scholarly journals An Acinetobacter non-baumannii Population Study: Antimicrobial Resistance Genes (ARGs)

Antibiotics ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 16
Author(s):  
Adam Baraka ◽  
German M. Traglia ◽  
Sabrina Montaña ◽  
Marcelo E. Tolmasky ◽  
Maria Soledad Ramirez
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Efflux Pumps ◽  
Etiologic Agent ◽  
Genome Sequences ◽  
Current Information ◽  
Etiologic Agents ◽  
Antimicrobial Resistance Genes

Acinetobacter non-baumannii species are becoming common etiologic agents of nosocomial infections. Furthermore, clinical isolates belonging to this group of bacteria are usually resistant to one or more antibiotics. The current information about antibiotic resistance genes in the different A. non-baumannii species has not yet been studied as a whole. Therefore, we did a comparative study of the resistomes of A. non-baumannii pathogens based on information available in published articles and genome sequences. We searched the available literature and sequences deposited in GenBank to identify the resistance gene content of A. calcoaceticus, A. lwoffii, A. junii, A. soli, A. ursingii, A. bereziniae, A. nosocomialis, A. portensis, A. guerrae, A. baylyi, A. calcoaceticus, A. disperses, A. johnsonii, A. junii, A. lwoffii, A. nosocomialis, A. oleivorans, A. oryzae, A. pittii, A. radioresistens, and A. venetianus. The most common genes were those coding for different β-lactamases, including the carbapenemase genes blaNDM-1 and blaOXA-58. A. pittii was the species with the most β-lactamase resistance genes reported. Other genes that were commonly found include those encoding some aminoglycoside modifying enzymes, the most common being aph(6)-Id, ant(3″)-IIa, and aph(3″)-Ib, and efflux pumps. All or part of the genes coding for the AdeABC, AdeFGH, and AdeIJK efflux pumps were the most commonly found. This article incorporates all the current information about A. non-baumannii resistance genes. The comparison of the different resistomes shows that there are similarities in the genes present, but there are also significant differences that could impact the efficiency of treatments depending on the etiologic agent. This article is a comprehensive resource about A. non-baumannii resistomes.

scholarly journals Detection and prevalence of antimicrobial resistance genes in Campylobacter spp. isolated from chickens and humans

2017 ◽  
Vol 84 (1) ◽  
Author(s):  
Samantha Reddy ◽  
Oliver T. Zishiri
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Pathogenic Bacteria ◽  
Antibiotic Resistance Genes ◽  
Quinolone Resistance ◽  
Campylobacter Coli ◽  
Antimicrobial Resistance Genes ◽  
Campylobacter Spp ◽  
Clinical Cases

Campylobacter spp. are common pathogenic bacteria in both veterinary and human medicine. Infections caused by Campylobacter spp. are usually treated using antibiotics. However, the injudicious use of antibiotics has been proven to spearhead the emergence of antibiotic resistance. The purpose of this study was to detect the prevalence of antibiotic resistance genes in Campylobacter spp. isolated from chickens and human clinical cases in South Africa. One hundred and sixty one isolates of Campylobacter jejuni and Campylobacter coli were collected from chickens and human clinical cases and then screened for the presence of antimicrobial resistance genes. We observed a wide distribution of the tetO gene, which confers resistance to tetracycline. The gyrA genes that are responsible quinolone resistance were also detected. Finally, our study also detected the presence of the blaOXA-61, which is associated with ampicillin resistance. There was a higher (p < 0.05) prevalence of the studied antimicrobial resistance genes in chicken faeces compared with human clinical isolates. The tetO gene was the most prevalent gene detected, which was isolated at 64% and 68% from human and chicken isolates, respectively. The presence of gyrA genes was significantly (p < 0.05) associated with quinolone resistance. In conclusion, this study demonstrated the presence of gyrA (235 bp), gyrA (270 bp), blaOXA-61 and tetO antimicrobial resistance genes in C. jejuni and C. coli isolated from chickens and human clinical cases. This indicates that Campylobacter spp. have the potential of resistance to a number of antibiotic classes.

scholarly journals First Report of Coexistence of blaSFO–1 and blaNDM–1 β-Lactamase Genes as Well as Colistin Resistance Gene mcr-9 in a Transferrable Plasmid of a Clinical Isolate of Enterobacter hormaechei

