Genomic characterization of IncpA1763-KPC: IncFIIK7 type plasmids p13294-KPC and pA1966-NR from Klebsiella pneumoniae

2020 ◽  
Vol 15 (9) ◽  
pp. 713-721
Author(s):  
Qifeng Sun ◽  
Jiao Feng ◽  
Yigang Tong ◽  
Luhua Liang ◽  
Fei Zhai ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Klebsiella Pneumoniae ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Genomic Analysis ◽  
Mobile Elements ◽  
Is Elements ◽  
Genomic Characterization ◽  
Insight Into

Aim: To characterize two plasmids p13294-KPC and pA1966-NR from clinical Klebsiella pneumoniae strains. Materials & methods: Plasmids p13294-KPC and pA1966-NR were fully sequenced and then detailed genomic analysis was performed in this work. The antimicrobial resistance phenotypes were determined. Results: p13294-KPC and pA1966-NR displayed IncpA1763-KPC:IncFIIK7 dual-replicon structures. The backbone of these two plasmids were closely related to each other. p13294-KPC contained two accessory modules, namely ΔIS Kpn25 and blaKPC-2 region, and the blaKPC-2 region carried a range of mobile elements and resistance gene blaKPC-2. while pA1966-NR contained four individual IS elements in its backbone and carried no resistance genes. Conclusion: This study provided a deeper insight into the genomic characterization of IncpA1763-KPC: IncFIIK7 type plasmids p13294-KPC and pA1966-NR.

scholarly journals BKC-2, a New BKC Variant Detected in MCR-9.1-producing Enterobacter hormaechei subsp. xiangfangensis

2020 ◽  
pp. AAC.01193-20
Author(s):  
Willames M. B. S. Martins ◽  
Evelin R. Martins ◽  
Letícia K. de Andrade ◽  
Refath Farzana ◽  
Timothy R. Walsh ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Tertiary Hospital ◽  
Multidrug Resistant ◽  
Colistin Resistance ◽  
Antimicrobial Resistance Genes ◽  
Genomic Characterization ◽  
Enterobacter Hormaechei

We performed the characterization of a multidrug-resistant (MDR) Enterobacter spp. isolate highlighting the genetic aspects of the antimicrobial resistance genes. An Enterobacter spp. isolate (Ec61) was recovered in 2014 from a transtracheal aspirate sample from a patient admitted to a Brazilian tertiary hospital and submitted to further microbiological and genomic characterization. Ec61 was identified as Enterobacter hormaechei subsp. xiangfangensis ST451, showed a MDR profile and the presence of genes codifying new β-lactamase variants, BKC-2 and ACT-84, and the mobile colistin resistance gene mcr-9.1.

scholarly journals Sequencing and Comparative Genomic Analysis of pK29, a 269-Kilobase Conjugative Plasmid Encoding CMY-8 and CTX-M-3 β-Lactamases in Klebsiella pneumoniae

2007 ◽  
Vol 51 (8) ◽  
pp. 3004-3007 ◽  
Author(s):  
Ying-Tsong Chen ◽  
Tsai-Ling Lauderdale ◽  
Tsai-Lien Liao ◽  
Yih-Ru Shiau ◽  
Hung-Yu Shu ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Klebsiella Pneumoniae ◽  
Resistance Genes ◽  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Conjugative Plasmid ◽  
Comparative Genomic ◽  
Antimicrobial Resistance Genes ◽  
Genomic Analyses ◽  
The Common

ABSTRACT A 269-kilobase conjugative plasmid, pK29, from a Klebsiella pneumoniae strain was sequenced. The plasmid harbors multiple antimicrobial resistance genes, including those encoding CMY-8 AmpC-type and CTX-M-3 extended-spectrum β-lactamases in the common backbone of IncHI2 plasmids. Mechanisms for dissemination of the resistance genes are highlighted in comparative genomic analyses.

scholarly journals Emergence and Evolution of Multidrug-Resistant Klebsiella pneumoniae with both blaKPC and blaCTX-M Integrated in the Chromosome

