scholarly journals Whole Genome Sequence-Based Prediction of Resistance Determinants in High-Level Multidrug-Resistant Campylobacter jejuni Isolates in Lithuania

2020 ◽  
Vol 9 (1) ◽  
pp. 66
Author(s):  
Jurgita Aksomaitiene ◽  
Aleksandr Novoslavskij ◽  
Egle Kudirkiene ◽  
Ausra Gabinaitiene ◽  
Mindaugas Malakauskas
Keyword(s):  
Antibiotic Resistance ◽  
Multidrug Resistance ◽  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Mobile Genetic Elements ◽  
Multidrug Resistant ◽  
Whole Genome ◽  
Genome Sequences ◽  
Resistance Determinants ◽  
High Level

Spread of antibiotic resistance via mobile genetic elements associates with transfer of genes providing resistance against multiple antibiotics. Use of various comparative genomics analysis techniques enables to find intrinsic and acquired genes associated with phenotypic antimicrobial resistance (AMR) in Campylobacter jejuni genome sequences with exceptionally high-level multidrug resistance. In this study, we used whole genome sequences of seven C. jejuni to identify isolate-specific genomic features associated with resistance and virulence determinants and their role in multidrug resistance (MDR). All isolates were phenotypically highly resistant to tetracycline, ciprofloxacin, and ceftriaxone (MIC range from 64 to ≥256 µg/mL). Besides, two C. jejuni isolates were resistant to gentamicin, and one was resistant to erythromycin. The extensive drug-resistance profiles were confirmed for the two C. jejuni isolates assigned to ST-4447 (CC179). The most occurring genetic antimicrobial-resistance determinants were tetO, beta-lactamase, and multidrug efflux pumps. In this study, mobile genetic elements (MGEs) were detected in genomic islands carrying genes that confer resistance to MDR, underline their importance for disseminating antibiotic resistance in C. jejuni. The genomic approach showed a diverse distribution of virulence markers, including both plasmids and phage sequences that serve as horizontal gene transfer tools. The study findings describe in silico prediction of AMR and virulence genetics determinants combined with phenotypic AMR detection in multidrug-resistant C. jejuni isolates from Lithuania.

scholarly journals Whole-Genome Sequences of Agricultural, Host-Associated Campylobacter coli and Campylobacter jejuni Strains

2016 ◽  
Vol 4 (4) ◽  
Author(s):  
Vikrant Dutta ◽  
Eric Altermann ◽  
Jonathan Olson ◽  
Gregory Allan Wray ◽  
Robin M. Siletzky ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Multidrug Resistant ◽  
Campylobacter Coli ◽  
Whole Genome ◽  
Genome Sequences ◽  
Swine Feces

We report here the genome sequences of four agricultural, multidrug-resistant Campylobacter spp.: C. coli 11601 and C. jejuni 11601MD, isolated from turkey cecum and jejunum, respectively, and C. coli 6067 and C. coli 6461, isolated from turkey-house water and swine feces, respectively. The genomes provide insights on Campylobacter antimicrobial resistance and host adaptations.

scholarly journals Whole-Genome Sequences of Two Campylobacter coli Isolates from the Antimicrobial Resistance Monitoring Program in Colombia: TABLE 1 

2016 ◽  
Vol 4 (2) ◽  
Author(s):  
Johan F. Bernal ◽  
Pilar Donado-Godoy ◽  
María Fernanda Valencia ◽  
Maribel León ◽  
Yolanda Gómez ◽  
...  
Keyword(s):  
Multidrug Resistance ◽  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Resistance Genes ◽  
Monitoring Program ◽  
Campylobacter Coli ◽  
Whole Genome ◽  
Genome Sequences ◽  
Resistance Monitoring ◽  
Antimicrobial Resistance Genes

Campylobacter coli , along with Campylobacter jejuni , is a major agent of gastroenteritis and acute enterocolitis in humans. We report the whole-genome sequences of two multidrug-resistance C. coli strains, isolated from the Colombian poultry chain. The isolates contain a variety of antimicrobial resistance genes for aminoglycosides, lincosamides, fluoroquinolones, and tetracycline.

scholarly journals Detection of antimicrobial resistance, pathogenicity, and virulence potentials of non-typhoidal Salmonella isolates at the Yaounde abattoir using whole genome sequencing technique

