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https://www.readbyqxmd.com/read/28724443/metagenomics-of-urban-sewage-identifies-an-extensively-shared-antibiotic-resistome-in-china
#1
Jian-Qiang Su, Xin-Li An, Bing Li, Qing-Lin Chen, Michael R Gillings, Hong Chen, Tong Zhang, Yong-Guan Zhu
BACKGROUND: Antibiotic-resistant pathogens are challenging treatment of infections worldwide. Urban sewage is potentially a major conduit for dissemination of antibiotic resistance genes into various environmental compartments. However, the diversity and abundance of such genes in wastewater are not well known. METHODS: Here, seasonal and geographical distributions of antibiotic resistance genes and their host bacterial communities from Chinese urban sewage were characterized, using metagenomic analyses and 16S rRNA gene-based Illumina sequencing, respectively...
July 19, 2017: Microbiome
https://www.readbyqxmd.com/read/28717172/evolution-of-the-pseudomonas-aeruginosa-mutational-resistome-in-an-international-cystic-fibrosis-clone
#2
Carla López-Causapé, Lea Mette Sommer, Gabriel Cabot, Rosa Rubio, Alain A Ocampo-Sosa, Helle Krogh Johansen, Joan Figuerola, Rafael Cantón, Timothy J Kidd, Soeren Molin, Antonio Oliver
Emergence of epidemic clones and antibiotic resistance development compromises the management of Pseudomonas aeruginosa cystic fibrosis (CF) chronic respiratory infections. Whole genome sequencing (WGS) was used to decipher the phylogeny, interpatient dissemination, WGS mutator genotypes (mutome) and resistome of a widespread clone (CC274), in isolates from two highly-distant countries, Australia and Spain, covering an 18-year period. The coexistence of two divergent CC274 clonal lineages was revealed, but without evident geographical barrier; phylogenetic reconstructions and mutational resistome demonstrated the interpatient transmission of mutators...
July 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28711315/characterization-of-mobile-genetic-elements-carrying-vim-1-and-kpc-2-carbapenemases-in-citrobacter-freundii-isolates-in-madrid
#3
Jennifer Villa, David M Arana, Esther Viedma, Dafne Perez-Montarelo, Fernando Chaves
Carbapenemase producing Citrobacter freundii (CPCF) infections are still uncommon in European countries. Here we report a molecular study conducted in a tertiary care facility in southern Madrid, Spain, from 2009 to 2014 to investigate the epidemiology of CPCF. The blaIMP-1,blaIMP-2,blaKPC,blaNDM,blaOXA-48,blaVIM-1 and blaVIM-2 genes were screened by PCR. Molecular typing was carried out by Pulsed-field gel electrophoresis analysis (PFGE) and multilocus sequence typing (MLST). Whole genome sequencing (WGS) was performed to characterize the resistome and the mobile genetic elements associated with the carbapenems resistance of CPCF...
July 8, 2017: International Journal of Medical Microbiology: IJMM
https://www.readbyqxmd.com/read/28709370/sewers-as-potential-reservoirs-of-antibiotic-resistance
#4
Olga Auguet, Maite Pijuan, Carles M Borrego, Sara Rodriguez-Mozaz, Xavier Triadó-Margarit, Saulo Varela Della Giustina, Oriol Gutierrez
Wastewater transport along sewers favors the colonization of inner pipe surfaces by wastewater-derived microorganisms that grow forming biofilms. These biofilms are composed of rich and diverse microbial communities that are continuously exposed to antibiotic residues and antibiotic resistant bacteria (ARB) from urban wastewater. Sewer biofilms thus appear as an optimal habitat for the dispersal and accumulation of antibiotic resistance genes (ARGs). In this study, the concentration of antibiotics, integron (intI1) and antibiotic resistance genes (qnrS, sul1, sul2, blaTEM, blaKPC, ermB, tetM and tetW), and potential bacterial pathogens were analyzed in wastewater and biofilm samples collected at the inlet and outlet sections of a pressurized sewer pipe...