2017 ◽  
Vol 61 (7) ◽  
Author(s):  
Weihua Huang ◽  
Guiqing Wang ◽  
Robert Sebra ◽  
Jian Zhuge ◽  
Changhong Yin ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Klebsiella Pneumoniae ◽  
Resistance Genes ◽  
De Novo ◽  
Genomic Analysis ◽  
Multidrug Resistant ◽  
Comparative Genomic ◽  
Type I ◽  
Content Type ◽  
Antimicrobial Resistance Genes

ABSTRACT The extended-spectrum-β-lactamase (ESBL)- and Klebsiella pneumoniae carbapenemase (KPC)-producing Enterobacteriaceae represent serious and urgent threats to public health. In a retrospective study of multidrug-resistant K. pneumoniae, we identified three clinical isolates, CN1, CR14, and NY9, carrying both bla CTX-M and bla KPC genes. The complete genomes of these three K. pneumoniae isolates were de novo assembled by using both short- and long-read whole-genome sequencing. In CR14 and NY9, bla CTX-M and bla KPC were carried on two different plasmids. In contrast, CN1 had one copy of bla KPC-2 and three copies of bla CTX-M-15 integrated in the chromosome, for which the bla CTX-M-15 genes were linked to an insertion sequence, ISEcp1, whereas the bla KPC-2 gene was in the context of a Tn4401a transposition unit conjugated with a PsP3-like prophage. Intriguingly, downstream of the Tn4401a-bla KPC-2-prophage genomic island, CN1 also carried a clustered regularly interspaced short palindromic repeat (CRISPR)-cas array with four spacers targeting a variety of K. pneumoniae plasmids harboring antimicrobial resistance genes. Comparative genomic analysis revealed that there were two subtypes of type I-E CRISPR-cas in K. pneumoniae strains and suggested that the evolving CRISPR-cas, with its acquired novel spacer, induced the mobilization of antimicrobial resistance genes from plasmids into the chromosome. The integration and dissemination of multiple copies of bla CTX-M and bla KPC from plasmids to chromosome depicts the complex pandemic scenario of multidrug-resistant K. pneumoniae. Additionally, the implications from this study also raise concerns for the application of a CRISPR-cas strategy against antimicrobial resistance.

scholarly journals The Resistome and Mobilome of Multidrug-Resistant Staphylococcus sciuri C2865 Unveil a Transferable Trimethoprim Resistance Gene, Designated dfrE , Spread Unnoticed

mSystems ◽  
2021 ◽  
Author(s):  
Elena Gómez-Sanz ◽  
Jose Manuel Haro-Moreno ◽  
Slade O. Jensen ◽  
Juan J. Roda-García ◽  
Mario López-Pérez
Keyword(s):  
Antimicrobial Resistance ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Bacterial Resistance ◽  
Genomic Data ◽  
Multidrug Resistant ◽  
Mobile Elements ◽  
Content Type ◽  
Antimicrobial Resistance Genes

The discovery and surveillance of antimicrobial resistance genes (AMRG) and their mobilization platforms are critical to understand the evolution of bacterial resistance and to restrain further expansion. Limited genomic data are available on Staphylococcus sciuri ; regardless, it is considered a reservoir for critical AMRG and mobile elements.

scholarly journals PHENOTYPIC AND GENOTYPIC CHARACTERIZATION OF FIVE ANTIMICROBIAL RESISTANCE GENES ASSOCIATED WITH KLEBSIELLA PNEUMONIAE ISOLATED FROM BURN INFECTION PATIENTS

2021 ◽  
Vol 9 (3) ◽  
pp. 378-387
Author(s):  
Mohsin Razzaq Azeez ◽  
◽  
Ahmed Abduljabbar Jaloob Aljanaby ◽  
Ilkay Corak Ocal ◽  
◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Klebsiella Pneumoniae ◽  
Resistance Genes ◽  
Beta Lactamase ◽  
Extended Spectrum Beta Lactamase ◽  
Extended Spectrum ◽  
Genotypic Characterization ◽  
Antimicrobial Resistance Genes ◽  
Phenotypic And Genotypic Characterization

