scholarly journals Molecular Epidemiology and Mechanisms of Antibiotic Resistance in Gram-positive Bacteria in Africa: A Systematic Review and Meta-Analysis from a One Health Perspective

2018 ◽  
Author(s):  
John Osei Sekyere ◽  
JEric Mensah
Keyword(s):  
Systematic Review ◽  
Molecular Epidemiology ◽  
Resistance Genes ◽  
One Health ◽  
Meta Analysis ◽  
Horizontal Transmission ◽  
Mobile Genetic Elements ◽  
Gram Positive ◽  
Genetic Elements ◽  
Gram Positive Bacteria

ABSTRACTA systematic review and meta-analysis of antibiotic-resistant Gram-positive bacteria in Africa, showing the molecular epidemiology of resistant species from animal, human and environmental sources, is lacking. Thus, the current burden, type, and sources of Gram-positive bacterial resistance and their dissemination routes from farm to fork is absent. To fill this One Health information gap, we systematically searched PubMed, Web of Science and African Journals Online for English research articles reporting on the resistance mechanisms and clonality of resistant Gram-positive bacteria in Africa within 2007 to 2018. The review and all statistical analysis were undertaken with 130 included articles.From our analyses, the same resistant Gram-positive bacterial clones, resistance genes, and mobile genetic elements (MGEs) are circulating in humans, animals and the environment. The resistance genes, mecA, erm(B), erm(C), tet(M), tet(K), tet(L), vanB, vanA, vanC, and tet(O), were found in isolates from humans, animals and the environment. Commonest clones and mobile genetic elements identified from all three sample sources included Staphylococcus aureus ST5 (n=208 isolates), ST 8 (n=116 isolates), ST 80 (n=123 isolates) and ST 88 (n=105 isolates), and IS16 (n=18 isolates), Tn916 (n=60 isolates) and SCCmec (n=202 isolates). Resistance to penicillin (n=4 224 isolates, 76.2%), erythromycin (n=3 552 isolates, 62.6%), ampicillin (n=1 507 isolates, 54.0%), sulfamethoxazole/trimethoprim (n=2 261 isolates, 46.0%), tetracycline (n=3 054 isolates, 42.1%), vancomycin (n=1 281 isolates, 41.2%), streptomycin (n=1 198 isolates, 37.0%), rifampicin (n=2 645 isolates, 33.1%), ciprofloxacin (n=1 394 isolates, 30.5%), clindamycin (n=1 256 isolates, 29.9%) and gentamicin (n=1 502 isolates, 27.3%) (p-value <0.0001) were commonest.Mean resistance rates of 14.2% to 98.5% were recorded in 20 countries within the study period, which were mediated by clonal, polyclonal and horizontal transmission of resistance genes. A One Health approach to research, surveillance, molecular epidemiology, and antibiotic stewardship to contain ABR should be prioritized.

scholarly journals Prevalence of the Genus Propionibacterium in Primary and Persistent Endodontic Lesions: A Systematic Review

2020 ◽  
Vol 9 (3) ◽  
pp. 739 ◽  
Author(s):  
Mario Dioguardi ◽  
Mario Alovisi ◽  
Vito Crincoli ◽  
Riccardo Aiuto ◽  
Giancarlo Malagnino ◽  
...  
Keyword(s):  
Systematic Review ◽  
Propionibacterium Acnes ◽  
Meta Analysis ◽  
Secondary Outcome ◽  
Exclusion Criteria ◽  
Gram Positive ◽  
Gram Positive Bacteria ◽  
Endodontic Infections ◽  
Outcome Differences ◽  
Present Systematic Review

Propionibacterium are anaerobic/aero-tolerant rod Gram-positive bacteria, and numerous studies are associated with primary and secondary endodontic infections. The data in the literature on the prevalence of Propionibacterium are conflicting, and there are studies that report conflicting data on the prevalence in primary and secondary endodontic infections. This review aims to clarify the prevalence of bacteria of the genus Propionibacterium in endodontic lesions. The present systematic review work was performed on the basis of the Prisma protocol. A search was carried out on the PubMed and Scopus databases with the use of keywords. The research produced 410 records, which, after the elimination of the overlaps and the application of the inclusion and exclusion criteria, led to a number of 36 included articles divided by the three outcomes. The first outcome concerns prevalence of bacteria of the genus Propionibacterium in primary and secondary endodontic lesions. The secondary outcome, differences in the prevalence of bacteria of the genus Propionibacterium between primary endodontic infections and secondary endodontic infections. The tertiary outcome, differences in the prevalence of Propionibacterium Acnes compared to Propionibacterium propionicum in endodontic infections. The results of the meta-analysis show that the genus Propionibacterium bacteria are more prevalent in secondary endodontic infections and that P. acnes has a higher prevalence than P. propionicum.

scholarly journals Mobile Genetic Elements Associated with Antimicrobial Resistance

2018 ◽  
Vol 31 (4) ◽  
Author(s):  
Sally R. Partridge ◽  
Stephen M. Kwong ◽  
Neville Firth ◽  
Slade O. Jensen
Keyword(s):  
Mobile Genetic Elements ◽  
Bacterial Cells ◽  
Gram Positive ◽  
Bacterial Gene ◽  
Major Health ◽  
Gram Negative ◽  
Content Type ◽  
Genetic Elements ◽  
Gram Positive Bacteria ◽  
Integrative Conjugative Elements