2021 ◽  
Vol 12 ◽  
Author(s):  
Wenxiu Ai ◽  
Ying Zhou ◽  
Bingjie Wang ◽  
Qing Zhan ◽  
Longhua Hu ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Clinical Isolate ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Mobile Elements ◽  
Conjugative Plasmid ◽  
S1 Nuclease ◽  
Antimicrobial Resistance Genes ◽  
Enterobacter Hormaechei

Many antimicrobial resistance genes usually located on transferable plasmids are responsible for multiple antimicrobial resistance among multidrug-resistant (MDR) Gram-negative bacteria. The aim of this study is to characterize a carbapenemase-producing Enterobacter hormaechei 1575 isolate from the blood sample in a tertiary hospital in Wuhan, Hubei Province, China. Antimicrobial susceptibility test showed that 1575 was an MDR isolate. The whole genome sequencing (WGS) and comparative genomics were used to deeply analyze the molecular information of the 1575 and to explore the location and structure of antibiotic resistance genes. The three key resistance genes (blaSFO–1, blaNDM–1, and mcr-9) were verified by PCR, and the amplicons were subsequently sequenced. Moreover, the conjugation assay was also performed to determine the transferability of those resistance genes. Plasmid files were determined by the S1 nuclease pulsed-field gel electrophoresis (S1-PFGE). WGS revealed that p1575-1 plasmid was a conjugative plasmid that possessed the rare coexistence of blaSFO–1, blaNDM–1, and mcr-9 genes and complete conjugative systems. And p1575-1 belonged to the plasmid incompatibility group IncHI2 and multilocus sequence typing ST102. Meanwhile, the pMLST type of p1575-1 was IncHI2-ST1. Conjugation assay proved that the MDR p1575-1 plasmid could be transferred to other recipients. S1-PFGE confirmed the location of plasmid with molecular weight of 342,447 bp. All these three resistant genes were flanked by various mobile elements, indicating that the blaSFO–1, blaNDM–1, and mcr-9 could be transferred not only by the p1575-1 plasmid but also by these mobile elements. Taken together, we report for the first time the coexistence of blaSFO–1, blaNDM–1, and mcr-9 on a transferable plasmid in a MDR clinical isolate E. hormaechei, which indicates the possibility of horizontal transfer of antibiotic resistance genes.

scholarly journals Antimicrobial-resistance genes in the human gut prior the antibiotic-therapy era

2019 ◽  
Author(s):  
Tasha Santiago-Rodriguez
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Antibiotic Therapy ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Natural Environments ◽  
Beta Lactams ◽  
Human Gut ◽  
Antimicrobial Resistance Genes

Antibiotic-resistance has long been associated with the use and abuse of antibiotics. However, increasing evidence is suggesting that antibiotic-resistance is in fact a phenomenon that has been occurring in natural environments for thousands and possibly millions of years. With the expansion of the microbiome field, it is now possible to characterize antibiotic-resistance genes altogether in different samples, including the human gut. This has also enabled the characterization of ancient human gut microbiomes, which also include antibiotic-resistance genes. Mummified gut remains represent a unique opportunity to characterize the microbiome and antibiotic-resistance genes prior the antibiotic-therapy era. Surprisingly, mummies from the Inca and Italian nobility cultures showed to possess antibiotic-resistance-like genes similar to modern-day antibiotic-resistance genes conferring resistance to beta-lactams, sulfa, quinolones and vancomycin, just to mention a few examples. This is intriguing as it further supports that antibiotic-resistance began in the environment and was transferred to the human gut by means that remain to be investigated and are a matter of ongoing speculation.

scholarly journals Detection of antibiotic resistance and classical enterotoxin genes in coagulase -negative staphylococci isolated from poultry in Poland

2019 ◽  
Vol 63 (2) ◽  
pp. 183-190 ◽  
Author(s):  
Ewelina Pyzik ◽  
Agnieszka Marek ◽  
Dagmara Stępień-Pyśniak ◽  
Renata Urban-Chmiel ◽  
Łukasz S. Jarosz ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Multiplex Pcr ◽  
Resistance Genes ◽  
Methicillin Resistance ◽  
Antibiotic Resistance Genes ◽  
Coagulase Negative Staphylococci ◽  
Enterotoxin Genes ◽  
Antimicrobial Resistance Genes

