene transfer (HGT). Ten percent of bacterial species contain at least two DNA replicons over 300 kilobases in size, with the secondary replicons derived predominately through HGT. The Sinorhizobium meliloti genome is split between a 3.7 Mb chromosome, a 1.7 Mb chromid consisting largely of genes acquired through ancient HGT, and a 1.4 Mb megaplasmid consisting primarily of recently acquired genes. Here, RNA-sequencing is used to examine the transcriptional consequences of massive, synthetic genome reduction produced through the removal of the megaplasmid and/or the chromid...
March 21, 2018: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/29421362/increased-exposure-to-extended-spectrum-%C3%AE-lactamase-producing-multidrug-resistant-enterobacteriaceae-through-the-consumption-of-chicken-and-sushi-products
#6
Ana Isabel Vitas, Dixita Naik, Lara Pérez-Etayo, David González
The aim of this study was to determine the occurrence and patterns of resistance of extended-spectrum β-lactamase (ESBL) producing Enterobacteriaceae in food products purchased in Navarra, northern Spain. A total of 174 samples of fish and chicken were analyzed from September 2015 to September 2016, including raw and ready-to-eat products: trout (n = 25), salmon (n = 28), panga (n = 13), chicken nuggets and chicken scalopes (n = 32), sushi (n = 31) and sliced cooked poultry (n = 45)...
March 23, 2018: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/29405149/fecal-carriage-of-carbapenem-resistant-enterobacteriaceae-and-risk-factor-analysis-in-hospitalised-patients-a-single-centre-study-from-india
#7
Balvinder Mohan, Amber Prasad, Harsimran Kaur, Vinaykumar Hallur, Neha Gautam, Neelam Taneja
PURPOSE: Carbapenem-resistant Enterobacteriaceae (CRE) have emerged and disseminated widely causing a variety of infections. In India, the carriage of CRE in hospitalised patients has not been well-studied. Therefore, we conducted the present study to observe gut carriage rate of CRE in patients admitted to our tertiary care hospital. METHODS: A total of 232 faecal swabs collected from consecutive stool samples from admitted patients were inoculated on ChromID extended spectrum β-lactamase plates and members of Enterobacteriaceae family were subjected to antibiotic susceptibility as per the Clinical Laboratory Standards Institute guidelines...
October 2017: Indian Journal of Medical Microbiology
https://www.readbyqxmd.com/read/29325123/packaging-of-dinoroseobacter-shibae-dna-into-gene-transfer-agent-particles-is-not-random
#8
Jürgen Tomasch, Hui Wang, April T K Hall, Diana Patzelt, Matthias Preusse, Jörn Petersen, Henner Brinkmann, Boyke Bunk, Sabin Bhuju, Michael Jarek, Robert Geffers, Andrew S Lang, Irene Wagner-Döbler
Gene transfer agents (GTAs) are phage-like particles which contain a fragment of genomic DNA of the bacterial or archaeal producer and deliver this to a recipient cell. GTA gene clusters are present in the genomes of almost all marine Rhodobacteraceae (Roseobacters) and might be important contributors to horizontal gene transfer in the world's oceans. For all organisms studied so far, no obvious evidence of sequence specificity or other nonrandom process responsible for packaging genomic DNA into GTAs has been found...
January 1, 2018: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29225728/the-complete-genome-sequence-of-the-rumen-bacterium-butyrivibrio-hungatei-mb2003
#9
Nikola Palevich, William J Kelly, Sinead C Leahy, Eric Altermann, Jasna Rakonjac, Graeme T Attwood
Butyrivibrio hungatei MB2003 was isolated from the plant-adherent fraction of rumen contents from a pasture-grazed New Zealand dairy cow, and was selected for genome sequencing in order to examine its ability to degrade plant polysaccharides. The genome of MB2003 is 3.39 Mb and consists of four replicons; a chromosome, a secondary chromosome or chromid, a megaplasmid and a small plasmid. The genome has an average G + C content of 39.7%, and encodes 2983 putative protein-coding genes. MB2003 is able to use a variety of monosaccharide substrates for growth, with acetate, butyrate and formate as the principal fermentation end-products, and the genes encoding these metabolic pathways have been identified...
2017: Standards in Genomic Sciences
https://www.readbyqxmd.com/read/29213999/genetic-and-phenotypic-study-of-methicillin-resistant-staphylococcus-aureus-among-patients-and-health-care-workers-in-mansoura-university-hospital-egypt
#10
Walaa Othman Elshabrawy, Maysaa Elsayed Zaki, Mohamed Farag Kamel
Background and Objectives: Staphylococcus aureus is common pathogen that is associated with many hospital acquired infections. The virulence of S. aureus is identified with resistance to antibiotics especially to methicillin. Therefore the aims of the present study were to detect the carrier rates of methicillin-resistant S. aureus (MRSA) among health care Workers (HCWs) and patients and to compare use of specific chromogenic agar for MRSA culture with PCR for detection of MRSA genes...
