scholarly journals AbGRI4, a novel antibiotic resistance island in multiply antibiotic-resistant Acinetobacter baumannii clinical isolates

2020 ◽  
Vol 75 (10) ◽  
pp. 2760-2768 ◽  
Author(s):  
Agnes P Chan ◽  
Yongwook Choi ◽  
Thomas H Clarke ◽  
Lauren M Brinkac ◽  
Richard C White ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Insertion Site ◽  
Clinical Isolates ◽  
Genomic Context ◽  
Class 1 Integron ◽  
Antibiotic Resistant ◽  
Short Reads ◽  
Class 1 ◽  
Assembly Technology ◽  
Resistance Island

Abstract Objectives To investigate the genomic context of a novel resistance island (RI) in multiply antibiotic-resistant Acinetobacter baumannii clinical isolates and global isolates. Methods Using a combination of long and short reads generated from the Oxford Nanopore and Illumina platforms, contiguous chromosomes and plasmid sequences were determined. BLAST-based analysis was used to identify the RI insertion target. Results Genomes of four multiply antibiotic-resistant A. baumannii clinical strains, from a US hospital system, belonging to prevalent MLST ST2 (Pasteur scheme) and ST281 (Oxford scheme) clade F isolates were sequenced to completion. A class 1 integron carrying aadB (tobramycin resistance) and aadA2 (streptomycin/spectinomycin resistance) was identified. The class 1 integron was 6.8 kb, bounded by IS26 at both ends, and embedded in a new target location between an α/β-hydrolase and a reductase. Due to its novel insertion site and unique RI composition, we suggest naming this novel RI AbGRI4. Molecular analysis of global A. baumannii isolates identified multiple AbGRI4 RI variants in non-ST2 clonal lineages, including variations in the resistance gene cassettes, integron backbone and insertion breakpoints at the hydrolase gene. Conclusions A novel RI insertion target harbouring a class 1 integron was identified in a subgroup of ST2/ST281 clinical isolates. Variants of the RI suggested evolution and horizontal transfer of the RI across clonal lineages. Long- and short-read hybrid assembly technology completely resolved the genomic context of IS-bounded RIs, which was not possible using short reads alone.

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.

Novel cassette array in a class 1 integron in clinical isolates of Acinetobacter baumannii from central Iran

2013 ◽  
Vol 303 (8) ◽  
pp. 645-650 ◽  
Author(s):  
Alireza Japoni-Nejad ◽  
Shohreh Farshad ◽  
Alex van Belkum ◽  
Ehsanollah Ghaznavi-Rad
Keyword(s):  
Acinetobacter Baumannii ◽  
Central Iran ◽  
Clinical Isolates ◽  
Class 1 Integron ◽  
Class 1

scholarly journals Prevalence of Class 1 Integron among Multidrug-Resistant Acinetobacter baumannii in Tabriz, Northwest of Iran

2012 ◽  
Vol 61 (1) ◽  
pp. 57-60 ◽  
Author(s):  
AMIR PEYMANI ◽  
SAFAR FARAJNIA ◽  
MOHAMMAD REZA NAHAEI ◽  
NASROLLAH SOHRABI ◽  
LALEH ABBASI ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Multidrug Resistant ◽  
Clinical Isolates ◽  
Beta Lactam ◽  
Class 1 Integron ◽  
First Report ◽  
Class 1 Integrons ◽  
Class 1 ◽  
Northwest Of Iran ◽  
Pcr Method

Integrons are associated with a variety of gene cassettes, which confer resistance to multiple classes of antibacterial drugs. In this study we tested the frequency of class 1 and 2 integrons among multidrug-resistant Acinetobacter baumannii (MDRAB) clinical isolates. One hundred clinical isolates of A. baumannii were screened for carriage of class 1 and 2 integrons by PCR method. Results showed that seventy four (92.5%) of 80 MDRAB carried class 1 integron. Integron-positive isolates were statistically more resistant to aminoglycoside, quinolone and beta-lactam compounds except for cefepime. This is the first report of class 1 integrons in MDRAB isolates in northwest Iran.

scholarly journals Class 1 integron element in Thai Acinetobacter baumannii reveals a linkage to the European clone I

2012 ◽  
Vol 1 (1) ◽  
pp. 24-28
Author(s):  
B Thapa ◽  
C Tribuddharat ◽  
S Srifuengfung ◽  
C Dhiraputra
Keyword(s):  
Acinetobacter Baumannii ◽  
Blot Hybridization ◽  
Variable Region ◽  
Southern Blot Hybridization ◽  
Multidrug Resistant ◽  
Dot Blot ◽  
Class 1 Integron ◽  
Integrase Gene ◽  
Class 1 ◽  
Resistance Island