July 10, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28680484/introducing-the-sporobiota-and-sporobiome
#5
George Tetz, Victor Tetz
Unrelated spore-forming bacteria share unique characteristics stemming from the presence of highly resistant endospores, leading to similar challenges in health and disease. These characteristics are related to the presence of these highly transmissible spores, which are commonly spread within the environment and are implicated in host-to-host transmission. In humans, spore-forming bacteria contribute to a variety of pathological processes that share similar characteristics, including persistence, chronicity, relapses and the maintenance of the resistome...
2017: Gut Pathogens
https://www.readbyqxmd.com/read/28673041/using-metagenomics-to-investigate-human-and-environmental-resistomes
#6
Johan Bengtsson-Palme, D G Joakim Larsson, Erik Kristiansson
Antibiotic resistance is a global health concern declared by the WHO as one of the largest threats to modern healthcare. In recent years, metagenomic DNA sequencing has started to be applied as a tool to study antibiotic resistance in different environments, including the human microbiota. However, a multitude of methods exist for metagenomic data analysis, and not all methods are suitable for the investigation of resistance genes, particularly if the desired outcome is an assessment of risks to human health...
June 30, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/28662396/stormwater-loadings-of-antibiotic-resistance-genes-in-an-urban-stream
#7
Emily Garner, Romina Benitez, Emily von Wagoner, Richard Sawyer, Erin Schaberg, W Cully Hession, Leigh-Anne H Krometis, Brian D Badgley, Amy Pruden
Antibiotic resistance presents a critical public health challenge and the transmission of antibiotic resistance via environmental pathways continues to gain attention. Factors driving the spread of antibiotic resistance genes (ARGs) in surface water and sources of ARGs in urban stormwater have not been well-characterized. In this study, five ARGs (sul1, sul2, tet(O), tet(W), and erm(F)) were quantified throughout the duration of three storm runoff events in an urban inland stream. Storm loads of all five ARGs were significantly greater than during equivalent background periods...
June 19, 2017: Water Research
https://www.readbyqxmd.com/read/28657887/lessons-from-the-environmental-antibiotic-resistome
#8
Matthew Surette, Gerard D Wright
Antibiotic resistance is a global public health issue of growing proportions. All antibiotics are susceptible to resistance. The evidence is now clear that the environment is the single largest source and reservoir of resistance. Soil, aquatic, atmospheric, animal- associated, and built ecosystems are home to microbes that harbor antibiotic resistance elements and the means to mobilize them. The diversity and abundance of resistance in the environment is consistent with the ancient origins of antibiotics and a variety of studies support a long natural history of associated resistance...
June 28, 2017: Annual Review of Microbiology
https://www.readbyqxmd.com/read/28628300/application-of-struvite-alters-the-antibiotic-resistome-in-soil-rhizosphere-and-phyllosphere
#9
Qing-Lin Chen, Xin-Li An, Yong-Guan Zhu, Jian-Qiang Su, Michael R Gillings, Zhi-Long Ye, Li Cui
Struvite recovered from wastewater is a renewable source of phosphorus and nitrogen and can be used as fertilizer for plant growth. However, antibiotics and resistome can be enriched in the struvite derived from wastewater. Robust understanding of the potential risks after struvite application to soils has remained elusive. Here, we profiled antibiotic resistance genes (ARGs) and mobile genetic elements (MGEs) in struvite, soil, rhizosphere and phyllosphere of Brassica using high-throughput quantitative PCR...
June 30, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28625995/novel-antibiotic-resistance-determinants-from-agricultural-soil-exposed-to-antibiotics-widely-used-in-human-medicine-and-animal-farming
#10
Calvin Ho-Fung Lau, Kalene van Engelen, Stephen Gordon, Justin Renaud, Edward Topp
Antibiotic resistance has emerged globally as one of the biggest threats to human and animal health. Although the excessive use of antibiotics is recognized for accelerating the selection for resistance, there is a growing body of evidence suggesting that natural environments are "hotspots" for the development of both ancient and contemporary resistance mechanisms. Given that pharmaceuticals can be entrained onto agricultural land through anthropogenic activities, this could be a potential driver for the emergence and dissemination of resistance in soil bacteria...
