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https://www.readbyqxmd.com/read/28087306/molecular-epidemiological-analysis-of-human-and-chicken-derived-isolates-of-campylobacter-jejuni-in-japan-using-next-generation-sequencing
#1
Takayuki Ohishi, Kotaro Aoki, Yoshikazu Ishii, Masaru Usui, Yutaka Tamura, Michiko Kawanishi, Ohnishi Kenji, Kazuhiro Tateda
In this research, we analyzed the main sequence types (ST) and ST complexes of human- and chicken-derived isolates of Campylobacter jejuni in Japan by using multilocus sequence typing (MLST). We also analyzed lipooligosaccharide biosynthesis locus classes (LOS locus classes) and the numbers of isolates carrying genes coding resistance factors against various antibiotics, and observed their relationships. ST-21 complex was the main ST complex in isolates from humans (n = 38) and chickens (n = 25). None of the isolates showed resistance to imipenem, chloramphenicol, or erythromycin...
January 10, 2017: Journal of Infection and Chemotherapy: Official Journal of the Japan Society of Chemotherapy
https://www.readbyqxmd.com/read/28074126/the-emergence-of-carbapenem-resistant-klebsiella-pneumoniae-in-malaysia-correlation-between-microbiological-trends-with-host-characteristics-and-clinical-factors
#2
Ye-Mun Low, Polly Soo-Xi Yap, Kartini Abdul Jabar, Sasheela Ponnampalavanar, Rina Karunakaran, Rukumani Velayuthan, Chun-Wie Chong, Sazaly Abu Bakar, Mohd Yasim Md Yusof, Cindy Shuan-Ju Teh
BACKGROUND: Carbapenem resistant Enterobacteriaceae is a growing concern worldwide including Malaysia. The emergence of this pathogen is worrying because carbapenem is one of the 'last-line' antibiotics. The main objective of this study was to determine the prevalence of genetic mechanisms and clinical risk factors of carbapenem resistant Klebsiella pneumoniae (K. pneumoniae) in Malaysia. METHODS: In this study, seventeen carbapenem resistant K. pneumoniae strains isolated from a tertiary teaching hospital in 2013 were studied...
2017: Antimicrobial Resistance and Infection Control
https://www.readbyqxmd.com/read/28073965/spread-of-mcr-1-carrying-enterobacteriaceae-in-sewage-water-from-spain
#3
C M Ovejero, J F Delgado-Blas, W Calero-Caceres, M Muniesa, B Gonzalez-Zorn
OBJECTIVES: The mobile colistin resistance gene mcr-1 has been identified worldwide in human and animal sources, while its occurrence in the environment is still largely unknown. The aim of this study was to investigate the presence of mcr-1-harbouring Enterobacteriaceae in water samples obtained from rivers and waste water treatment plants in the area of Barcelona, Spain. METHODS: The presence of mcr-1 was detected by PCR. Bacterial identification was performed via MALDI-TOF MS...
January 10, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/28067541/listeria-monocytogenes-circulating-in-rabbit-meat-products-and-slaughterhouses-in-italy-prevalence-data-and-comparison-among-typing-results
#4
Alessandra De Cesare, Antonio Parisi, Renzo Mioni, Damiano Comin, Alex Lucchi, Gerardo Manfreda
Rabbit meat has outstanding dietetic and nutritional properties. However, few data on microbiological hazards associated with rabbit productions are available. In this study, the presence of Listeria monocytogenes was determined in 430 rabbit carcasses, 256 rabbit meat cuts and products, and 599 environmental sponges collected from four Italian rabbit slaughterhouses over a period of 1 year. Prevalence of L. monocytogenes among the 1285 rabbit meat and environmental samples was 11%, with statistically significant differences between slaughterhouses...
January 9, 2017: Foodborne Pathogens and Disease
https://www.readbyqxmd.com/read/28065891/genetic-and-biochemical-characterization-of-hmb-1-a-novel-subclass-b1-metallo-%C3%AE-lactamase-found-in-a-pseudomonas-aeruginosa-clinical-isolate
#5
Niels Pfennigwerth, Felix Lange, Cristina Belmar Campos, Moritz Hentschke, Sören G Gatermann, Martin Kaase
OBJECTIVES: To characterize a novel subclass B1 metallo-β-lactamase (MBL) found in an MDR Pseudomonas aeruginosa clinical isolate. METHODS: The isolate P. aeruginosa NRZ-03096 was recovered in 2012 from an anal swab from a patient hospitalized in Northern Germany and showed high MICs of carbapenems. MBL production was analysed by several phenotypic tests. Genetic characterization of the novel bla gene and MLST was performed by WGS. The novel bla gene was expressed in Escherichia coli TOP10 and the enzyme was subjected to biochemical characterization to determine the kinetic parameters Km and kcat RESULTS: P...