2021 ◽  
Author(s):  
Chelea Matchawe ◽  
Eunice M Machuka ◽  
Martina Kyalo ◽  
Patrice Bonny ◽  
Nkeunen Gerard ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Multidrug Resistance ◽  
Antimicrobial Resistance ◽  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Bacterial Pathogens ◽  
Critical Role ◽  
Multidrug Resistant ◽  
World Health ◽  
Whole Genome

One of the crucial public health problems today is emerging and re-emerging of multidrug-resistant bacterial pathogens coupled with a decline in the development of new antimicrobials. Non-typhoidal Salmonella is classified among the multidrug-resistant bacterial pathogens of international concern. To predict their multidrug resistance potentials, 19 assembled genomes (partial genomes) of 23 non-typhoidal Salmonella isolated at the Yaounde abattoir between December 2014 and November 2015 from live cattle (n=1), beef carcass (n=19), butchers' hands (n=1) and the beef processing environments (n=2) were explored using whole-genome sequencing. Phenotypically, while approximately 22% (n=5) of Salmonella isolates showed moderate resistance to streptomycin, 13.04 % (n=3) were multidrug-resistant. Genotypically, all the Salmonella isolates possessed high multidrug resistance potentials against several classes of antibiotics (third-generation cephalosporin and fluoroquinolone), which are assigned highest priority drugs by the World Health Organization. Moreover, more than 31% of the isolates exhibited resistance potentials to polymyxin, considered as the last resort drug with both clinical and veterinary relevance. Additionally, close to 80% of non-typhoidal Salmonella isolates in this study harbored "silent resistant genes" and thus constituted potential reservoirs of antibiotic resistance to other foodborne bacteria. Plasmids also appear to play a critical role in the horizontal transfer of antibiotic resistance genes of some isolates. The isolates showed a high degree of pathogenicity and possessed key effector proteins to establish infection in their hosts, including humans. The overall results demand prudent use of antibiotics and constant monitoring of antimicrobial resistance of non-typhoidal Salmonella in the Cameroonian abattoirs.

scholarly journals Draft Genome Sequences of Multidrug-Resistant Campylobacter jejuni Strains Isolated from Chickens in Central China

2020 ◽  
Vol 9 (1) ◽  
Author(s):  
Yiluo Cheng ◽  
Wenting Zhang ◽  
Qin Lu ◽  
Guoyuan Wen ◽  
Qingping Luo ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Draft Genome ◽  
Foodborne Pathogen ◽  
Multidrug Resistant ◽  
Central China ◽  
Genome Sequences ◽  
Genetic Characteristics ◽  
Content Type

Campylobacter jejuni is a major foodborne pathogen that plays an important role in spreading drug resistance. We report the draft genome sequences of two multidrug-resistant C. jejuni isolates which contained similar mutations in the CmeR box. This will improve the understanding of C. jejuni antimicrobial resistance and genetic characteristics.

Surveillance and Antimicrobial Resistance of Salmonella Strains Isolated from Slaughtered Pigs in Spain

2007 ◽  
Vol 70 (6) ◽  
pp. 1502-1506 ◽  
Author(s):  
RAFAEL JESÚS ASTORGA MÁRQUEZ ◽  
AURORA ECHEITA SALABERRIA ◽  
ALFONSO MALDONADO GARCÍA ◽  
SILVIA VALDEZATE JIMENEZ ◽  
ALFONSO CARBONERO MARTINEZ ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Multidrug Resistance ◽  
Antimicrobial Resistance ◽  
Antimicrobial Agents ◽  
Phage Type ◽  
Multidrug Resistant ◽  
Gold Coast ◽  
Resistance Patterns ◽  
Salmonella Serotypes ◽  
Slaughtered Pigs

The prevalence of and the antibiotic resistance shown by Salmonella isolated from pigs in Andalusia (southern Spain) is reported. Salmonella enterica was recovered from 40 (33%) of 121 sampled herds, and a total of 65 isolates were serotyped. The most common Salmonella serotypes were Typhimurium and Rissen (30.7% each); others included Derby (9.2%), Brandenburg (9.2%), Newport (7.7%), Bredeney (4.6%), Anatum (3.0%), Hadar (1.5%), and Goldcoast (1.5%). One strain (1.5%) belonging to the monophasic variant of the Typhimurium serotype (Salmonella 4,5,12:i:−) was also detected. Definitive phage type (DT) 104b was the most common Typhimurium phage type isolated. These Salmonella strains were resistant to various antimicrobial agents, including tetracycline (84.6%), streptomycin (69.2%), neomycin (63.0%), sulfonamides (61.5%), ampicillin (53.8%), and amoxicillin (53.8%). All isolates were fully susceptible to ceftriaxone, ciprofloxacin, and colistin. Thirty-nine strains (64%) resistant to four or more antimicrobial agents were defined as multidrug resistant. Multidrug resistance profiles were observed in Salmonella serotypes Typhimurium, Rissen, Brandenburg, Bredeney, a monophasic variant, Gold-coast, Hadar, and Anatum, with serotypes Typhimurium and Brandenburg showing the most complicated resistance patterns (resistant to ≥11 drugs).

