scholarly journals Emergence of rare carbapenemases (FRI, GES-5, IMI, SFC, and SFH-1) in Enterobacterales isolated from surface waters in Japan

2021 ◽  
Author(s):  
Ryota Gomi ◽  
Yasufumi Matsumura ◽  
Michio Tanaka ◽  
Masaru Ihara ◽  
Yoshinori Sugie ◽  
...  
Keyword(s):  
Surface Waters ◽  
Carbapenem Resistance ◽  
Genomic Islands ◽  
Aquatic Environments ◽  
Genetic Determinants ◽  
Environmental Waters ◽  
Class 1 Integron ◽  
Genetic Characteristics ◽  
Class 1 ◽  
Potential Reservoir

ABSTRACTObjectivesCarbapenemase-producing Enterobacterales (CPE) pose serious threats to public health. Compared with clinical CPE, the genetic characteristics of environmental CPE are not well understood. This study aimed to characterize the genetic determinants of carbapenem resistance in CPE isolated from environmental waters in Japan.MethodsEighty-five water samples were collected from rivers and a lake in Japan. CPE were identified using selective media, and genome sequencing was performed for the obtained isolates (n = 21).ResultsVarious rare/novel carbapenemases were identified: GES-5 in Raoultella planticola (n = 1), FRI-8 and FRI-11 in Enterobacter spp. (n = 8), IMI-22 and IMI-23 in Serratia ureilytica (n = 3), and SFC-1, SFC-2 and SFH-1 in Serratia fonticola (n = 9). Genomes of 11 isolates could be closed, allowing the elucidation of the genetic contexts of the carbapenemase genes. The blaGES-5 gene was located within a class 1 integron, In2071 (cassette array, blaGES-5-aacA3-aadA16), on a 33 kb IncP6 plasmid. The blaFRI-8 genes were carried on IncFII(Yp) plasmids ranging in size from 191 kb to 244 kb, and the blaFRI-11 genes were carried on 70 kb and 74 kb IncFII(pECLA)/IncR plasmids. The blaIMI-22 and blaIMI-23 genes were colocated on a 107 kb plasmid. The blaSFC and blaSFH-1 genes were found on putative genomic islands inserted at tRNA-Phe genes in chromosomes.ConclusionsThis study revealed the presence of rare/novel carbapenemases among CPE in aquatic environments, suggesting that the environment may act as a potential reservoir of these minor carbapenemases.

scholarly journals SGI0, a relative of Salmonella genomic islands SGI1 and SGI2, lacking a class 1 integron, found in Proteus mirabilis

Plasmid ◽  
2020 ◽  
Vol 107 ◽  
pp. 102453 ◽  
Author(s):  
Claire de Curraize ◽  
Eliane Siebor ◽  
Catherine Neuwirth ◽  
Ruth M. Hall
Keyword(s):  
Proteus Mirabilis ◽  
Genomic Islands ◽  
Class 1 Integron ◽  
Class 1

scholarly journals Molecular Epidemiology of Clinical Isolates of Carbapenem-Resistant Acinetobacter spp. from Chinese Hospitals

2007 ◽  
Vol 51 (11) ◽  
pp. 4022-4028 ◽  
Author(s):  
Hui Wang ◽  
Ping Guo ◽  
Hongli Sun ◽  
He Wang ◽  
Qiwen Yang ◽  
...  
Keyword(s):  
Molecular Epidemiology ◽  
Restriction Analysis ◽  
Carbapenem Resistance ◽  
Clinical Isolates ◽  
Teaching Hospitals ◽  
Class 1 Integron ◽  
Carbapenemase Gene ◽  
Class 1 ◽  
Clonal Spread ◽  
High Level

