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https://www.readbyqxmd.com/read/28072891/molecular-epidemiology-and-resistome-analysis-of-multidrug-resistant-st11-klebsiella-pneumoniae-strain-containing-multiple-copies-of-extended-spectrum-%C3%AE-lactamase-genes-using-whole-genome-sequencing
#1
Roshan DSouza, Naina Adren Pinto, Insik Hwang, Hwang Younjee, YoungLag Cho, Hyunsoo Kim, Dongeun Yong, Jongrak Choi, Kyungwon Lee, Yunsop Chong
The aim of this work was to investigate the mechanism responsible for multidrug resistance in ST11 Klebsiella pneumoniae YMC 2013/7/B3993 containing multiple copies of ESBL genes using multiple parallel sequencing technology. In-depth analysis of the strain revealed multiple copies of ESBL genes, 2 copies of blaSHV-12 and 1 copy of blaCTX-M-15. Furthermore, 1 copy of blaOXA-9 and 3 copies of blaTEM-1 were found. The insertion of Tn1331 was detected, which consisted of blaOXA-9, blaTEM-1, aac(6')-lb-cr, and aadA1 genes...
January 10, 2017: New Microbiologica
https://www.readbyqxmd.com/read/28062856/rapid-resistome-mapping-using-nanopore-sequencing
#2
Eric van der Helm, Lejla Imamovic, Mostafa M Hashim Ellabaan, Willem van Schaik, Anna Koza, Morten O A Sommer
The emergence of antibiotic resistance in human pathogens has become a major threat to modern medicine. The outcome of antibiotic treatment can be affected by the composition of the gut. Accordingly, knowledge of the gut resistome composition could enable more effective and individualized treatment of bacterial infections. Yet, rapid workflows for resistome characterization are lacking. To address this challenge we developed the poreFUME workflow that deploys functional metagenomic selections and nanopore sequencing to resistome mapping...
January 6, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28012687/assessing-the-risk-of-antibiotic-resistance-transmission-from-the-environment-to-humans-non-direct-proportionality-between-abundance-and-risk
#3
REVIEW
Célia M Manaia
The past decade has witnessed a burst of study regarding antibiotic resistance in the environment, mainly in areas under anthropogenic influence. Therefore, impacts of the contaminant resistome, that is, those related to human activities, are now recognized. However, a key issue refers to the risk of transmission of resistance to humans, for which a quantitative model is urgently needed. This opinion paper makes an overview of some risk-determinant variables and raises questions regarding research needs. A major conclusion is that the risks of transmission of antibiotic resistance from the environment to humans must be managed under the precautionary principle, because it may be too late to act if we wait until we have concrete risk values...
December 21, 2016: Trends in Microbiology
https://www.readbyqxmd.com/read/28002024/the-cancer-cell-adhesion-resistome-mechanisms-targeting-and-translational-approaches
#4
Ellen Dickreuter, Nils Cordes
Cell adhesion-mediated resistance limits the success of cancer therapies and is a great obstacle to overcome in the clinic. Since the 90s, where it became clear that adhesion of tumor cells to the extracellular matrix is an important mediator of therapy resistance, a lot of work has been conducted to understand the fundamental underlying mechanisms and two paradigms were deduced: cell adhesion-mediated radioresistance (CAM-RR) and cell adhesion-mediated drug resistance (CAM-DR). Preclinical work has evidently demonstrated that targeting of integrins, adapter proteins and associated kinases comprising the cell adhesion resistome is a promising strategy to sensitize cancer cells to both radiotherapy and chemotherapy...
December 20, 2016: Biological Chemistry
https://www.readbyqxmd.com/read/27999667/antimicrobial-usage-and-resistance-in-beef-production
#5
REVIEW
Andrew Cameron, Tim A McAllister
Antimicrobials are critical to contemporary high-intensity beef production. Many different antimicrobials are approved for beef cattle, and are used judiciously for animal welfare, and controversially, to promote growth and feed efficiency. Antimicrobial administration provides a powerful selective pressure that acts on the microbial community, selecting for resistance gene determinants and antimicrobial-resistant bacteria resident in the bovine flora. The bovine microbiota includes many harmless bacteria, but also opportunistic pathogens that may acquire and propagate resistance genes within the microbial community via horizontal gene transfer...