The current study was carried out for the phenotypic and genotypic characterization of five antimicrobial resistance-associated genes in Klebsiella pneumoniae isolated from burn infection patients. Total one hundred three (103) bacterial samples (strains) were isolated from the 103 burn infection patients admitted at Middle Euphrates Burns Center of AL-Kufa City Iraq. Out of total isolated bacterial samples (103), there were 31 isolates (30%) identified as Pseudomonas sp., 23 isolates (22.3%) as K. pneumonia, 22 isolates as Staphylococcus sps. (21.4%), 11 isolates as E. coli (10.6%), 8 isolates as Acinetobacter sps. (7.8%), 5 isolates as Enterobacter sps. (4.9%), while the lowest prevalence (3 isolates) was reported for the Proteus spp. (3%). The antimicrobial sensitivity test indicated that all isolated K. pneumoniae have resistant (100%) against standard antibiotic Amoxicillin. While Imipenem is the only antibiotic that can inhibit the growth of all 23 isolates. Further, according to the phenotypic detection method, there were 14 isolates (61%) capable of production of extended spectrum beta lactamase (ESBL). Genotypic method to detect the presence of five antibiotic resistance genes by polymerase chain reaction proved that 13 isolates (56.5%) were Tem gene, 18 isolates (78.2%) were positive for Shv gene, 8 isolates (34.7%) were positive Ctxm gene, three isolates (13%) were positive for Oxa gene and 10 isolates (43.7%) positive for AmpC gene. Results of the study can be concluded that K. pneumoniae is the second causative agent that causes burn infection and has higher antibiotics resistance. Extended spectrum beta lactamase of K. pneumoniae was higher prevalence in burn infection and harbored many beta lactamase genes.

scholarly journals Characterization of Extended-Spectrum β-Lactamases (ESBLs)-Producing Klebsiella Pneumoniae Strains in Captive Giant Pandas

2021 ◽  
Author(s):  
Xiaoyan Su ◽  
Xia Yan ◽  
Yunli Li ◽  
Dongsheng Zhang ◽  
Lin Li ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Klebsiella Pneumoniae ◽  
Resistance Genes ◽  
Giant Panda ◽  
Test Method ◽  
Giant Pandas ◽  
Extended Spectrum ◽  
Antimicrobial Resistance Genes ◽  
Encoding Genes

Abstract Background: Extended-spectrum β-lactamases (ESBLs)-producing strains of Klebsiella pneumoniae remain a critical clinical concern in the world. However, limited information is available concerning ESBLs-producing K. pneumoniae in giant pandas. The objective of this study was to characterize ESBLs-producing K. pneumoniae isolates from the giant panda. A total of 211 K. pneumoniae isolates were collected from 108 giant pandas housed at the Chengdu Research Base of Giant Panda Breeding, China. Samples were screened for the ESBLs-producing phenotype via the double-disk synergy test method. Result: A total of three (1.42%, n = 211) ESBLs-producing K. pneumoniae strains were identified and subjected to MLST (Multi-locus Sequence Typing) analysis for the characterization of ESBLs-encoding genes, transposons, antimicrobial resistance genes, and antimicrobial susceptibility. Among the three ESBLs-producing isolates, different ESBLs-encoding genes, including blaCTX-M-1, blaSHV, and blaTEM were detected. Three isolates were found to carry transposons (i.e., aac6-ib and tnpU) and antimicrobial resistance genes (i.e., aac6-ib, tnpU, aac6-1, qnrA, and qnrB). Furthermore, these three isolates were resistant to at least 15 antibiotics and had different ST isotypes (ST37, ST290, and ST2640). Conclusion: Effective surveillance and strict infection control strategies should be implemented to prevent outbreaks of ESBLs-producing K. pneumoniae in giant panda.

scholarly journals Lemierre’s syndrome associated with hypervirulent Klebsiella pneumoniae: A case report and genomic characterization of the isolate

IDCases ◽  
2021 ◽  
pp. e01173
Author(s):  
Seung Eun Lee ◽  
Ammara Mushtaq ◽  
Melissa Gitman ◽  
Alberto Paniz-Mondolfi ◽  
Marilyn Chung ◽  
...  
Keyword(s):  
Case Report ◽  
Klebsiella Pneumoniae ◽  
Lemierre’S Syndrome ◽  
Genomic Characterization ◽  
Lemierre's Syndrome

scholarly journals Genomic characterization of a KPC-23-producing Klebsiella pneumoniae ST258 clinical isolate resistant to ceftazidime-avibactam