ABSTRACT Carbapenem resistance in Acinetobacter spp. is an emerging problem in China. We investigated the molecular epidemiology and carbapenemase genes of 221 nonrepetitive imipenem-resistant clinical isolates of Acinetobacter spp. collected from 1999 to 2005 at 11 teaching hospitals in China. Genotyping by pulsed-field gel electrophoresis (PFGE) found 15 PFGE patterns. Of these, one (clone P) was identified at four hospitals in Beijing and another (clone A) at four geographically disparate cities. Most imipenem-resistant isolates exhibited high-level resistance to all β-lactams and were only susceptible to colistin. bla OXA-23-like genes were found in 97.7% of isolates. Sequencing performed on 60 representative isolates confirmed the presence of the bla OXA-23 carbapenemase gene. Analysis of the genetic context of bla OXA-23 showed the presence of ISAba1 upstream of bla OXA-23. All of the 187 A. baumannii isolates identified by amplified RNA gene restriction analysis carried a bla OXA-51-like oxacillinase gene, while this gene was absent from isolates of other species. Sequencing indicated the presence of bla OXA-66 for 18 representative isolates. Seven isolates of one clone (clone T) carried the plasmid-mediated bla OXA-58 carbapenemase gene, while one isolate of another clone (clone L) carried the bla OXA-72 carbapenemase gene. Only 1 isolate of clone Q carried the bla IMP-8 metallo-β-lactamase gene, located in a class 1 integron. Of 221 isolates, 77.8% carried bla PER-1-like genes. Eleven different structures of class 1 integrons were detected, and most integrons carried genes mediating resistance to aminoglycosides, rifampin, and chloramphenicol. These findings indicated clonal spread of imipenem-resistant Acinetobacter spp. and wide dissemination of the OXA-23 carbapenemase in China.

Antimicrobial resistance, plasmids and class 1 and 2 integrons occurring in Pseudomonas aeruginosa isolated from Brazilian aquatic environments

2013 ◽  
Vol 67 (5) ◽  
pp. 1144-1149 ◽  
Author(s):  
Maria Olívia Zanetti ◽  
Vinicius Vicente Martins ◽  
André Pitondo-Silva ◽  
Eliana Guedes Stehling
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Antibiotic Resistance ◽  
Antibiotic Resistance Genes ◽  
Aquatic Environments ◽  
Resistance Plasmids ◽  
Class 1 ◽  
Potential Reservoir ◽  
Polymerase Chain ◽  
The University ◽  
City Park

Pseudomonas aeruginosa is an important nosocomial pathogen also found in water, soil, plants and in human and animal fecal samples. In this study, 31 isolates from water samples were analyzed by enterobacterial repetitive intergenic consensus-polymerase chain reaction (ERIC-PCR) and PCR to detect integrons and investigated for antibiotic resistance and plasmidial profile. The results demonstrated the presence of plasmids in four isolates. Three of these, isolates from water in a city park (Curupira Park, Ribeirão Preto, Brazil) and a lake at the University of São Paulo (Campus of Ribeirão Preto), had plasmids with the same molecular weight (21MDa) and similar resistance profiles, although they were shown to be genetically different by ERIC-PCR. Class 1 and class 2 integrons were detected in one of these isolates. The results suggest that environmental P. aeruginosa strains may be a potential reservoir of plasmids and antibiotic resistance genes.

scholarly journals Klebsiella pneumoniae blaNDM-1 carrying a class 1 integron causing a hospital outbreak in a Mexican attention center

2021 ◽  
Vol 15 (05) ◽  
pp. 657-664
Author(s):  
Iliana Alejandra Cortés-Ortíz ◽  
Julio Cesar Juárez-Gómez ◽  
Concepción Cu-Quijano ◽  
Rocio Flores-Paz ◽  
Emilio Mariano Durán-Manuel ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
Variable Region ◽  
Epidemiological Surveillance ◽  
Resistant Bacteria ◽  
Rrna Gene ◽  
High Morbidity ◽  
Class 1 Integron ◽  
Genetic Characteristics ◽  
Extended Spectrum ◽  
Class 1

Introduction: Infections acquired in hospitals are the cause of high morbidity and mortality and with the emergence of resistant bacteria, the problem is greater. The aim of this work was to determine the genetic characteristics and timeline of Klebsiella pneumoniae blaNDM-1 carrying a class 1 integron involved in an intrahospital outbreak. Methodology: Investigation was made from the first detection of K. pneumoniae blaNDM-1, strain “466”, and the last clone “423”. 16S rRNA gene analysis showed that 466 strain and clones were related to K. pneumoniae. Extended-spectrum β-lactamases (ESBL) was detected according to the Clinical and Laboratory Standards Institute (CLSI) and real time-PCR. Typing of K. pneumoniae blaNDM-1 strains was carried by ERIC-PCR and sequencing the variable region of the integrons were performed. Results: A cluster of six resistant isolates of K. pneumoniae blaNDM-1 was detected in intensive care unit (ICU), internal medicine (IM) and orthopedics (OT). Timeline revealed that the first bacterial identification was in ICU and the last clone in OT service. The array genetic of variable region was “IntI/aadA5-drfA17/qacEΔ1-Sul1”. Conclusions: The evidences highlight the importance of the epidemiological surveillance of Extended-spectrum β-lactamases (ESBL) strains, as well as the need for molecular epidemiological studies to identify the routes of transmission and the contamination sources within health personnel.

