A novel community-acquired MRSA clone, USA300-LV/J, uniquely evolved in Japan

2020 ◽  
Vol 75 (11) ◽  
pp. 3131-3134
Author(s):  
Shunsuke Takadama ◽  
Hidemasa Nakaminami ◽  
Hiroshi Kaneko ◽  
Norihisa Noguchi
Keyword(s):  
Latin American ◽  
Type Strain ◽  
Mobile Genetic Element ◽  
Mobile Element ◽  
Whole Genome Sequence ◽  
Mercury Resistance ◽  
Genetic Element ◽  
Arginine Catabolic Mobile Element ◽  
Strain Genome ◽  
Staphylococcal Cassette Chromosome

Abstract Background USA300 [ST8-staphylococcal cassette chromosome mec type IVa (ST8-IVa)/arginine catabolic mobile element (ACME) positive] is a major Panton–Valentine leucocidin (PVL)-positive community-acquired MRSA (CA-MRSA) clone. In Japan, we identified USA300-like strains with characteristics (ST8-IVc/ACME negative) similar to those of USA300. Objectives To reveal the evolution of the USA300-like strains. Methods The whole-genome sequence of a USA300-like strain was determined and genome analysis was performed using Type Strain Genome Server, MUSCLE and progressiveMauve. Results Genome-based phylogenetic analysis showed that the USA300-like strain is more similar to the USA300-Latin American variant (USA300-LV), which is a PVL-positive CA-MRSA clone identified in South America, than to USA300. Instead of the ACME, copper and mercury resistance mobile elements were located on the genome of the USA300-like strain. In addition, the USA300-like strain possessed a unique mobile genetic element, ICE6013. Therefore, we named this novel USA300-LV variant identified in Japan as USA300-LV/J. Conclusions Our findings strongly suggest that a PVL-positive CA-MRSA USA300-LV/J clone originating from abroad has uniquely evolved and disseminated in Japan.

scholarly journals Whole-genome sequence analysis reveals evolution of antimicrobial resistance in a Ugandan colistin resistant Acinetobacter baumannii

2020 ◽  
Author(s):  
Dickson Aruhomukama ◽  
Ivan Sserwadda ◽  
Gerald Mboowa
Keyword(s):  
Antibiotic Resistance ◽  
Acinetobacter Baumannii ◽  
Resistance Genes ◽  
Mobile Genetic Element ◽  
Whole Genome Sequence ◽  
Broad Host Range ◽  
Insertion Sequences ◽  
Drug Resistant ◽  
Genetic Element ◽  
Resistance Evolution

AbstractIn recent times, pan-drug resistant Acinetobacter baumannii have emerged and continue to spread among critically ill patients, this poses an urgent risk to global and local human health. This study sought to provide the first genomic analysis of a pan-drug resistant Acinetobacter baumannii from Uganda and Africa, and to tell a story of mobile genetic element-mediated antibiotic resistance evolution in the isolate. It was an in-silico study in which intrinsic and acquired antibiotic resistance genes, and/or chromosomal resistance mutations were identified using PATRIC, CARD, NDARO and ResFinder. Screening for insertion sequences was done using ISfinder. Also, plasmid screening, phylogenetic analysis and sequence typing were performed using PlasmidFinder, PATRIC and Gubbin, and MLST respectively.The isolate belonged to the Sequence type 136, belonging to Clonal complex 208 and Global complex 2. This isolate shared close homology with strains from Tanzania. Resistance in the isolate was chromosomally and mobile genetic element-mediated by Acinetobacter-derived cephalosporinases and carbapenem hydrolyzing class D β-lactamses, blaOXA-2, 51, 5 88, 317, blaADC-2, 25. Colistin resistance was associated with previously documented mutants, lpxA and lpxC. Other key resistance genes identified were: aph(3”)-lb, aph(6)-ld, aph(3’)-la, aac(3)-lld, aac(3)-lla, aph(3’)-l, aph(3”)-l, aph(6)-lc, aph(6)-ld, aac(3)-II, III, IV, VI, VIII, IX, X, macA, macB, tetA, tetB, tetR, dfrA, and those of the floR family. RSF1010 like IncQ broad-host-range plasmids and features of pACICU1, pACICU2, and p3ABAYE Acinetobacter baumannii plasmids namely partitioning proteins ParA and B were present. Insertion sequences present included IS3, IS5, IS66 and those of the ISLre2 families.The study described for the first time a pan-drug resistant Acinetobacter baumannii from Uganda, and told a story of mobile genetic element-mediated antibiotic resistance evolution in the isolate despite being limited by pan-drug resistance phenotypic data. It provides a basis to track trends in antibiotic resistance and identification of emerging resistance patterns in Acinetobacter baumannii in Uganda.