2019 ◽  
Vol 25 (6) ◽  
pp. 763.e5-763.e8 ◽  
Author(s):  
I. Galani ◽  
A. Antoniadou ◽  
I. Karaiskos ◽  
K. Kontopoulou ◽  
H. Giamarellou ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
Clinical Isolate ◽  
Genomic Characterization

scholarly journals Characterization of a Multiresistant Mosaic Plasmid from a Fish Farm Sediment Exiguobacterium sp. Isolate Reveals Aggregation of Functional Clinic-Associated Antibiotic Resistance Genes

2013 ◽  
Vol 80 (4) ◽  
pp. 1482-1488 ◽  
Author(s):  
Jing Yang ◽  
Chao Wang ◽  
Jinyu Wu ◽  
Li Liu ◽  
Gang Zhang ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Resistance Genes ◽  
Antibiotic Resistance Genes ◽  
Mobile Elements ◽  
Fish Farms ◽  
Significant Similarity ◽  
Content Type ◽  
Genes Encoding ◽  
The Mean

ABSTRACTThe genusExiguobacteriumcan adapt readily to, and survive in, diverse environments. Our study demonstrated thatExiguobacteriumsp. strain S3-2, isolated from marine sediment, is resistant to five antibiotics. The plasmid pMC1 in this strain carries seven putative resistance genes. We functionally characterized these resistance genes inEscherichia coli, and genes encoding dihydrofolate reductase and macrolide phosphotransferase were considered novel resistance genes based on their low similarities to known resistance genes. The plasmid G+C content distribution was highly heterogeneous. Only the G+C content of one block, which shared significant similarity with a plasmid fromExiguobacterium arabatum, fit well with the mean G+C content of the host. The remainder of the plasmid was composed of mobile elements with a markedly lower G+C ratio than the host. Interestingly, five mobile elements located on pMC1 showed significant similarities to sequences found in pathogens. Our data provided an example of the link between resistance genes in strains from the environment and the clinic and revealed the aggregation of antibiotic resistance genes in bacteria isolated from fish farms.

scholarly journals High-Level Aminoglycoside Resistance in Human Clinical Klebsiella pneumoniae Complex Isolates and Characteristics of armA-Carrying IncHI5 Plasmids

2021 ◽  
Vol 12 ◽  
Author(s):  
Xueya Zhang ◽  
Qiaoling Li ◽  
Hailong Lin ◽  
Wangxiao Zhou ◽  
Changrui Qian ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
Resistance Genes ◽  
Genomic Analysis ◽  
Comparative Genomic Analysis ◽  
Conjugative Plasmid ◽  
Comparative Genomic ◽  
Aminoglycoside Resistance ◽  
Life Threatening ◽  
Aminoglycoside Resistance Genes ◽  
High Level

Aminoglycosides are important options for treating life-threatening infections. However, high levels of aminoglycoside resistance (HLAR) among Klebsiella pneumoniae isolates have been observed to be increasing frequently. In this study, a total of 292 isolates of the K. pneumoniae complex from a teaching hospital in China were analyzed. Among these isolates, the percentage of HLAR strains was 13.7% (40/292), and 15 aminoglycoside resistance genes were identified among the HLAR strains, with rmtB being the most dominant resistance gene (70%, 28/40). We also described an armA-carrying Klebsiella variicola strain KP2757 that exhibited a high-level resistance to all aminoglycosides tested. Whole-genome sequencing of KP2757 demonstrated that the strain contained one chromosome and three plasmids, with all the aminoglycoside resistance genes (including two copies of armA and six AME genes) being located on a conjugative plasmid, p2757-346, belonging to type IncHI5. Comparative genomic analysis of eight IncHI5 plasmids showed that six of them carried two copies of the intact armA gene in the complete or truncated Tn1548 transposon. To the best of our knowledge, for the first time, we observed that two copies of armA together with six AME genes coexisted on the same plasmid in a strain of K. variicola with HLAR. Comparative genomic analysis of eight armA-carrying IncHI5 plasmids isolated from humans and sediment was performed, suggesting the potential for dissemination of these plasmids among bacteria from different sources. These results demonstrated the necessity of monitoring the prevalence of IncHI5 plasmids to restrict their worldwide dissemination.

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