BACKGROUND: Class 1 integron element is innate to most of the multidrug resistant Acinetobacter baumannii and its spread is common among international clones worldwide. The aim of this study was to document the presence of blaVEB-1 harboring class 1 integron element and its gene cassettes in Thai A. baumannii in relation to A. baumannii European clone I, AYE strain. MATERIALS AND METHODS: Thirty seven carbapenem resistant A. baumannii isolates identified in routine microbiology laboratory of Siriraj Hospital, Bangkok were studied. The dot blot hybridization was performed to detect class 1 integron element integrase gene. PCR was used to amplify blaVEB-1, arr2, cmlA, blaOXA-10 resistance cassettes, and variable region of class 1 integron element. blaVEB-1 gene was localized by southern blot hybridization. RESULTS: The prevalence of class 1 integron element was 86.48% in the isolates studied. The blaVEB-1 was present in 7 isolates however the location of blaVEB-1 gene was different in different isolate. Four isolates (Ab03-168, Ab04-28, Ab08-20, and Ab08-22) harbored calss 1 integron element variable region sized 5.5 kb as described in strain AYE. However, blaVEB-1 was only amplified from Ab03-168. The cassette organization in this isolate was 5’CS-aadB-blaVEB-1-arr2-cmlA-blaOXA- 10-aadA1-3’CS. The class 1 integron element similar to the element identified in genomic resistance island, AbaRI of European clone I, AYE was identified in Thai A. baumannii. CONCLUSIONS: blaVEB-1 harboring class 1 integron element with minor cassette variation was identified in Thai A. baumanni isolate which might suggest the spread of this resistant cassette or the spread of the European clone I in Thailand. Monitoring of the global spread of multi-resistant A. baumannii is mandatory to control the spread of resistant genes and this multi-resistant pathogen. DOI: http://dx.doi.org/10.3126/ijim.v1i1.6715Int J Infect Microbiol 2012;1(1):24-28

scholarly journals Complete Genome Sequencing of Acinetobacter baumannii Strain K50 Discloses the Large Conjugative Plasmid pK50a Encoding Carbapenemase OXA-23 and Extended-Spectrum β-Lactamase GES-11

2018 ◽  
Vol 62 (5) ◽  
Author(s):  
Daniel Wibberg ◽  
Ileana P. Salto ◽  
Felix G. Eikmeyer ◽  
Irena Maus ◽  
Anika Winkler ◽  
...  
Keyword(s):  
Acinetobacter Baumannii ◽  
Genome Sequencing ◽  
Antibiotic Resistance Gene ◽  
Insertion Site ◽  
Multidrug Resistant ◽  
Conjugative Plasmid ◽  
Class 1 Integron ◽  
Content Type ◽  
Carbapenemase Gene ◽  
Class 1

ABSTRACT Multidrug-resistant (MDR) Acinetobacter baumannii strains appeared as serious emerging nosocomial pathogens in clinical environments and especially in intensive care units (ICUs). A. baumannii strain K50, recovered from a hospitalized patient in Kuwait, exhibited resistance to carbapenems and additionally to ciprofloxacin, chloramphenicol, sulfonamides, amikacin, and gentamicin. Genome sequencing revealed that the strain possesses two plasmids, pK50a (79.6 kb) and pK50b (9.5 kb), and a 3.75-Mb chromosome. A. baumannii K50 exhibits an average nucleotide identity (ANI) of 99.98% to the previously reported Iraqi clinical isolate AA-014, even though the latter strain lacked plasmid pK50a. Strain K50 belongs to sequence type 158 (ST158) (Pasteur scheme) and ST499 (Oxford scheme). Plasmid pK50a is a member of the Aci6 (replication group 6 [RG6]) group of Acinetobacter plasmids and carries a conjugative transfer module and two antibiotic resistance gene regions. The transposon Tn 2008 carries the carbapenemase gene bla OXA-23 , whereas a class 1 integron harbors the resistance genes bla GES-11 , aacA4 , dfrA7 , qacE Δ 1 , and sul1 , conferring resistance to all β-lactams and reduced susceptibility to carbapenems and resistance to aminoglycosides, trimethoprim, quaternary ammonium compounds, and sulfamethoxazole, respectively. The class 1 integron is flanked by MITEs (miniature inverted-repeat transposable elements) delimiting the element at its insertion site.