scholarly journals Genome Sequences of Multidrug-Resistant Salmonella enterica Serovar Dublin Isolates

2019 ◽  
Vol 8 (31) ◽  
Author(s):  
Baha Abdalhamid ◽  
Emily L. Mccutchen ◽  
Kacie D. Flaherty ◽  
Steven H. Hinrichs ◽  
Peter C. Iwen
Keyword(s):  
Antimicrobial Resistance ◽  
Salmonella Enterica ◽  
Draft Genome ◽  
Multidrug Resistant ◽  
Genome Sequences ◽  
Content Type ◽  
Resistance Determinants ◽  
Human Samples ◽  
Systemic Infections ◽  
Salmonella Enterica Serovar Dublin

Salmonella enterica serovar Dublin, which can cause enteritis and systemic infections in humans, has been associated with antimicrobial resistance. Here, we report draft genome sequences of seven multidrug-resistant S. Dublin isolates from human samples. These sequences will contribute to an understanding of pathogenesis and resistance determinants in this serovar.

scholarly journals Complete Nucleotide Sequence of Two Multidrug-Resistant IncR Plasmids from Klebsiella pneumoniae

2014 ◽  
Vol 58 (7) ◽  
pp. 4207-4210 ◽  
Author(s):  
Fabrice Compain ◽  
Lionel Frangeul ◽  
Laurence Drieux ◽  
Charlotte Verdet ◽  
Sylvain Brisse ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Multidrug Resistance ◽  
Nucleotide Sequence ◽  
Resistance Genes ◽  
Complete Nucleotide Sequence ◽  
Clinical Importance ◽  
Antibiotic Resistance Genes ◽  
Multidrug Resistant ◽  
Resistance Determinants ◽  
Gene Carriers

ABSTRACTWe report here the complete nucleotide sequence of two IncR replicons encoding multidrug resistance determinants, including β-lactam (blaDHA-1,blaSHV-12), aminoglycoside (aphA1,strA,strB), and fluoroquinolone (qnrB4,aac6′-1b-cr) resistance genes. The plasmids have backbones that are similar to each other, including the replication and stability systems, and contain a wide variety of transposable elements carrying known antibiotic resistance genes. This study confirms the increasing clinical importance of IncR replicons as resistance gene carriers.

scholarly journals Staphylococcus edaphicus sp. nov., Isolated in Antarctica, Harbors the mecC Gene and Genomic Islands with a Suspected Role in Adaptation to Extreme Environments

2017 ◽  
Vol 84 (2) ◽  
Author(s):  
Roman Pantůček ◽  
Ivo Sedláček ◽  
Adéla Indráková ◽  
Veronika Vrbovská ◽  
Ivana Mašlaňová ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
New Species ◽  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Novel Species ◽  
Extreme Environments ◽  
Mobile Genetic Elements ◽  
Whole Genome ◽  
Content Type ◽  
Genetic Elements