January 8, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/28065889/antimicrobial-resistance-in-staphylococcus-pseudintermedius-and-the-molecular-epidemiology-of-methicillin-resistant-s-pseudintermedius-in-small-animals-in-finland
#6
Thomas Grönthal, Marjut Eklund, Katariina Thomson, Heli Piiparinen, Tarja Sironen, Merja Rantala
OBJECTIVES: To investigate antimicrobial susceptibility in Staphylococcus pseudintermedius and the occurrence of methicillin-resistant S. pseudintermedius (MRSP), to explore the molecular structure of the MRSP population and to analyse risk factors for MRSP. METHODS: Susceptibility data for clinical S. pseudintermedius isolates in 2011-15 were analysed using WHONET. All MRSP isolates in 2010-14 (n = 362) were typed using PFGE. Representative isolates (n = 87) of clusters were analysed using MLST and staphylococcal cassette chromosome mec (SCCmec) typing...
January 8, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/28061852/the-occurrence-of-esbl-producing-escherichia-coli-carrying-aminoglycoside-resistance-genes-in-urinary-tract-infections-in-saudi-arabia
#7
Essam J Alyamani, Anamil M Khiyami, Rayan Y Booq, Majed A Majrashi, Fayez S Bahwerth, Elena Rechkina
BACKGROUND: The infection and prevalence of extended-spectrum β-lactamases (ESBLs) is a worldwide problem, and the presence of ESBLs varies between countries. In this study, we investigated the occurrence of plasmid-mediated ESBL/AmpC/carbapenemase/aminoglycoside resistance gene expression in Escherichia coli using phenotypic and genotypic techniques. METHODS: A total of 58 E. coli isolates were collected from hospitals in the city of Makkah and screened for the production of ESBL/AmpC/carbapenemase/aminoglycoside resistance genes...
January 6, 2017: Annals of Clinical Microbiology and Antimicrobials
https://www.readbyqxmd.com/read/28061803/evaluation-of-mlva-for-epidemiological-typing-and-outbreak-detection-of-esbl-producing-escherichia-coli-in-sweden
#8
Lisa Helldal, Nahid Karami, Christina Welinder-Olsson, Edward R B Moore, Christina Åhren
BACKGROUND: To identify the spread of nosocomial infections and halt outbreak development caused by Escherichia coli that carry multiple antibiotic resistance factors, such as extended-spectrum beta-lactamases (ESBLs) and carbapenemases, is becoming demanding challenges due to the rapid global increase and constant and increasing influx of these bacteria from the community to the hospital setting. Our aim was to assess a reliable and rapid typing protocol for ESBL-E. coli, with the primary focus to screen for possible clonal relatedness between isolates...
January 6, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28056839/molecular-epidemiology-of-bla-oxa-23-producing-carbapenem-resistant-acinetobacter-baumannii-in-a-single-institution-over-a-65-month-period-in-north-china
#9
Nian-Zhi Ning, Xiong Liu, Chun-Mei Bao, Su-Ming Chen, En-Bo Cui, Ju-Ling Zhang, Jie Huang, Fang-Hong Chen, Tao Li, Fen Qu, Hui Wang
BACKGROUND: Carbapenem-resistant Acinetobacter baumannii poses a significant threat to hospitalized patients, as few therapeutic options remain. Thus, we investigated the molecular epidemiology and mechanism of resistance of carbapenem-resistant A.baumannii isolates in Beijing, China. METHODS: Carbapenem-resistant A.baumannii isolates (n = 101) obtained between June 2009 and November 2014 were used. Multilocus sequence typing (MLST) and PCR assays for class C and D β-lactamase were performed on all isolates...
January 5, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28053614/multilocus-sequence-typing-analysis-of-pseudomonas-aeruginosa-isolated-from-pet-chinese-stripe-necked-turtles-ocadia-sinensis
#10
Mitchell Wendt, Gang-Joon Heo
Our research sought to characterize the phylogeny of Pseudomonas aeruginosa isolated from pet Chinese stripe-necked turtles (Ocadia sinensis) to better understand its evolutionary relation to other isolates and increase understanding of a potential zoonotic pathogen transmitted through direct contact with pet turtles. Thirty-one Pseudomonas aeruginosa isolates were obtained from both immature and adult turtles sold in pet shops in Korea. To characterize the phylogenic position of Chinese stripe-necked turtle-borne P...