scholarly journals Evolution of AbGRI2-0, the Progenitor of the AbGRI2 Resistance Island in Global Clone 2 of Acinetobacter baumannii

2015 ◽  
Vol 60 (3) ◽  
pp. 1421-1429 ◽  
Author(s):  
Grace A. Blackwell ◽  
Steven J. Nigro ◽  
Ruth M. Hall
Keyword(s):  
The Netherlands ◽  
Acinetobacter Baumannii ◽  
Reference Strain ◽  
Draft Genome ◽  
Insertion Site ◽  
Mercury Resistance ◽  
Common Source ◽  
Antibiotic Resistant ◽  
Content Type ◽  
Resistance Island

A320, isolated in the Netherlands in 1982 and also known as RUH134, is the earliest available multiply antibiotic-resistant (MAR)Acinetobacter baumanniiisolate belonging to global clone 2 (GC2) and is the reference strain for this clone. The draft genome sequence of A320 was used to investigate the original location and configuration of the IS26-bounded AbGRI2 resistance island found in current GC2 isolates. PCR mapping and sequencing were used to order contigs composing the resistance islands. A320 contains two IS26-bounded resistance islands, AbGRI2-0a and AbGRI2-0b, of 7.8 kb and 25.4 kb, respectively. Together they containblaTEM,aacC1,aadA1,sul1,catA1, andaphA1bgenes, which confer resistance to antibiotics used clinically in the 1970s, as well as an incomplete mercury resistance module. Tracking the continuity of the chromosome and the target site duplications revealed that the two resistance islands were originally together as AbGRI2-0, an island of 32.4 kb, and were subsequently separated via an IS26-mediated intramolecular inversion that reversed the orientation of 1.54 Mb of the chromosome and duplicated an IS26. A320 contains an ancestral form of AbGRI2, and the original insertion site of the AbGRI2 island was identified. Many of the AbGRI2 versions present in the completed GC2 genomes can be derived from it via the variant AbGRI2-1. IS26-mediated inversions have also played a part in forming AbGRI2-0, and, upon reversal, large regions of AbGRI2-0 are identical to parts of AbaR0, the ancestral version of the AbaR islands present in GC1 isolates. This indicates a common source.

scholarly journals Incidence and Characterization of Integrons, Genetic Elements Mediating Multiple-Drug Resistance, in AvianEscherichia coli

1999 ◽  
Vol 43 (12) ◽  
pp. 2925-2929 ◽  
Author(s):  
Lydia Bass ◽  
Cynthia A. Liebert ◽  
Margie D. Lee ◽  
Anne O. Summers ◽  
David G. White ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Resistance Gene ◽  
Multiple Drug Resistance ◽  
Marker Gene ◽  
Clinical Isolates ◽  
Multiple Antibiotic Resistance ◽  
Class 1 Integron ◽  
E Coli ◽  
Class 1

ABSTRACT Antibiotic resistance among avian bacterial isolates is common and is of great concern to the poultry industry. Approximately 36% (n = 100) of avian, pathogenic Escherichia coli isolates obtained from diseased poultry exhibited multiple-antibiotic resistance to tetracycline, oxytetracycline, streptomycin, sulfonamides, and gentamicin. Clinical avian E. coli isolates were further screened for the presence of markers for class 1 integrons, the integron recombinase intI1 and the quaternary ammonium resistance gene qacEΔ1, in order to determine the contribution of integrons to the observed multiple-antibiotic resistance phenotypes. Sixty-three percent of the clinical isolates were positive for the class 1 integron markersintI1 and qacEΔ1. PCR analysis with the conserved class 1 integron primers yielded amplicons of approximately 1 kb from E. coli isolates positive for intI1 andqacEΔ1. These PCR amplicons contained the spectinomycin-streptomycin resistance gene aadA1. Further characterization of the identified integrons revealed that many were part of the transposon Tn21, a genetic element that encodes both antibiotic resistance and heavy-metal resistance to mercuric compounds. Fifty percent of the clinical isolates positive for the integron marker gene intI1 as well as for theqacEΔ1 and aadA1 cassettes also contained the mercury reductase gene merA. The correlation between the presence of the merA gene with that of the integrase and antibiotic resistance genes suggests that these integrons are located in Tn21. The presence of these elements among avianE. coli isolates of diverse genetic makeup as well as inSalmonella suggests the mobility of Tn21 among pathogens in humans as well as poultry.

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