AbstractIntroduction:The study sought to characterise antimicrobial resistance among coagulase-negativeStaphylococcus(CNS) species recovered from broiler chickens and turkeys in Poland including the presence of 12 antimicrobial resistance genes and five classical genes of staphylococcal enterotoxins.Material and Methods:A panel of 11 antimicrobial disks evaluated the phenotypic sensitivity of the tested strains to antibiotics. Five multiplex PCR assays were performed using primer pairs for specific detection of antibiotic resistance genes and staphylococcal enterotoxin A to E genes.Results:Selected antimicrobial agent susceptibility testing revealed 100% of such inin vitroconditions to cefoxitin among strains ofStaphylococcus sciuriandS. chromogenes. TheblaZ (for ß-lactam) andmecA (for methicillin resistance) genes were in 58.3% and 27.5% of strains, respectively. Among genes resistant to tetracyclines,tetK was most frequent. Fewer (CNS) strains showed genes resistant to macrolides, lincosamides, and florfenicol/chloramphenicol. Multiplex PCR for classical enterotoxins (A-E) detected theseegene in twoS. hominisstrains, while thesebgene producing enterotoxin B was found in one strain ofS. epidermidis.Conclusion:CNS strains ofStaphylococcusisolated from poultry were either phenotypically or genotypically multidrug resistant. Testing for the presence of the five classical enterotoxin genes showed that CNS strains, as in the case ofS. aureusstrains, can be a source of food intoxications.

scholarly journals Characterization of antimicrobial resistance genes inHaemophilus parasuisisolated from pigs in China

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4613 ◽  
Author(s):  
Yongda Zhao ◽  
Lili Guo ◽  
Jie Li ◽  
Xianhui Huang ◽  
Binghu Fang
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Gel Electrophoresis ◽  
Antibiotic Resistance Genes ◽  
Pulsed Field Gel Electrophoresis ◽  
Pulsed Field ◽  
Antimicrobial Resistance Genes ◽  
Broth Microdilution Method

BackgroundHaemophilus parasuisis a common porcine respiratory pathogen that causes high rates of morbidity and mortality in farmed swine. We performed a molecular characterization of antimicrobial resistance genes harbored byH. parasuisfrom pig farms in China.MethodsWe screened 143H. parasuisisolates for antimicrobial susceptibility against six fluoroquinolone antibiotics testing by the broth microdilution method, and the presence of 64 antimicrobial resistance genes by PCR amplification and DNA sequence analysis. We determined quinolone resistance determining region mutations of DNA gyrase (gyrAandgyrB) and topoisomerase IV (parCandparE). The genetic relatedness among the strains was analyzed by pulsed-field gel electrophoresis.ResultsSusceptibility test showed that all isolates were low resistance to lomefloxacin (28.67%), levofloxacin (20.28%), norfloxacin (22.38%), ciprofloxacin (23.78%), however, high resistance levels were found to nalidixic acid (82.52%) and enrofloxacin (55.94%). In addition, we found 14 antimicrobial resistance genes were present in these isolates, includingblaTEM-1, blaROB-1,ermB, ermA, flor, catl, tetB, tetC, rmtB, rmtD, aadA1, aac(3′)-llc, sul1, and sul2genes. Interestingly, one isolate carried five antibiotic resistance genes (tetB, tetC, flor, rmtB, sul1). The genestetB,rmtB,andflorwere the most prevalent resistance genes inH. parasuisin China. Alterations in thegyrAgene (S83F/Y, D87Y/N/H/G) were detected in 81% of the strains andparCmutations were often accompanied by agyrAmutation. Pulsed-field gel electrophoresis typing revealed 51 unique patterns in the isolates carrying high-level antibiotic resistance genes, indicating considerable genetic diversity and suggesting that the genes were spread horizontally.DiscussionThe current study demonstrated that the high antibiotic resistance ofH. parasuisin piglets is a combination of transferable antibiotic resistance genes and multiple target gene mutations. These data provide novel insights for the better understanding of the prevalence and epidemiology of antimicrobial resistance inH. parasuis.

scholarly journals Characterization of antimicrobial resistance genes in Haemophilus parasuis isolated from pigs in China

2017 ◽  
Author(s):  
Yongda Zhao ◽  
Lili Guo ◽  
Jie Li ◽  
Xianhui Huang ◽  
Binghu Fang
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Gel Electrophoresis ◽  
Antibiotic Resistance Genes ◽  
Pulsed Field Gel Electrophoresis ◽  
Haemophilus Parasuis ◽  
Pulsed Field ◽  
Antimicrobial Resistance Genes