scholarly journals Emergence of OXA-10 and OXA-48 like carbapenemases among Enterobacter isolates from inpatients in southern Iran

2021 ◽  
Author(s):  
Melika Moradi ◽  
Reza Khashei ◽  
Yalda Malekzadegan ◽  
Jamal Sarvari
Keyword(s):  
Carbapenem Resistance ◽  
Common Species ◽  
Resistance Rate ◽  
Health Concern ◽  
Multi Drug Resistance ◽  
Class 1 Integron ◽  
Carbapenem Resistant ◽  
Microbiological Methods ◽  
Global Spread ◽  
Class 1

Abstract Background The global spread of carbapenemase-producing Enterobacteriaceae represents a public health concern. The aim of this study was to investigate prevalence of carbapenem resistance, oxacillinase types and the presence of class 1–3 integrons among Enterobacter clinical isolates from an Iranian inpatients’ population. Methods Ninety Enterobacter isolates recovered from hospitalized patients were diagnosed by the standard microbiological methods. Antibiogram pattern was also determined. The presence of class 1–3 integrons and four types of oxacillinase genes were assessed using PCR. Results Of the 90 Enterobacter isolates, the most common species was identified as E. aerogenes, (45.6%), followed by E. cloacae (30%). The highest resistance rate was against to ampicillin (96.7%). Multi-drug resistance (MDR) was substantial (93%). Carbapenemase producers were detected in 96% of carbapenem resistant isolates by mCIM test. The frequency of evaluated genes was as follows: intI1 = 50 (55.6%), intI2 = 12 (13.3%), blaoxa−1 =6 (6.7%), blaoxa−2 =5 (5.6%), blaoxa−10 =18 (20%), and blaoxa−48 =18 (20%). Conclusion The determinants of class 1 integron with OXA-10 and OXA-48 like carbapememases have been responsible of relatively considerable of carbapenem resistance among isolates. This is the first OXA-10 and OXA-48-producing Enterobacter spp. in Iran, indicating that the prevalence of oxacillinases might be on the rise in country.

scholarly journals Novel Acquired Metallo-β-Lactamase Gene, blaSIM-1, in a Class 1 Integron from Acinetobacter baumannii Clinical Isolates from Korea

2005 ◽  
Vol 49 (11) ◽  
pp. 4485-4491 ◽  
Author(s):  
Kyungwon Lee ◽  
Jong Hwa Yum ◽  
Dongeun Yong ◽  
Hyuk Min Lee ◽  
Heung Dong Kim ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Tertiary Care ◽  
Carbapenem Resistance ◽  
Gene Cassette ◽  
Clinical Isolates ◽  
Care Hospital ◽  
Class 1 Integron ◽  
Class 1 ◽  
Broad Array ◽  
Tract Infections

ABSTRACT Carbapenem resistance mediated by acquired carbapenemase genes has been increasingly reported, particularly for clinical isolates of Pseudomonas aeruginosa and Acinetobacter spp. Of 1,234 nonduplicate isolates of carbapenem-resistant Pseudomonas spp. and Acinetobacter spp. isolated at a tertiary-care hospital in Seoul, Korea, 211 (17%) were positive for metallo-β-lactamase (MBL). Of these, 204 (96%) had either the bla IMP-1 or bla VIM-2 allele. In addition, seven Acinetobacter baumannii isolates were found to have a novel MBL gene, which was designated bla SIM-1. The SIM-1 protein has a pI of 7.2, is a new member of subclass B1, and exhibits 64 to 69% identity with the IMP-type MBLs, which are its closest relatives. All SIM-1-producing isolates exhibited relatively low imipenem and meropenem MICs (8 to 16 μg/ml) and had a multidrug resistance phenotype. Expression of the cloned bla SIM-1 gene in Escherichia coli revealed that the encoded enzyme is capable of hydrolyzing a broad array of β-lactams, including penicillins, narrow- to expanded-spectrum cephalosporins, and carbapenems. The bla SIM-1 gene was carried on a gene cassette inserted into a class 1 integron, which included three additional cassettes (arr-3, catB3, and aadA1). The strains were isolated from sputum and urine specimens from patients with pneumonia and urinary tract infections, respectively. All patients had various underlying diseases. Pulsed-field gel electrophoresis of SmaI-digested genomic DNAs showed that the strains belonged to two different clonal lineages, indicating that horizontal transfer of this gene had occurred and suggesting the possibility of further spread of resistance in the future.