April 2017: Iranian Journal of Microbiology
https://www.readbyqxmd.com/read/29174735/comparative-study-of-3-carbapenem-hydrolysis-methods-for-the-confirmation-of-carbapenemase-production-in-enterobacteriaceae
#11
COMPARATIVE STUDY
Ohad Shalom, Amos Adler
The goals of the study were to examine the analytic and performance parameters of 2 commercial rapid carbapenem-hydrolysis assays, the β-CARBA test (Bio-Rad) and the Rapid CARB Blue Kit (ROSCO) in comparison with an in-house CARBA NP assay for the detection of Carbapenemase-Producing Enterobacteriaceae (CPE). Their performance was evaluated following growth on 2 chromogenic CPE screening media. The sensitivity was highest (91%) in the β-CARBA test when used from the mSuperCARBA™ plates and was lowest when the same test was used from the chromID™ CARBA plates (75%)...
February 2018: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/29030872/survival-and-detection-of-bacillus-cereus-in-the-presence-of-escherichia-coli-salmonella-enteriditis-staphylococcus-aureus-pseudomonas-aeruginosa-and-candida-albicans-after-rechallenge-in-makeup-removers
#12
Nadine Yossa, Gabriela Arce, James Smiley, Mei-Chiung Jo Huang, Lanlan Yin, Rebecca Bell, Sandra Tallent, Eric Brown, Thomas Hammack
OBJECTIVE: Pathogenic contamination of cosmetics intended to be applied on or around the eye area, including make-up removers, may lead to severe eye infections. To assess the efficacy of antimicrobial preservatives in these products we investigated the survival and detection of Bacillus cereus F 4227A spiked into make-up removers, alone and in the presence of other relevant microorganisms. METHODS: Four brands of make-up removers, A, B, C and D, were challenged three times (day 0, day 7, and day 14) using B...
October 14, 2017: International Journal of Cosmetic Science
https://www.readbyqxmd.com/read/28904483/fecal-carriage-of-extended-spectrum-beta-lactamase-producing-enterobacteriaceae-in-intensive-care-unit-patients
#13
Shalini Shenoy Mulki, Kavya Ramamurthy, Sevitha Bhat
BACKGROUND AND AIMS: Increasing and indiscriminate use of antibiotics has led the bacteria to develop resistance to most of the antibiotics. Beta-lactamase production is the mechanism of resistance to beta-lactams. Extended-spectrum beta-lactamases (ESBLs) have been found in the members of Enterobacteriaceae such as Escherichia coli and Klebsiella spp. which are the common health-care-associated pathogens. The aim was to study the rate of fecal carriage of ESBL-producing Enterobacteriaceae in patients admitted to the Intensive Care Unit (ICU) of tertiary care hospital and follow them subsequently for the development of infections...
August 2017: Indian Journal of Critical Care Medicine
https://www.readbyqxmd.com/read/28877761/phenotypic-prevalence-of-extended-spectrum-beta-lactamases-among-enterobacteriaceae-isolated-at-mulago-national-referral-hospital-uganda
#14
Lucas Ampaire, Emmanuel Nduhura, Izale Wewedru
OBJECTIVE: Enterobacteriaceae, common causes of health care associated and community acquired infections are mainly treated with beta-lactam agents. Our study objective was to determine the prevalence and common enterobacteriaceae pathogen producing extended spectrum beta lactamases (ESBLs). The isolates were recovered from various clinical specimens. This was cross sectional study conducted between July 2016 and September 2016 at Mulago National Referral Hospital, Uganda. We used ChromID™ ESBL agar (Biomerieux SA, Lyon, France) and Vitek2 compact system GN83 card (BioMerieux Inc, Hazelwood, Missouri, USA) to detect and confirm presence of phenotypic extended spectrum beta lactamases producing pathogens respectively...
September 6, 2017: BMC Research Notes
https://www.readbyqxmd.com/read/28779876/detection-of-streptococcus-agalactiae-by-immunochromatography-with-group-b-streptococcus-specific-surface-immunogenic-protein-in-pregnant-women
#15
Yoko Takayama, Hidehito Matsui, Yuzuru Adachi, Shin Nihonyanagi, Tatsuhiko Wada, Junko Mochizuki, Nobuya Unno, Hideaki Hanaki
BACKGROUND: Infection with Streptococcus agalactiae (Group B streptococcus: GBS) is a significant cause of morbidity and mortality in neonates. Screening for GBS is mainly done by culture-based methods, but a reliable result may take several days to obtain and culture is difficult to perform at institutions without a laboratory. We evaluated an immunochromatography method for rapid detection of GBS-specific surface immunogenic protein (Sip) using anti-Sip monoclonal antibodies. MATERIALS AND METHODS: A total of 377 cervical and vaginal swabs collected during weeks 35-37 of gestation were inoculated into GBS medium F and incubated...