2016: Journal of Animal Science and Biotechnology
https://www.readbyqxmd.com/read/27965630/evaluation-of-machine-learning-and-rules-based-approaches-for-predicting-antimicrobial-resistance-profiles-in-gram-negative-bacilli-from-whole-genome-sequence-data
#6
Mitchell W Pesesky, Tahir Hussain, Meghan Wallace, Sanket Patel, Saadia Andleeb, Carey-Ann D Burnham, Gautam Dantas
The time-to-result for culture-based microorganism recovery and phenotypic antimicrobial susceptibility testing necessitates initial use of empiric (frequently broad-spectrum) antimicrobial therapy. If the empiric therapy is not optimal, this can lead to adverse patient outcomes and contribute to increasing antibiotic resistance in pathogens. New, more rapid technologies are emerging to meet this need. Many of these are based on identifying resistance genes, rather than directly assaying resistance phenotypes, and thus require interpretation to translate the genotype into treatment recommendations...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27959344/co-occurrence-of-antibiotic-and-metal-resistance-genes-revealed-in-complete-genome-collection
#7
Li-Guan Li, Yu Xia, Tong Zhang
The high frequency of antibiotic resistance is a global public health concern. More seriously, widespread metal pressure in the environment may facilitate the proliferation of antibiotic resistance via coselection of antibiotic resistance genes (ARGs) and metal resistance genes (MRGs). Given the lack of comprehensive understanding of the ARG and MRG coselection, in this study both abundance relationship and genetic linkage between ARGs and MRGs were rigorously investigated by performing a genomic analysis of a large complete genome collection...
December 13, 2016: ISME Journal
https://www.readbyqxmd.com/read/27934260/long-term-impact-of-field-applications-of-sewage-sludge-on-soil-antibiotic-resistome
#8
Wan-Ying Xie, Steve P McGrath, Jian-Qiang Su, Penny R Hirsch, Ian M Clark, Qirong Shen, Yong-Guan Zhu, Fang-Jie Zhao
Land applications of municipal sewage sludge may pose a risk of introducing antibiotic resistance genes (ARGs) from urban environments into agricultural systems. However, how the sewage sludge recycling and application method influence soil resistome and mobile genetic elements (MGEs) remains unclear. In the present study, high through-put quantitative PCR was conducted on the resistome of soils from a field experiment with past (between 1994 and 1997) and annual (since 1994) applications of five different sewage sludges...
December 6, 2016: Environmental Science & Technology
https://www.readbyqxmd.com/read/27929110/a-diverse-intrinsic-antibiotic-resistome-from-a-cave-bacterium
#9
Andrew C Pawlowski, Wenliang Wang, Kalinka Koteva, Hazel A Barton, Andrew G McArthur, Gerard D Wright
Antibiotic resistance is ancient and widespread in environmental bacteria. These are therefore reservoirs of resistance elements and reflective of the natural history of antibiotics and resistance. In a previous study, we discovered that multi-drug resistance is common in bacteria isolated from Lechuguilla Cave, an underground ecosystem that has been isolated from the surface for over 4 Myr. Here we use whole-genome sequencing, functional genomics and biochemical assays to reveal the intrinsic resistome of Paenibacillus sp...
December 8, 2016: Nature Communications
https://www.readbyqxmd.com/read/27913093/genome-of-the-carbapenemase-producing-clinical-isolate-elizabethkingia-miricola-em_chuv-and-comparative-genomics-with-elizabethkingia-meningoseptica-and-elizabethkingia-anophelis-evidence-for-intrinsic-multidrug-resistance-trait-of-emerging-pathogens
#10
Onya Opota, Seydina M Diene, Claire Bertelli, Guy Prod'hom, Philippe Eckert, Gilbert Greub
Elizabethkingia miricola is a Gram-negative non-fermenting rod emerging as a life-threatening human pathogen. The multidrug-resistant (MDR) carbapenemase-producing clinical isolate E. miricola EM_CHUV was recovered in the setting of severe nosocomial pneumonia. In this study, the genome of E. miricola EM_CHUV was sequenced and a functional analysis was performed, including a comparative genomic study with Elizabethkingia meningoseptica and Elizabethkingia anophelis. The resistome of EM_CHUV revealed the presence of a high number of resistance genes, including the presence of the blaGOB-13 and blaB-9 carbapenemase-encoding genes...