scholarly journals Salmonella Genomic Island 1 is Broadly Disseminated within Gammaproteobacteriaceae

2020 ◽  
Vol 8 (2) ◽  
pp. 161 ◽  
Author(s):  
Max Laurence Cummins ◽  
Mohammad Hamidian ◽  
Steven Philip Djordjevic
Keyword(s):  
Escherichia Coli ◽  
Genomic Island ◽  
Multiple Drug Resistance ◽  
Genomic Islands ◽  
Multiple Drug ◽  
Class 1 Integron ◽  
The United Kingdom ◽  
Class 1 ◽  
Providencia Stuartii ◽  
Conserved Gene

Salmonella genomic island 1 (SGI1) is an integrative mobilisable element that plays an important role in the capture and spread of multiple drug resistance. To date, SGI1 has been found in clinical isolates of Salmonella enterica serovars, Proteus mirabilis, Morganella morganii, Acinetobacter baumannii, Providencia stuartii, Enterobacter spp, and recently in Escherichia coli. SGI1 preferentially targets the 3´-end of trmE, a conserved gene found in the Enterobacteriaceae and among members of the Gammaproteobacteria. It is, therefore, hypothesised that SGI1 and SGI1-related elements (SGI1-REs) may have been acquired by diverse bacterial genera. Here, Bitsliced Genomic Signature Indexes (BIGSI) was used to screen the NCBI Sequence Read Archive (SRA) for putative SGI1-REs in Gammaproteobacteria. Novel SGI-REs were identified in diverse genera including Cronobacter spp, Klebsiella spp, and Vibrio spp and in two additional isolates of Escherichia coli. An extensively drug-resistant human clonal lineage of Klebsiella pneumoniae carrying an SGI1-RE in the United Kingdom and an SGI1-RE that lacks a class 1 integron were also identified. These findings provide insight into the origins of this diverse family of clinically important genomic islands and expand the knowledge of the potential host range of SGI1-REs within the Gammaproteobacteria.

scholarly journals Two New SGI1-LK Variants Found in Proteus mirabilis and Evolution of the SGI1-HKL Group of Salmonella Genomic Islands

mSphere ◽  
2020 ◽  
Vol 5 (2) ◽  
Author(s):  
Claire de Curraize ◽  
Eliane Siebor ◽  
Véronique Varin ◽  
Catherine Neuwirth ◽  
Ruth M. Hall
Keyword(s):  
Homologous Recombination ◽  
Proteus Mirabilis ◽  
Salmonella Enterica ◽  
Genomic Islands ◽  
Class 1 Integron ◽  
Antibiotic Resistant ◽  
Content Type ◽  
Novel Variants ◽  
Class 1 ◽  
Complex Forms