October 2017: Journal of Infection and Chemotherapy: Official Journal of the Japan Society of Chemotherapy
https://www.readbyqxmd.com/read/28674064/oxa-244-producing-escherichia-coli-isolates-a-challenge-for-clinical-microbiology-laboratories
#16
Yannick Hoyos-Mallecot, Thierry Naas, Rémy A Bonnin, Rafael Patino, Philippe Glaser, Nicolas Fortineau, Laurent Dortet
OXA-244 is a single-point-mutant derivative of OXA-48 displaying reduced carbapenemase activity. Here, we report the microbiological features of seven OXA-244-producing Escherichia coli isolates. Only one isolate grew on ChromID Carba Smart medium (bioMérieux), but six of the seven isolates grew on ChromID extended-spectrum-β-lactamase (ESBL) medium (bioMérieux), as they coproduced an ESBL and/or a plasmid-encoded cephalosporinase. The production of a carbapenemase was detected in 57.1%, 71.4%, 71.4%, and 100% of the E...
September 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28669674/verification-of-the-cepheid-xpert-carba-r-assay-for-the-detection-of-carbapenemase-genes-in-bacterial-isolates-cultured-on-alternative-solid-culture-media
#17
H Tanner
The Xpert Carba-R (Cepheid) is a polymerase chain reaction (PCR) assay for detection and differentiation of five common carbapenemase genes. If used according to manufacturer's instructions, bacterial isolates tested must be cultured on blood or MacConkey agar. This study confirms that the assay performs well against a diverse panel of bacterial isolates with known carbapenemase genes. It also demonstrates that the assay performs well using three solid agar culture media that have not been recommended by the PCR assay's manufacturer: CLED (cystine-, lactose-, and electrolyte-deficient), ChromID CARBA-SMART, and a nutrient slope...
November 2017: Journal of Hospital Infection
https://www.readbyqxmd.com/read/28645649/evaluation-of-a-selective-chromogenic-medium-for-detecting-vancomycin-resistant-enterococci
#18
Renata Oliveira Soares, Adriana Medianeira Rossato, Gustavo Enck Sambrano, Neidimar Cezar Corrêa Tolfo, Juliana Caierão, Thiago Galvão da Silva Paim, Pedro Alves d'Azevedo
Rapid identification of vancomycin-resistant enterococci (VRE) can assist in choosing the appropriate treatment and preventing VRE spread. The performance of chromID™ VRE agar was evaluated using 184 clinical isolates of Enterococcus spp. and reference strains. The test had a sensitivity of 95.52% but a low specificity of 30%.
October 2017: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/28633496/clinical-sensitivity-and-specificity-of-the-check-points-check-direct-esbl-screen-for-bd-max-a-real-time-pcr-for-direct-esbl-detection-from-rectal-swabs
#19
Dennis Souverein, Sjoerd M Euser, Wil A van der Reijden, Bjorn L Herpers, Jan Kluytmans, John W A Rossen, Jeroen W Den Boer
Objectives: To determine the diagnostic accuracy of the Check-Direct ESBL Screen for BD MAX (ESBL qPCR) and an ESBL culture method to identify ESBLs directly from rectal swabs. Methods: Rectal swabs were obtained from clinical patients by performing cross-sectional (point)prevalence measurements in three regional hospitals. Rectal swabs were analysed by direct culture (ChromID ESBL agar) and with the ESBL qPCR. Suspected ESBL-producing isolates were confirmed with the combination disc method and analysed by WGS...
September 1, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/28609453/evaluation-of-a-matrix-assisted-laser-desorption-ionization-time-of-flight-mass-spectrometry-assisted-selective-broth-method-to-screen-for-vancomycin-resistant-enterococci-in-patients-at-high-risk
#20
Tsi-Shu Huang, Susan Shin-Jung Lee, Chia-Chien Lee, Chiu-Yen Chen, Fang-Chen Chen, Bao-Chen Chen, Cheng Len Sy, Kuan-Sheng Wu
BACKGROUND: Bile esculin azide with vancomycin (BEAV) medium is a sensitive, but slightly less specific method for vancomycin-resistant enterococci (VRE) screening. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) is a rapid method for identification of clinical pathogens. This study aimed to assess the performance of a novel combination screening test for VRE, using BEAV broth combined with MALDI-TOF MS. MATERIALS AND METHODS: Clinical specimens were collected from patients at risk of VRE carriage, and tested by the novel combination method, using selective BEAV broth culture method followed by MALDI-TOF MS identification (SBEAVM)...
2017: PloS One
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