June 16, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28606169/profound-perturbation-induced-by-triclosan-exposure-in-mouse-gut-microbiome-a-less-resilient-microbial-community-with-elevated-antibiotic-and-metal-resistomes
#11
Bei Gao, Pengcheng Tu, Xiaoming Bian, Liang Chi, Hongyu Ru, Kun Lu
BACKGROUND: Environmental chemical-induced perturbations of gut microbiome are associated with a series of adverse health outcomes. The effects of triclosan on human health have been controversial in recent years. The purpose of this study is to investigate the functional impact of triclosan on the mouse gut microbiome and the link between triclosan exposure and resistomes in gut bacteria. METHODS: We combined 16S rRNA gene sequencing and shotgun metagenomics sequencing to examine the compositional and functional impact of triclosan exposure on the gut microbiota of C57BL/6 mice...
June 12, 2017: BMC Pharmacology & Toxicology
https://www.readbyqxmd.com/read/28589129/whole-genome-sequence-analysis-of-antimicrobial-resistance-genes-in-streptococcus-uberis-and-streptococcus-dysgalactiae-isolates-from-canadian-dairy-herds
#12
Julián Reyes Vélez, Marguerite Cameron, Juan Carlos Rodríguez-Lecompte, Fangfang Xia, Luke C Heider, Matthew Saab, J Trenton McClure, Javier Sánchez
The objectives of this study are to determine the occurrence of antimicrobial resistance (AMR) genes using whole-genome sequence (WGS) of Streptococcus uberis (S. uberis) and Streptococcus dysgalactiae (S. dysgalactiae) isolates, recovered from dairy cows in the Canadian Maritime Provinces. A secondary objective included the exploration of the association between phenotypic AMR and the genomic characteristics (genome size, guanine-cytosine content, and occurrence of unique gene sequences). Initially, 91 isolates were sequenced, and of these isolates, 89 were assembled...
2017: Frontiers in Veterinary Science
https://www.readbyqxmd.com/read/28574575/genomics-of-antibiotic-resistance-prediction-in-pseudomonas-aeruginosa
#13
REVIEW
Julie Jeukens, Luca Freschi, Irena Kukavica-Ibrulj, Jean-Guillaume Emond-Rheault, Nicholas P Tucker, Roger C Levesque
Antibiotic resistance is a worldwide health issue spreading quickly among human and animal pathogens, as well as environmental bacteria. Misuse of antibiotics has an impact on the selection of resistant bacteria, thus contributing to an increase in the occurrence of resistant genotypes that emerge via spontaneous mutation or are acquired by horizontal gene transfer. There is a specific and urgent need not only to detect antimicrobial resistance but also to predict antibiotic resistance in silico. We now have the capability to sequence hundreds of bacterial genomes per week, including assembly and annotation...
June 2, 2017: Annals of the New York Academy of Sciences
https://www.readbyqxmd.com/read/28554735/correlation-between-phenotypic-antibiotic-susceptibility-and-the-resistome-in-pseudomonas-aeruginosa
#14
Magali Jaillard, Alex van Belkum, Kyle C Cady, David Creely, Dee Shortridge, Bernadette Blanc, E Magda Barbu, W Michael Dunne, Gilles Zambardi, Mark Enright, Nathalie Mugnier, Christophe Le Priol, Stéphane Schicklin, Ghislaine Guigon, Jean-Baptiste Veyrieras
Genetic determinants of antibiotic resistance (AR) have been extensively investigated. High-throughput sequencing allows for the assessment of the relationship between genotype and phenotype. A panel of 672 Pseudomonas aeruginosa strains was analysed, including representatives of globally disseminated multidrug-resistant and extensively drug-resistant clones; genomes and multiple antibiograms were available. This panel was annotated for AR gene presence and polymorphism, defining a resistome in which integrons were included...