January 2017: International Journal of Antimicrobial Agents
https://www.readbyqxmd.com/read/27864179/prevalence-of-antibiotic-resistance-genes-among-human-gut-derived-bifidobacteria
#11
Sabrina Duranti, Gabriele Andrea Lugli, Leonardo Mancabelli, Francesca Turroni, Christian Milani, Marta Mangifesta, Chiara Ferrario, Rosaria Anzalone, Alice Viappiani, Douwe van Sinderen, Marco Ventura
: The microbiota of the human gastrointestinal tract (GIT) may regularly be exposed to antibiotics, which are used to prevent and treat infectious diseases caused by bacteria and fungi. Bacterial communities of the gut retain a reservoir of antibiotic resistance (AR) genes, and antibiotic therapy thus positively selects for those microorganisms that harbor such genetic features, causing microbiota modulation. During the first months following birth, bifidobacteria represent some of the most dominant components of the human gut microbiota, although little is known about their AR gene complement (or resistome)...
February 1, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/27825482/unraveling-genomic-and-phenotypic-nature-of-multidrug-resistant-mdr-pseudomonas-aeruginosa-vrfpa04-isolated-from-keratitis-patient
#12
Murugan N, Malathi J, Umashankar V, Madhavan H N
Multidrug-resistant (MDR) Pseudomonas aeruginosa VRFPA04, obtained from a keratitis patient was found to exhibit resistance to betalactam (Penicillins, cephalosporins, including carbapenems, except aztreonam), aminoglycosides, quinolone group of drugs and susceptible to colistin. The complete genome sequencing of the ocular isolate to measure and ascertain the degree of multidrug resistance in VRFPA04 strain resulted in 6,818,030bp (6.8Mb) genome sizes, which happen to be the third largest genome available in the Genbank to date...
December 2016: Microbiological Research
https://www.readbyqxmd.com/read/27814534/changes-in-antibiotic-concentrations-and-antibiotic-resistome-during-commercial-composting-of-animal-manures
#13
Wan-Ying Xie, Xin-Ping Yang, Qian Li, Long-Hua Wu, Qi-Rong Shen, Fang-Jie Zhao
The over-use of antibiotics in animal husbandry in China and the concomitant enhanced selection of antibiotic resistance genes (ARGs) in animal manures are of serious concern. Thermophilic composting is an effective way of reducing hazards in organic wastes. However, its effectiveness in antibiotic degradation and ARG reduction in commercial operations remains unclear. In the present study, we determined the concentrations of 15 common veterinary antibiotics and the abundances of 213 ARGs and 10 marker genes for mobile genetic elements (MGEs) in commercial composts made from cattle, poultry and swine manures in Eastern China...
December 2016: Environmental Pollution
https://www.readbyqxmd.com/read/27797963/molecular-characterization-of-the-psinb-plasmid-of-the-arsenite-oxidizing-metallotolerant-sinorhizobium-sp-m14-insight-into-the-heavy-metal-resistome-of-sinorhizobial-extrachromosomal-replicons
#14
Krzysztof Romaniuk, Lukasz Dziewit, Przemyslaw Decewicz, Sebastian Mielnicki, Monika Radlinska, Lukasz Drewniak
Sinorhizobium sp. M14 is an As(III)-oxidizing, psychrotolerant strain, capable of growth in the presence of extremely high concentrations of arsenic and many other heavy metals. Metallotolerant abilities of the M14 strain depend upon the presence of two extrachromosomal replicons, pSinA (∼ 109 kb) and pSinB (∼ 300 kb). The latter was subjected to complex analysis. The performed analysis demonstrated that the plasmid pSinB is a narrow-host-range repABC-type replicon, which is fully stabilized by the phd-vapC-like toxin-antitoxin stabilizing system...
October 18, 2016: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/27789705/card-2017-expansion-and-model-centric-curation-of-the-comprehensive-antibiotic-resistance-database
#15
Baofeng Jia, Amogelang R Raphenya, Brian Alcock, Nicholas Waglechner, Peiyao Guo, Kara K Tsang, Briony A Lago, Biren M Dave, Sheldon Pereira, Arjun N Sharma, Sachin Doshi, Mélanie Courtot, Raymond Lo, Laura E Williams, Jonathan G Frye, Tariq Elsayegh, Daim Sardar, Erin L Westman, Andrew C Pawlowski, Timothy A Johnson, Fiona S L Brinkman, Gerard D Wright, Andrew G McArthur
The Comprehensive Antibiotic Resistance Database (CARD; http://arpcard.mcmaster.ca) is a manually curated resource containing high quality reference data on the molecular basis of antimicrobial resistance (AMR), with an emphasis on the genes, proteins and mutations involved in AMR. CARD is ontologically structured, model centric, and spans the breadth of AMR drug classes and resistance mechanisms, including intrinsic, mutation-driven and acquired resistance. It is built upon the Antibiotic Resistance Ontology (ARO), a custom built, interconnected and hierarchical controlled vocabulary allowing advanced data sharing and organization...