ABSTRACT Two Gram-stain-positive, coagulase-negative staphylococcal strains were isolated from abiotic sources comprising stone fragments and sandy soil in James Ross Island, Antarctica. Here, we describe properties of a novel species of the genus Staphylococcus that has a 16S rRNA gene sequence nearly identical to that of Staphylococcus saprophyticus. However, compared to S. saprophyticus and the next closest relatives, the new species demonstrates considerable phylogenetic distance at the whole-genome level, with an average nucleotide identity of <85% and inferred DNA-DNA hybridization of <30%. It forms a separate branch in the S. saprophyticus phylogenetic clade as confirmed by multilocus sequence analysis of six housekeeping genes, rpoB, hsp60, tuf, dnaJ, gap, and sod. Matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) and key biochemical characteristics allowed these bacteria to be distinguished from their nearest phylogenetic neighbors. In contrast to S. saprophyticus subsp. saprophyticus, the novel strains are pyrrolidonyl arylamidase and β-glucuronidase positive and β-galactosidase negative, nitrate is reduced, and acid produced aerobically from d-mannose. Whole-genome sequencing of the 2.69-Mb large chromosome revealed the presence of a number of mobile genetic elements, including the 27-kb pseudo-staphylococcus cassette chromosome mec of strain P5085T (ψSCCmec P5085), harboring the mecC gene, two composite phage-inducible chromosomal islands probably essential to adaptation to extreme environments, and one complete and one defective prophage. Both strains are resistant to penicillin G, ampicillin, ceftazidime, methicillin, cefoxitin, and fosfomycin. We hypothesize that antibiotic resistance might represent an evolutionary advantage against beta-lactam producers, which are common in a polar environment. Based on these results, a novel species of the genus Staphylococcus is described and named Staphylococcus edaphicus sp. nov. The type strain is P5085T (= CCM 8730T = DSM 104441T). IMPORTANCE The description of Staphylococcus edaphicus sp. nov. enables the comparison of multidrug-resistant staphylococci from human and veterinary sources evolved in the globalized world to their geographically distant relative from the extreme Antarctic environment. Although this new species was not exposed to the pressure of antibiotic treatment in human or veterinary practice, mobile genetic elements carrying antimicrobial resistance genes were found in the genome. The genomic characteristics presented here elucidate the evolutionary relationships in the Staphylococcus genus with a special focus on antimicrobial resistance, pathogenicity, and survival traits. Genes encoded on mobile genetic elements were arranged in unique combinations but retained conserved locations for the integration of mobile genetic elements. These findings point to enormous plasticity of the staphylococcal pangenome, shaped by horizontal gene transfer. Thus, S. edaphicus can act not only as a reservoir of antibiotic resistance in a natural environment but also as a mediator for the spread and evolution of resistance genes.

High Level of Antimicrobial Resistance in Campylobacter jejuni Isolated from Broiler Chickens in Estonia in 2005 and 2006

2007 ◽  
Vol 70 (8) ◽  
pp. 1940-1944 ◽  
Author(s):  
MATI ROASTO ◽  
KADRIN JUHKAM ◽  
TERJE TAMME ◽  
ARI HÖRMAN ◽  
LIIDIA HÄKKINEN ◽  
...  
Keyword(s):  
Multidrug Resistance ◽  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Broiler Chickens ◽  
Animal Origin ◽  
Campylobacter Coli ◽  
National Veterinary Institute ◽  
Food Of Animal Origin ◽  
Meat Samples ◽  
High Level

The development of antimicrobial resistance in Campylobacter jejuni and Campylobacter coli is a matter of increasing concern. Because campylobacteriosis is transmitted to humans usually via food of animal origin, the presence of antimicrobial-resistant campylobacters in broiler chickens has important public health implications. The aim of our study was to analyze resistance patterns of C. jejuni isolated from fecal samples collected at a large Estonian chicken farm, from cecal contents collected at slaughterhouses, and from meat samples collected at the retail establishments in 2005 and 2006. A total of 131 C. jejuni isolates were collected over a 13-month period and tested by the broth microdilution VetMIC method (National Veterinary Institute, Uppsala, Sweden) to determine the MICs of various antimicrobials. Resistance to one or more antimicrobials was detected in 104 (79.4%) of the 131 isolates. High proportions of the isolates were resistant to enrofloxacin (73.3%) and nalidixic acid (75.6%). Multidrug resistance (resistance to three or more unrelated antimicrobials) was detected in 36 isolates (27.5%), all of which were resistant to enrofloxacin. Multidrug resistance was significantly associated with enrofloxacin resistance (P &lt; 0.01), and the use of enrofloxacin may select for multiresistant strains.

scholarly journals Whole-Genome Sequences of Salmonella enterica Serovar I 4,[5],12:i:− Isolates from Swine

2019 ◽  
Vol 8 (21) ◽  
Author(s):  
Selma Gonzalez ◽  
Roger B. Harvey ◽  
H. Morgan Scott ◽  
Sara D. Lawhon ◽  
Javier Vinasco ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Salmonella Enterica ◽  
Multidrug Resistant ◽  
Whole Genome ◽  
Genome Sequences ◽  
Tissue Samples ◽  
Content Type ◽  
Enteric Infections ◽  
Swine Tissue

Salmonella enterica (non-Typhi) is one of the top five pathogens causing enteric infections worldwide. Draft whole-genome sequences of multidrug-resistant (MDR) Salmonella enterica serovar I 4,[5],12:i:− isolates from swine tissue samples collected at slaughter were evaluated for antimicrobial resistance genotypes.

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