scholarly journals Identification in Methicillin-Susceptible Staphylococcus hominis of an Active Primordial Mobile Genetic Element for the Staphylococcal Cassette Chromosome mec of Methicillin-Resistant Staphylococcus aureus

2003 ◽  
Vol 185 (9) ◽  
pp. 2711-2722 ◽  
Author(s):  
Yuki Katayama ◽  
Fumihiko Takeuchi ◽  
Teruyo Ito ◽  
Xiao Xue Ma ◽  
Yoko Ui-Mizutani ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Resistance Gene ◽  
Mobile Genetic Element ◽  
Methicillin Resistance ◽  
Type I ◽  
Genetic Element ◽  
Methicillin Resistant ◽  
Staphylococcus Hominis ◽  
Staphylococcal Cassette Chromosome

ABSTRACT We previously reported that the methicillin resistance gene mecA is carried by a novel type of mobile genetic element, SCCmec (staphylococcal cassette chromosome mec), in the chromosome of methicillin-resistant Staphylococcus aureus (MRSA). These elements are precisely excised from the chromosome and integrated into a specific site on the recipient chromosome by a pair of recombinase proteins encoded by the cassette chromosome recombinase genes ccrA and ccrB. In the present work, we detected homologues of the ccr genes in Staphylococcus hominis type strain GIFU12263 (equivalent to ATCC 27844), which is susceptible to methicillin. Sequence determination revealed that the ccr homologues in S. hominis were type 1 ccr genes (ccrA1 and ccrB1) that were localized on a genetic element structurally very similar to SCCmec except for the absence of the methicillin-resistance gene, mecA. This genetic element had mosaic-like patterns of homology with extant SCCmec elements, and we designated it SCC12263 and considered it a type I staphylococcal cassette chromosome (SCC). The ccrB1 gene identified in the S. hominis strain is the first type 1 ccrB gene discovered to retain its function through the excision process as judged by two criteria: (i) SCC12263 was spontaneously excised during cultivation of the strain and (ii) introduction of the S. hominis ccrB1 into an MRSA strain carrying a type I SCCmec whose ccrB1 gene is inactive generated SCCmec excisants at a high frequency. The existence of an SCC without a mec determinant is indicative of a staphylococcal site-specific mobile genetic element that serves as a vehicle of transfer for various genetic markers between staphylococcal species.

scholarly journals Novel Structures and Temporal Changes of Arginine Catabolic Mobile Elements in Methicillin-Resistant Staphylococcus aureus Genotypes ST5-MRSA-II and ST764-MRSA-II in Japan

2016 ◽  
Vol 60 (5) ◽  
pp. 3119-3122 ◽  
Author(s):  
Noriko Urushibara ◽  
Mitsuyo Kawaguchiya ◽  
Mayumi Onishi ◽  
Keiji Mise ◽  
Meiji Soe Aung ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Methicillin Resistant Staphylococcus Aureus ◽  
Mobile Element ◽  
Selective Advantage ◽  
Type Ii ◽  
Methicillin Resistant ◽  
Content Type ◽  
Arginine Catabolic Mobile Element ◽  
Novel Structures ◽  
Staphylococcal Cassette Chromosome