May 26, 2017: International Journal of Antimicrobial Agents
https://www.readbyqxmd.com/read/28546829/vinasse-fertirrigation-alters-soil-resistome-dynamics-an-analysis-based-on-metagenomic-profiles
#15
Lucas P P Braga, Rafael F Alves, Marina T F Dellias, Acacio A Navarrete, Thiago O Basso, Siu M Tsai
Every year around 300 Gl of vinasse, a by-product of ethanol distillation in sugarcane mills, are flushed into more than 9 Mha of sugarcane cropland in Brazil. This practice links fermentation waste management to fertilization for plant biomass production, and it is known as fertirrigation. Here we evaluate public datasets of soil metagenomes mining for changes in antibiotic resistance genes (ARGs) of soils from sugarcane mesocosms repeatedly amended with vinasse. The metagenomes were annotated using the ResFam database...
2017: BioData Mining
https://www.readbyqxmd.com/read/28521338/klebsiella-pneumoniae-a-major-worldwide-source-and-shuttle-for-antibiotic-resistance
#16
Shiri Navon-Venezia, Kira Kondratyeva, Alessandra Carattoli
Klebsiella pneumoniae is an important multidrug-resistant (MDR) pathogen affecting humans and a major source for hospital infections associated with high morbidity and mortality due to limited treatment options. We summarize the wide resistome of this pathogen, which encompasses plentiful chromosomal and plasmid-encoded antibiotic resistance genes (ARGs). Under antibiotic selective pressure, K. pneumoniae continuously accumulates ARGs, by de novo mutations, and via acquisition of plasmids and transferable genetic elements, leading to extremely drug resistant (XDR) strains harboring a 'super resistome'...
May 1, 2017: FEMS Microbiology Reviews
https://www.readbyqxmd.com/read/28520993/effects-of-short-and-long-course-antibiotics-on-the-lower-intestinal-microbiome-as-they-relate-to-traveller-s-diarrhea
#17
Lawrence Clifford McDonald
BACKGROUND: Antibiotics have profound and lasting effects on the lower intestinal (gut) microbiome that can both promote resistance and increase susceptibility to colonization and infection; knowledge of these changes is important to the prevention and treatment of traveler's diarrhea. METHODS: Recent data from epidemiologic and modern metagenomics studies were reviewed in regard to how such findings could inform the prevention and treatment of traveler's diarrhea...
April 1, 2017: Journal of Travel Medicine
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
#18
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/28504647/identification-of-a-nucleoside-analog-active-against-adenosine-kinase-expressing-plasma-cell-malignancies
#19
Utthara Nayar, Jouliana Sadek, Jonathan Reichel, Denise Hernandez-Hopkins, Gunkut Akar, Peter J Barelli, Michelle A Sahai, Hufeng Zhou, Jennifer Totonchy, David Jayabalan, Ruben Niesvizky, Ilaria Guasparri, Duane Hassane, Yifang Liu, Shizuko Sei, Robert H Shoemaker, J David Warren, Olivier Elemento, Kenneth M Kaye, Ethel Cesarman
Primary effusion lymphoma (PEL) is a largely incurable malignancy of B cell origin with plasmacytic differentiation. Here, we report the identification of a highly effective inhibitor of PEL. This compound, 6-ethylthioinosine (6-ETI), is a nucleoside analog with toxicity to PEL in vitro and in vivo, but not to other lymphoma cell lines tested. We developed and performed resistome analysis, an unbiased approach based on RNA sequencing of resistant subclones, to discover the molecular mechanisms of sensitivity...
June 1, 2017: Journal of Clinical Investigation
https://www.readbyqxmd.com/read/28500429/the-antibiotic-resistome-gene-flow-in-environments-animals-and-human-beings
#20
REVIEW
Yongfei Hu, George F Gao, Baoli Zhu
The antibiotic resistance is natural in bacteria and predates the human use of antibiotics. Numerous antibiotic resistance genes (ARGs) have been discovered to confer resistance to a wide range of antibiotics. The ARGs in natural environments are highly integrated and tightly regulated in specific bacterial metabolic networks. However, the antibiotic selection pressure conferred by the use of antibiotics in both human medicine and agriculture practice leads to a significant increase of antibiotic resistance and a steady accumulation of ARGs in bacteria...
May 13, 2017: Frontiers of Medicine
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