January 4, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/27789378/whole-genome-sequencing-for-m-xdr-tuberculosis-surveillance-and-for-resistance-testing
#16
REVIEW
T Walker, M Merker, T Kohl, D W Crook, S Niemann, F Z Borstel, P Peto
Whole genome sequencing (WGS) can help relate Mycobacterium tuberculosis genomes to one another to assess genetic relatedness and infer the likelihood of transmission between cases. The same sequence data is now increasingly being used to predict drug resistance and susceptibility as well. Controlling the spread of tuberculosis and providing patients with the correct treatment are central to the World Health Organization's target to 'End TB' by 2035, to which the global prevalence of drug resistant tuberculosis remains one of the main obstacles to success...
October 24, 2016: Clinical Microbiology and Infection
https://www.readbyqxmd.com/read/27767072/evaluating-the-mobility-potential-of-antibiotic-resistance-genes-in-environmental-resistomes-without-metagenomics
#17
Katariina Pärnänen, Antti Karkman, Manu Tamminen, Christina Lyra, Jenni Hultman, Lars Paulin, Marko Virta
Antibiotic resistance genes are ubiquitous in the environment. However, only a fraction of them are mobile and able to spread to pathogenic bacteria. Until now, studying the mobility of antibiotic resistance genes in environmental resistomes has been challenging due to inadequate sensitivity and difficulties in contig assembly of metagenome based methods. We developed a new cost and labor efficient method based on Inverse PCR and long read sequencing for studying mobility potential of environmental resistance genes...
October 21, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27766372/translational-metagenomics-and-the-human-resistome-confronting-the-menace-of-the-new-millennium
#18
REVIEW
Matthias Willmann, Silke Peter
The increasing threat of antimicrobial resistance poses one of the greatest challenges to modern medicine. The collection of all antimicrobial resistance genes carried by various microorganisms in the human body is called the human resistome and represents the source of resistance in pathogens that can eventually cause life-threatening and untreatable infections. A deep understanding of the human resistome and its multilateral interaction with various environments is necessary for developing proper measures that can efficiently reduce the spread of resistance...
October 20, 2016: Journal of Molecular Medicine: Official Organ of the "Gesellschaft Deutscher Naturforscher und Ärzte"
https://www.readbyqxmd.com/read/27765485/antibiotics-pharmacokinetics-toxicity-resistance-and-multidrug-efflux-pumps
#19
Çiğdem Yılmaz, Gülay Özcengiz
The discovery of penicillin followed by streptomycin, tetracycline, cephalosporins and other natural, semi-synthetic and synthetic antimicrobials completely revolutionized medicine by reducing human morbidity and mortality from most of the common infections. However, shortly after they were introduced to clinical practice, the development of resistance was emerged. The decreasing interest from antibiotic industry in spite of rapid global emergence of antibiotic resistance is a tough dilemma from the pointview of public health...
October 17, 2016: Biochemical Pharmacology
https://www.readbyqxmd.com/read/27750121/identification-of-antibiotic-resistant-bacteria-community-and-a-geochip-based-study-of-resistome-in-urban-watersheds
#20
Adrian Low, Charmaine Ng, Jianzhong He
Urban watersheds from point sources are potential reservoirs of antibiotic resistance genes (ARGs). However, few studies have investigated urban watersheds of non-point sources. To understand the type of ARGs and bacteria that might carry such genes, we investigated two non-point source urban watersheds with different land-use profiles. Antibiotic resistance levels of two watersheds (R1, R3) were examined using heterotrophic plate counts (HPC) as a culturing method to obtain counts of bacteria resistant to seven antibiotics belonging to different classes (erythromycin, kanamycin, lincomycin, norfloxacin, sulfanilamide, tetracycline and trimethoprim)...
September 20, 2016: Water Research
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