December 2016: Laboratory Animal Research
https://www.readbyqxmd.com/read/28053217/high-interlaboratory-reproducibility-and-accuracy-of-next-generation-sequencing-based-bacterial-genotyping-in-a-ring-trial
#11
Alexander Mellmann, Paal Skytt Andersen, Stefan Bletz, Alexander W Friedrich, Thomas A Kohl, Berit Lilje, Stefan Niemann, Karola Prior, John W Rossen, Dag Harmsen
Today, next-generation whole genome sequencing (WGS) technology is increasingly used to determine the genetic relationship of bacteria on a nearly whole genome level for infection control purposes and molecular surveillance. Here, we conducted a multicenter ring-trial comprising five laboratories to determine the reproducibility and accuracy of WGS-based typing.The participating laboratories sequenced 20 blind-coded Staphylococcus aureus DNA samples using the 250 bp paired-end chemistry for library preparation in a single sequencing run on an Illumina Miseq sequencer...
January 4, 2017: Journal of Clinical Microbiology
https://www.readbyqxmd.com/read/28043703/empirical-testing-of-modified-salmonella-mlst-in-aquatic-environmental-samples-by-in-silico-analysis
#12
Ying-Ning Ho, Ming-Yuan Chou, Hsin-Chi Tsai, Tung-Yi Huang, Cheng-Wei Fan, Bing-Mu Hsu
Multilocus sequence typing (MLST) is an approach for prediction of Salmonella servoar and eBRUST groups (eBGs) based on seven typing scheme of housekeeping genes. Up to date, >220.000 allelic profiles and 65,973 Salmonella strains have been established in the MLST database. Several studies have modified MLST method with fewer targeted housekeeping genes for the purpose of economy and efficiency. Nevertheless, no study has conducted systematically to evaluate the correlation between the numbers of housekeeping genes targeted and the accuracy of prediction rate...
December 30, 2016: Science of the Total Environment
https://www.readbyqxmd.com/read/28040160/isolation-molecular-and-phenotypic-characterization-and-antibiotic-susceptibility-of-cronobacter-spp-from-brazilian-retail-foods
#13
Marcelo Luiz Lima Brandão, Natália Scudeller Umeda, Emily Jackson, Stephen James Forsythe, Ivano de Filippis
Several Cronobacter species are opportunistic pathogens that cause infections in humans. The aim of this study was to detect Cronobacter spp. from 90 samples of retail foods in Brazil, and characterize the strains by phenotypic tests, molecular assays and antibiotic susceptibility. Three isolation methodologies were evaluated using different selective enrichments and the isolates were identified using Vitek 2.0, PCRs protocols, fusA allele sequencing and multilocus sequence typing (MLST). Thirty-eight samples (42...
May 2017: Food Microbiology
https://www.readbyqxmd.com/read/28038334/a-rapid-typing-method-for-listeria-monocytogenes-based-on-high-throughput-multilocus-sequence-typing-hi-mlst
#14
Hajime Takahashi, Ai Iwakawa, Chihiro Ohshima, Daisuke Kyoui, Shiori Kumano, Takashi Kuda, Bon Kimura
Listeria monocytogenes infects humans via food products, causing listeriosis. Consequently, food companies pay meticulous attention to the risk of contamination of their products by this bacterium. While fragment analysis methods such as pulsed-field gel electrophoresis (PFGE) are used to trace the sources of contamination for this bacterium, some drawbacks have been identified, namely the complexity of the methods and the difficulty of making data comparisons. As an alternative, multilocus sequence typing (MLST) is now seeing widespread use; however, owing to its cost, time, and labor requirements, its diffusion into the food industry has been slow...
December 16, 2016: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/28035601/epidemiological-relationships-of-campylobacter-jejuni-strains-isolated-from-humans-and-chickens-in-south-korea
#15
Jae-Young Oh, Yong-Kuk Kwon, Bai Wei, Hyung-Kwan Jang, Suk-Kyung Lim, Cheon-Hyeon Kim, Suk-Chan Jung, Min-Su Kang
Thirty-nine human isolates of Campylobacter jejuni obtained from a national university hospital during 2007-2010 and 38 chicken isolates of C. jejuni were collected from poultry farms during 2009-2010 in South Korea were used in this study. Campylobacter genomic species and virulence-associated genes were identified by PCR. Pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST) were performed to compare their genetic relationships. All isolates were highly resistant to ciprofloxacin, nalidixic acid, and tetracycline...