SUMMARYStrains of bacteria resistant to antibiotics, particularly those that are multiresistant, are an increasing major health care problem around the world. It is now abundantly clear that both Gram-negative and Gram-positive bacteria are able to meet the evolutionary challenge of combating antimicrobial chemotherapy, often by acquiring preexisting resistance determinants from the bacterial gene pool. This is achieved through the concerted activities of mobile genetic elements able to move within or between DNA molecules, which include insertion sequences, transposons, and gene cassettes/integrons, and those that are able to transfer between bacterial cells, such as plasmids and integrative conjugative elements. Together these elements play a central role in facilitating horizontal genetic exchange and therefore promote the acquisition and spread of resistance genes. This review aims to outline the characteristics of the major types of mobile genetic elements involved in acquisition and spread of antibiotic resistance in both Gram-negative and Gram-positive bacteria, focusing on the so-called ESKAPEE group of organisms (Enterococcus faecium,Staphylococcus aureus,Klebsiella pneumoniae,Acinetobacter baumannii,Pseudomonas aeruginosa,Enterobacterspp., andEscherichia coli), which have become the most problematic hospital pathogens.

scholarly journals One Health genomic surveillance ofEscherichia colidemonstrates distinct lineages and mobile genetic elements in isolates from humans versus livestock

2018 ◽  
Author(s):  
Catherine Ludden ◽  
Kathy E. Raven ◽  
Dorota Jamrozy ◽  
Theodore Gouliouris ◽  
Beth Blane ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Bloodstream Infection ◽  
Resistance Genes ◽  
One Health ◽  
Core Genome ◽  
Mobile Genetic Elements ◽  
E Coli ◽  
Genetic Elements ◽  
Antimicrobial Resistance Genes ◽  
Livestock Farms

ABSTRACTLivestock have been proposed as a reservoir for drug-resistantEscherichia colithat infect humans. We isolated and sequenced 431E. coli(including 155 ESBL-producing isolates) from cross-sectional surveys of livestock farms and retail meat in the East of England. These were compared with the genomes of 1517E. coliassociated with bloodstream infection in the United Kingdom. Phylogenetic core genome comparisons demonstrated that livestock and patient isolates were genetically distinct, indicating thatE. colicausing serious human infection do not directly originate from livestock. By contrast, we observed highly related isolates from the same animal species on different farms. Analysis of accessory (variable) genomes identified a virulence cassette associated previously with cystitis and neonatal meningitis that was only present in isolates from humans. Screening all 1948 isolates for accessory genes encoding antibiotic resistance revealed 41 different genes present in variable proportions of humans and livestock isolates. We identified a low prevalence of shared antimicrobial resistance genes between livestock and humans based on analysis of mobile genetic elements and long-read sequencing. We conclude that in this setting, there was limited evidence to support the suggestion that antimicrobial resistant pathogens that cause serious infection in humans originate from livestock.ImportanceThe increasing prevalence ofE. colibloodstream infections is a serious public health problem. We used genomic epidemiology in a One Health study conducted in the East of England to examine putative sources ofE. coliassociated with serious human disease.E. colifrom 1517 patients with bloodstream infection were compared with 431 isolates from livestock farms and meat. Livestock-associated and bloodstream isolates were genetically distinct populations based on core genome and accessory genome analyses. Identical antimicrobial resistance genes were found in livestock and human isolates, but there was little overlap in the mobile elements carrying these genes. In addition, a virulence cassette found in humans isolates was not identified in any livestock-associated isolate. Our findings do not support the idea thatE. colicausing invasive disease or their resistance genes are commonly acquired from livestock.

scholarly journals Microevolution within ST11 group Clostridioides difficile isolates through mobile genetic elements based on complete genome sequencing

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Yuan Wu ◽  
Lin Yang ◽  
Wen-Ge Li ◽  
Wen Zhu Zhang ◽  
Zheng Jie Liu ◽  
...  
Keyword(s):  
Drug Resistance ◽  
Resistance Genes ◽  
Point Mutations ◽  
Evolutionary Process ◽  
Mobile Genetic Elements ◽  
Genetic Elements ◽  
Clostridioides Difficile ◽  
Hospitalized Elderly ◽  
Great Heterogeneity ◽  
High Level

Abstract Background Clade 5 Clostridioides difficile diverges significantly from the other clades and is therefore, attracting increasing attention due its great heterogeneity. In this study, we used third-generation sequencing techniques to sequence the complete whole genomes of three ST11 C. difficile isolates, RT078 and another two new ribotypes (RTs), obtained from three independent hospitalized elderly patients undergoing antibiotics treatment. Mobile genetic elements (MGEs), antibiotic-resistance, drug resistance genes, and virulent-related genes were analyzed and compared within these three isolates. Results Isolates 10,010 and 12,038 carried a distinct deletion in tcdA compared with isolate 21,062. Furthermore, all three isolates had identical deletions and point-mutations in tcdC, which was once thought to be a unique characteristic of RT078. Isolate 21,062 (RT078) had a unique plasmid, different numbers of transposons and genetic organization, and harboring special CRISPR spacers. All three isolates retained high-level sensitivity to 11 drugs and isolate 21,062 (RT078) carried distinct drug-resistance genes and loss of numerous flagellum-related genes. Conclusions We concluded that capillary electrophoresis based PCR-ribotyping is important for confirming RT078. Furthermore, RT078 isolates displayed specific MGEs, indicating an independent evolutionary process. In the further study, we could testify these findings with more RT078 isolates of divergent origins.

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