ABSTRACTTwenty-two of 1,103 methicillin-resistantStaphylococcus aureus(MRSA) isolates containing the type II staphylococcal cassette chromosomemecelement (SCCmec) (collected in Hokkaido, Japan, from 2008 to 2011) harbored the arginine catabolic mobile element (ACME). Five genetic variations were identified in the ACME-staphylococcal cassette chromosomemeccomposite islands, 66 to 79 kb in size. The percentage of ACME carriage temporally increased from 0.85% to 4.5% in parallel with the emergence of shorter variants (66 to 72 kb). Shorter variants may have a selective advantage and accelerate the dissemination of ACME in Japanese MRSA.

scholarly journals Evolutionary Models of the Emergence of Methicillin-Resistant Staphylococcus aureus

2003 ◽  
Vol 47 (12) ◽  
pp. 3926-3934 ◽  
Author(s):  
D. Ashley Robinson ◽  
Mark C. Enright
Keyword(s):  
Staphylococcus Aureus ◽  
Mobile Genetic Element ◽  
Methicillin Resistant Staphylococcus Aureus ◽  
Methicillin Resistance ◽  
Evolutionary Models ◽  
Genetic Element ◽  
Methicillin Resistant ◽  
Type Iv ◽  
Hospital Acquired ◽  
Staphylococcal Cassette Chromosome

ABSTRACT Five major lineages of methicillin-resistant Staphylococcus aureus (MRSA) have evolved since the introduction of methicillin for the treatment of infections caused by penicillin-resistant S. aureus in 1959. The clones of these lineages are responsible for the vast majority of hospital-acquired MRSA disease globally. We have constructed high-resolution evolutionary models for each lineage using a parsimony approach with 15 partial gene sequences from 147 geographically diverse isolates. On the basis of these models, we infer that MRSA has emerged at least 20 times upon acquisition of the methicillin resistance determinant, which is carried on a mobile genetic element called the staphylococcal cassette chromosome mec (SCCmec). The acquisition of SCCmec by sensitive clones was four times more common than the replacement of one SCCmec with another. Notably, SCCmec type IV was found in twice as many clones as any other SCCmec type, and it is this SCCmec type which is commonly found in clones from patients with community-acquired MRSA disease. Our findings suggest that most clones of MRSA arise by the acquisition of SCCmec type IV by methicillin-sensitive isolates.

scholarly journals Novel Organization of the Arginine Catabolic Mobile Element and Staphylococcal Cassette ChromosomemecComposite Island and Its Horizontal Transfer between Distinct Staphylococcus aureus Genotypes

2013 ◽  
Vol 57 (11) ◽  
pp. 5774-5777 ◽  
Author(s):  
Artur J. Sabat ◽  
Robin Köck ◽  
Viktoria Akkerboom ◽  
Ron Hendrix ◽  
Robert L. Skov ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Nucleotide Sequence ◽  
Mobile Element ◽  
Whole Genome ◽  
Type Ii ◽  
Content Type ◽  
Arginine Catabolic Mobile Element ◽  
Identical Nucleotide ◽  
Identical Nucleotide Sequence ◽  
Staphylococcal Cassette Chromosome

ABSTRACTIn this study, 425 methicillin-resistantStaphylococcus aureus(MRSA) isolates recovered in the Dutch-German Euregio were investigated for the presence of the arginine catabolic mobile element (ACME). Sequence analysis by whole-genome sequencing revealed an entirely new organization of the ACME-staphylococcal cassette chromosomemeccomposite island (SCCmec-CI), with truncated ACME type II located downstream of SCCmec. An identical nucleotide sequence of ACME-SCCmec-CI was found in two distinct MRSA lineages (t064-ST8 and t002-ST5), which has not been reported previously inS. aureus.

scholarly journals A putative mobile genetic element carrying a novel type IIF restriction-modification system (PluTI)

2010 ◽  
Vol 38 (9) ◽  
pp. 3019-3030 ◽  
Author(s):  
Feroz Khan ◽  
Yoshikazu Furuta ◽  
Mikihiko Kawai ◽  
Katarzyna H. Kaminska ◽  
Ken Ishikawa ◽  
...  
Keyword(s):  
Mobile Genetic Element ◽  
Genetic Element ◽  
Modification System ◽  
Restriction Modification System ◽  
Restriction Modification
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