Background: Haemophilus parasuis is a common porcine respiratory disease that causes high rates of morbidity and mortality in farmed swine. We performed a molecular characterization of antimicrobial resistance genes harbored by H. parasuis from pig farms in China. Methods: We screened 143 H. parasuis isolates for the presence of 64 antimicrobial resistance genes by PCR amplification and DNA sequence analysis. We determined quinolone resistance determining region mutations of DNA gyrase (gyrA and gyrB) and topoisomerase IV (parC and parE). The genetic relatedness among the strains was analyzed by pulsed-field gel electrophoresis. Results: We found 14 antimicrobial resistance genes were present in these isolates, including TEM-1, ROB-1.ermB,ermA ,flor, catl,tetB,tetC, rmtB, rmtD, aadA1, aac(3’)-ⅡC, sul1, and sul2 genes. Interestingly, one isolate carried 5 antibiotic resistance genes (tetB, tetC, flor, rmtB, sul1). The genes tetB, rmtB, and flor were the most prevalent resistance genes in H. parasuis in China. Alterations in the gyrA gene (S83F/Y, D87Y/N/H/G) were detected in 81% of the strains and parC mutations were often accompanied by a gyrA mutation. pulsed-field gel electrophoresis typing revealed 51 unique patterns in the isolates carrying antibiotic resistance genes indicating considerable genetic diversity and suggesting the genes were spread horizontally. Discussion: The current study demonstrated that the high antibiotic resistance of H. parasuis in piglets is a combination of transferable antibiotic resistance genes and multiple target gene mutations. GyrA gene mutation also was the most important role in quinolone resistance. These data provide novel insights for the better understanding of the prevalence and epidemiology of antimicrobial resistance in H. parasuis.

scholarly journals Characterization of antimicrobial resistance genes in Haemophilus parasuis isolated from pigs in China

2017 ◽  
Author(s):  
Yongda Zhao ◽  
Lili Guo ◽  
Jie Li ◽  
Xianhui Huang ◽  
Binghu Fang
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Gel Electrophoresis ◽  
Antibiotic Resistance Genes ◽  
Pulsed Field Gel Electrophoresis ◽  
Haemophilus Parasuis ◽  
Pulsed Field ◽  
Antimicrobial Resistance Genes

Background: Haemophilus parasuis is a common porcine respiratory disease that causes high rates of morbidity and mortality in farmed swine. We performed a molecular characterization of antimicrobial resistance genes harbored by H. parasuis from pig farms in China. Methods: We screened 143 H. parasuis isolates for the presence of 64 antimicrobial resistance genes by PCR amplification and DNA sequence analysis. We determined quinolone resistance determining region mutations of DNA gyrase (gyrA and gyrB) and topoisomerase IV (parC and parE). The genetic relatedness among the strains was analyzed by pulsed-field gel electrophoresis. Results: We found 14 antimicrobial resistance genes were present in these isolates, including TEM-1, ROB-1.ermB,ermA ,flor, catl,tetB,tetC, rmtB, rmtD, aadA1, aac(3’)-ⅡC, sul1, and sul2 genes. Interestingly, one isolate carried 5 antibiotic resistance genes (tetB, tetC, flor, rmtB, sul1). The genes tetB, rmtB, and flor were the most prevalent resistance genes in H. parasuis in China. Alterations in the gyrA gene (S83F/Y, D87Y/N/H/G) were detected in 81% of the strains and parC mutations were often accompanied by a gyrA mutation. pulsed-field gel electrophoresis typing revealed 51 unique patterns in the isolates carrying antibiotic resistance genes indicating considerable genetic diversity and suggesting the genes were spread horizontally. Discussion: The current study demonstrated that the high antibiotic resistance of H. parasuis in piglets is a combination of transferable antibiotic resistance genes and multiple target gene mutations. GyrA gene mutation also was the most important role in quinolone resistance. These data provide novel insights for the better understanding of the prevalence and epidemiology of antimicrobial resistance in H. parasuis.

scholarly journals Extreme genome selection towards complete antimicrobial resistance in a nosocomial strain of Stenotrophomonas maltophilia complex