January 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28018748/laboratory-investigation-of-i-salmonella-enterica-i-serovar-poona-outbreak-in-california-comparison-of-pulsed-field-gel-electrophoresis-pfge-and-whole-genome-sequencing-wgs-results
#16
Varvara K Kozyreva, John Crandall, Ashley Sabol, Alyssa Poe, Peng Zhang, Jeniffer Concepción-Acevedo, Morgan N Schroeder, Darlene Wagner, Jeffrey Higa, Eija Trees, Vishnu Chaturvedi
INTRODUCTION: Recently, Salmonella enterica serovar Poona caused a multistate outbreak, with 245 out of 907 cases occurring in California. We report a comparison of pulsed-field gel electrophoresis (PFGE) results with whole genome sequencing (WGS) for genotyping of Salmonella Poona isolates. METHODS: CA Salmonella Poona isolates, collected from July to August 2015, were genotyped by PFGE using XbaI restriction enzyme. WGS was done using Nextera XT library kit with 2x300 bp or 2x250 bp sequencing chemistry on the Illumina MiSeq Sequencer...
November 22, 2016: PLoS Currents
https://www.readbyqxmd.com/read/28011701/use-of-pan-genome-analysis-for-the-identification-of-lineage-specific-genes-of-helicobacter-pylori
#17
Arnoud H M van Vliet
The human bacterial pathogen Helicobacter pylori has a highly variable genome, with significant allelic and sequence diversity between isolates and even within well-characterised strains, hampering comparative genomics of H. pylori In this study, pan-genome analysis has been used to identify lineage-specific genes of H. pylori A total of 346 H. pylori genomes spanning the hpAfrica1, hpAfrica2, hpAsia2, hpEurope, hspAmerind and hspEAsia multilocus sequence typing (MLST) lineages were searched for genes specifically over- or underrepresented in MLST lineages or associated with the cag pathogenicity island (PAI)...
December 22, 2016: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/28007519/genetic-characterisation-of-carbapenem-resistant-gram-negative-bacteria-isolated-from-the-university-hospital-mohamed-boudiaf-in-ouargla-southern-algeria
#18
Mounira Yagoubat, Aminata Ould El-Hadj-Khelil, Ali Malki, Sofiane Bakour, Abdelaziz Touati, Jean-Marc Rolain
OBJECTIVES: The aim of this study was to investigate the molecular epidemiology and the genetic support of carbapenem-resistant Enterobacteriaceae and Acinetobacter spp. isolates collected in the University Hospital of Ouargla, southern Algeria. METHODS: A total of 99 Gram-negative bacteria (GNB) were collected from stool samples of colonised patients and from inanimate surfaces in the hospital environment between December 2014 and August 2015. Selected Enterobacteriaceae and Acinetobacter spp...
December 19, 2016: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/28005521/characterisation-of-nasal-methicillin-resistant-staphylococcus-aureus-isolated-from-international-human-and-veterinary-surgeons
#19
Virginia Post, Llinos Harris, Mario Morgenstern, R Geoff Richards, Samuel K Sheppard, Fintan Moriarty
Nasal colonization with methicillin-resistant Staphylococcus aureus is poorly described for surgeons, despite the increased exposure to nosocomial pathogens and at-risk patients. This study investigated the molecular epidemiology and antimicrobial resistance of 26 MRSA isolates cultured from the nares of an international cross-sectional study of 1,166 human and 60 veterinary surgeons. All isolates were subjected to agr-, spa- and MLST typing and the presence of 22 virulence factors were screened for by PCR...
December 21, 2016: Journal of Medical Microbiology
https://www.readbyqxmd.com/read/28003592/antibiotic-susceptibilities-and-genetic-characterization-of-extended-spectrum-beta-lactamase-producing-escherichia-coli-isolated-from-stools-of-pediatric-diarrhea-patients-in-surabaya-indonesia
#20
Eddy Bagus Wasito, Katsumi Shigemura, Kayo Osawa, Alpha Fardah, Akiho Kanaida, Dadik Raharjo, K Kuntaman, Usman Hadi, Sugeng Harijono, Subijanto Marto Sudarmo, Tatsuya Nakamura, Keigo Shibayama, Masato Fujisawa, Toshiro Shirakawa
The purpose of this study was to investigate extended-spectrum beta-lactamase (ESBL)-producing E. coli isolated from pediatric (0-3 year old) diarrhea patients, as well as bacterial antibiotic susceptibilities, ESBL typing, multilocus sequence typing (MLST) typing and diarrheagenic E. coli (DEC)-typing in Surabaya, Indonesia, where this kind of survey is rarely done. ESBL-producing E. coli were detected in 18.8 % of strains. Many ESBL-producing E. coli had significantly less susceptibility to gentamicin (p<0...
December 22, 2016: Japanese Journal of Infectious Diseases
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