ABSTRACT Integrative mobilizable elements belonging to the SGI1-H, -K, and -L Salmonella genomic island 1 (SGI1) variant groups are distinguished by the presence of an alteration in the backbone (IS1359 replaces 2.8 kb of the backbone extending from within traN [S005] to within S009). Members of this SGI1-HKL group have been found in Salmonella enterica serovars and in Proteus mirabilis. Two novel variants from this group, designated SGI1-LK1 and SGI1-LK2, were found in the draft genomes of antibiotic-resistant P. mirabilis isolates from two French hospitals. Both variants can be derived from SGI1-PmGUE, a configuration found previously in another P. mirabilis isolate from France. SGI1-LK1 could arise via an IS26-mediated inversion in the complex class 1 integron that duplicated the IS26 element and the target site in IS6100. SGI1-LK1 also has a larger 8.59-kb backbone deletion extending from traN to within S013 and removing traG and traH. However, SGI1-LK1 was mobilized by an IncC plasmid. SGI1-LK2 can be derived from a hypothetical progenitor, SGI1-LK0, that is related to SGI1-PmGUE but lacks the aphA1 gene and one copy of IS26. The integron of SGI1-LK2 could arise via deletion of DNA adjacent to an IS26 and a deletion occurring via homologous recombination between duplicated copies of part of the integron 3′-conserved segment. SGI1-K can also be derived from SGI1-LK0. This would involve an IS26-mediated deletion and an inversion via homologous recombination of a segment between inversely oriented IS26s. Similar events can explain the configuration of the integrons in other SGI1-LK variants. IMPORTANCE Members of the SGI1-HKL subgroup of SGI1-type integrative mobilizable elements have a characteristic alteration in their backbone. They are widely distributed among multiply antibiotic-resistant Salmonella enterica serovars and Proteus mirabilis isolates. The SGI1-K type, found in the globally disseminated multiply antibiotic-resistant Salmonella enterica serovar Kentucky clone ST198 (sequence type 198), and various configurations in the original SGI1-LK group, found in other multiresistant S. enterica serovars and Proteus mirabilis isolates, have complex and highly plastic resistance regions due to the presence of IS26. However, how these complex forms arose and the relationships between them had not been analyzed. Here, a hypothetical progenitor, SGI1-LK0, that can be formed from the simpler SGI1-H is proposed, and the pathways to the formation of new variants, SGI1-LK1 and SGI1-LK2, found in P. mirabilis and other reported configurations via homologous recombination and IS26-mediated events are proposed. This led to a better understanding of the evolution of the SGI1-HKL group.

scholarly journals Molecular Epidemiology and Genetic Characteristics of VariousblaPERGenes in Shanghai, China

2016 ◽  
Vol 60 (6) ◽  
pp. 3849-3853 ◽  
Author(s):  
Lianyan Xie ◽  
Jun Wu ◽  
Fangfang Zhang ◽  
Lizhong Han ◽  
Xiaokui Guo ◽  
...  
Keyword(s):  
Proteus Mirabilis ◽  
Inverted Repeat ◽  
Transmission Mechanism ◽  
The Other ◽  
Complex Class ◽  
Class 1 Integron ◽  
Genetic Characteristics ◽  
Gram Negative ◽  
Content Type ◽  
Class 1

We describe the genetic characteristics and possible transmission mechanism ofblaPERin 25 clinical Gram-negative bacilli in Shanghai.blaPER, includingblaPER-1,blaPER-3, andblaPER-4, was located chromosomally or in different plasmids. Tn1213harboringblaPER-1was first identified in twoProteus mirabilisisolates in China. The otherblaPERvariants were preceded by an ISCR1element inside the complex class 1 integron associated with IS26, Tn21, Tn1696, and a miniature inverted-repeat transposable element.

scholarly journals The Complete Nucleotide Sequence of the Carbapenem Resistance-Conferring Conjugative Plasmid pLD209 from a Pseudomonas putida Clinical Strain Reveals a Chimeric Design Formed by Modules Derived from Both Environmental and Clinical Bacteria

2014 ◽  
Vol 58 (3) ◽  
pp. 1816-1821 ◽  
Author(s):  
Patricia M. Marchiaro ◽  
Luciano Brambilla ◽  
Jorgelina Morán-Barrio ◽  
Santiago Revale ◽  
Fernando Pasteran ◽  
...  
Keyword(s):  
Pseudomonas Putida ◽  
Carbapenem Resistance ◽  
Complete Sequence ◽  
Conjugative Plasmid ◽  
Clinical Strain ◽  
Class 1 Integron ◽  
Content Type ◽  
Class 1 ◽  
Environmental Bacteria ◽  
Replication Module

ABSTRACTThe complete sequence of the carbapenem-resistance-conferring conjugative plasmid pLD209 from aPseudomonas putidaclinical strain is presented. pLD209 is formed by 3 well-defined regions: an adaptability module encompassing a Tn402-like class 1 integron of clinical origin containingblaVIM-2andaacA4gene cassettes, partitioning and transfer modules, and a replication module derived from plasmids of environmental bacteria. pLD209 is thus a mosaic of modules originating in both the clinical and environmental (nonclinical) microbiota.

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