2019 ◽  
Author(s):  
Sanjeet Kumar ◽  
Kanika Bansal ◽  
Prashant P. Patil ◽  
Amandeep Kaur ◽  
Satinder Kaur ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Stenotrophomonas Maltophilia ◽  
Antibiotic Resistance Genes ◽  
Chromosomal Origin ◽  
Extreme Drug Resistance

ABSTRACTWe report first complete genome sequence and analysis of an extreme drug resistance (XDR) nosocomial Stenotrophomonas maltophilia that is resistant to the mainstream drugs i.e. trimethoprim/sulfamethoxazole (TMP/SXT) and levofloxacin. Taxonogenomic analysis revealed it to be a novel genomospecies of the Stenotrophomonas maltophilia complex (Smc). Comprehensive genomic investigation revealed fourteen dynamic regions (DRs) exclusive to SM866, consisting of diverse antibiotic resistance genes, efflux pumps, heavy metal resistance, various transcriptional regulators etc. Further, resistome analysis of Smc clearly depicted SM866 to be an enriched strain, having diversified resistome consisting of sul1 and sul2 genes. Interestingly, SM866 does not have any plasmid but it harbors two diverse super-integrons of chromosomal origin. Apart from genes for sulfonamide resistance (sul1 and sul2), both of these integrons harbor an array of antibiotic resistance genes linked to ISCR (IS91-like elements common regions) elements. These integrons also harbor genes encoding resistance to commonly used disinfectants like quaternary ammonium compounds and heavy metals like mercury. Hence, isolation of a novel strain belonging to a novel sequence type (ST) and genomospecies with diverse array of resistance from a tertiary care unit of India indicates extent and nature of selection pressure driving XDRs in hospital settings. There is an urgent need to employ complete genome based investigation using emerging technologies for tracking emergence of XDR at the global level and designing strategies of sanitization and antibiotic regime.Impact StatementThe hospital settings in India have one of the highest usage of antimicrobials and heavy patient load. Our finding of a novel clinical isolate of S. maltophilia complex with two super-integrons harbouring array of antibiotic resistance genes along with antimicrobials resistance genes indicates the extent and the nature of selection pressures in action. Further, the presence of ISCR type of transposable elements on both integrons not only indicates its propensity to transfer resistome but also their chromosomal origin suggests possibilities for further genomic/phenotypic complexities. Such complex cassettes and strain are potential threat to global health care. Hence, there is an urgent need to employ cost-effective long read technologies to keep vigilance on novel and extreme antimicrobial resistance pathogens in populous countries. There is also need for surveillance for usage of antimicrobials for hygiene and linked/rapid co-evolution of extreme drug resistance in nosocomial pathogens. Our finding of the chromosomal encoding XDR will shed a light on the need of hour to understand the evolution of an opportunistic nosocomial pathogen belonging to S. maltophilia.RepositoriesComplete genome sequence of Stenotrophomonas maltophilia SM866: CP031058

scholarly journals Using WGS to identify antibiotic resistance genes and predict antimicrobial resistance phenotypes in MDR Acinetobacter baumannii in Tanzania

2019 ◽  
Vol 74 (6) ◽  
pp. 1484-1493 ◽  
Author(s):  
Happiness H Kumburu ◽  
Tolbert Sonda ◽  
Marco van Zwetselaar ◽  
Pimlapas Leekitcharoenphon ◽  
Oksana Lukjancenko ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
Acinetobacter Baumannii ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes

scholarly journals Draft Genome Sequences of Five Pseudomonas aeruginosa Clinical Strains Isolated from Sputum Samples from Cystic Fibrosis Patients: TABLE 1

2016 ◽  
Vol 4 (1) ◽  
Author(s):  
M. B. Couger ◽  
Anna Wright ◽  
Erika I. Lutter ◽  
Noha Youssef
Keyword(s):  
Cystic Fibrosis ◽  
Pseudomonas Aeruginosa ◽  
Antibiotic Resistance ◽  
Virulence Factors ◽  
Resistance Genes ◽  
Draft Genome ◽  
Antibiotic Resistance Genes ◽  
Genome Sequences ◽  
Clinical Strains ◽  
Chronic Colonization

We report here the draft genome sequences of five Pseudomonas aeruginosa isolates obtained from sputum samples from two cystic fibrosis patients with chronic colonization. These closely related strains harbor 225 to 493 genes absent from the P. aeruginosa POA1 genome and contain 178 to 179 virulence factors and 29 to 31 antibiotic resistance genes.

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