scholarly journals Antimicrobial Resistance and Genomic Characterization of OXA-48- and CTX-M-15-Co-Producing Hypervirulent Klebsiella pneumoniae ST23 Recovered from Nosocomial Outbreak

Antibiotics ◽  
2020 ◽  
Vol 9 (12) ◽  
pp. 862
Author(s):  
Elvira Shaidullina ◽  
Andrey Shelenkov ◽  
Yuri Yanushevich ◽  
Yulia Mikhaylova ◽  
Dmitriy Shagin ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
Illumina Miseq ◽  
Type I ◽  
Nosocomial Outbreak ◽  
Recent Emergence ◽  
Genomic Characterization ◽  
Global Threat ◽  
High Level ◽  
Sepsis And Septic Shock

Multidrug resistance (MDR) and hypervirulence (hv) have been long considered distinct evolutionary traits for Klebsiella pneumoniae (Kp), a versatile human pathogen. The recent emergence of Kp strains combining these traits poses a serious global threat. In this article, we describe the phenotypic and genomic characteristics of an MDR hvKp isolate, MAR14-456, representative of a nosocomial outbreak in Moscow, Russia, that was recovered from a postoperative wound in a patient who later developed multiple abscesses, fatal sepsis, and septic shock. Broth microdilution testing revealed decreased susceptibility of MAR14-456 to carbapenems (MICs 0.5–2 mg/L) and a high-level resistance to most β-lactams, β-lactam-β-lactamase-inhibitor combinations, and non-β-lactam antibiotics, except ceftazidime-avibactam, amikacin, tigecycline, and colistin. Whole-genome sequencing using Illumina MiSeq and ONT MinION systems allowed to identify and completely assemble two conjugative resistance plasmids, a typical ‘European’ epidemic IncL/M plasmid that carries the gene of OXA-48 carbapenemase, and an IncFIIK plasmid that carries the gene of CTX-M-15 ESBL and other resistance genes. MLST profile, capsular, lipopolysaccharide, virulence genes encoded on chromosome and IncHI1B/FIB plasmid, and the presence of apparently functional type I-E* CRISPR-Cas system were all characteristic of hvKp ST23, serotype K1-O1v2. Phylogenetic analysis showed the closest relatedness of MAR14-456 to ST23 isolates from China. This report highlights the threat of multiple resistance acquisition by hvKp strain and its spread as a nosocomial pathogen.

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 Genomic characterization of Vibrio parahaemolyticus from Pacific white shrimp and rearing water in Malaysia reveals novel sequence types and structural variation in genomic regions containing the Photorhabdus insect-related (Pir) toxin-like genes

2019 ◽  
Vol 366 (17) ◽  
Author(s):  
Chrystine Zou Yi Yan ◽  
Christopher M Austin ◽  
Qasim Ayub ◽  
Sadequr Rahman ◽  
Han Ming Gan
Keyword(s):  
Vibrio Parahaemolyticus ◽  
Illumina Miseq ◽  
Pacific White Shrimp ◽  
White Shrimp ◽  
Phylogenomic Analysis ◽  
Genomic Characterization ◽  
Genomic Resource ◽  
Acute Hepatopancreatic Necrosis Disease ◽  
Genomic Regions

ABSTRACT The Malaysian and global shrimp aquaculture production has been significantly impacted by acute hepatopancreatic necrosis disease (AHPND) typically caused by Vibrio parahaemolyticus harboring the pVA plasmid containing the pirAVp and pirBVp genes, which code for Photorhabdus insect-related (Pir) toxin. The limited genomic resource for V. parahaemolyticus strains from Malaysian aquaculture farms precludes an in-depth understanding of their diversity and evolutionary relationships. In this study, we isolated shrimp-associated and environmental (rearing water) V. parahaemolyticus from three aquaculture farms located in Northern and Central Malaysia followed by whole-genome sequencing of 40 randomly selected isolates on the Illumina MiSeq. Phylogenomic analysis and multilocus sequence typing (MLST) reveal distinct lineages of V. parahaemolyticus that harbor the pirABVp genes. The recovery of pVA plasmid backbone devoid of pirAVp or pirABVp in some V. parahaemolyticus isolates suggests that the toxin genes are prone to deletion. The new insight gained from phylogenomic analysis of Asian V. parahaemolyticus, in addition to the observed genomic instability of pVa plasmid, will have implications for improvements in aquaculture practices to diagnose, treat or limit the impacts of this disease.

Genomic Characterization of Recent and Historic Meningococcal Serogroup E Invasive Disease in Australia: A Case Series

2019 ◽  
Vol 70 (8) ◽  
pp. 1761-1763 ◽  
Author(s):  
Dharshi Thangarajah ◽  
Christine J D Guglielmino ◽  
Stephen B Lambert ◽  
Gulam Khandaker ◽  
Bhakti R Vasant ◽  
...  
Keyword(s):  
Meningococcal Disease ◽  
Molecular Typing ◽  
Case Series ◽  
Invasive Disease ◽  
Invasive Meningococcal Disease ◽  
Recent Emergence ◽  
Genomic Characterization

Abstract We report the recent emergence of invasive meningococcal disease due to serogroup E in Queensland, Australia, in previously healthy patients. Molecular typing revealed the genotype of these strains to be E:P1.21-7,16:F5-36:ST-1157 (cc1157); when analyzed phylogenetically, compared with international cc1157 strains, they were relatively unrelated to each other.

scholarly journals Diversity of carbapenem-resistant Klebsiella pneumoniae ST14 and emergence of a subgroup with KL64 capsular locus in the Arabian Peninsula

2021 ◽  
Author(s):  
Shaimaa F. Mouftah ◽  
Tibor Pál ◽  
Paul G. Higgins ◽  
Akela Ghazawi ◽  
Youssef Idaghdour ◽  
...  
Keyword(s):  
Saudi Arabia ◽  
Klebsiella Pneumoniae ◽  
United Arab Emirates ◽  
Core Genome ◽  
Arabian Peninsula ◽  
Illumina Miseq ◽  
Carbapenem Resistant ◽  
Distinct Cluster ◽  
Recent Emergence ◽  
Miseq Platform

AbstractTo understand the reasons of successful spread of carbapenem-resistant Klebsiella pneumoniae ST14 (CRKP-ST14) in countries of the Arabian Peninsula, the resistome, capsular locus, carbapenemase carrying plasmid types, and core genome of isolates from the region were compared to global isolates. Thirty-nine CRKP-ST14 strains isolated from 13 hospitals in the United Arab Emirates, Bahrain, and Saudi Arabia were selected for whole genome sequencing on Illumina MiSeq platform based on the variety of carbapenemase genes carried and plasmids bearing these genes. Their resistome, capsular locus, and core genome MLST were compared to 173 CRKP-ST14 genomes available in public databases. The selected 39 CRKP-ST14 produced either NDM-1, OXA-48, OXA-162, OXA-232, KPC-2, or co-produced NDM-1 and an OXA-48-like carbapenemase. cgMLST revealed three clusters: 16 isolates from five UAE cities (C1), 11 isolates from three UAE cities and Bahrain (C2), and 5 isolates from Saudi Arabia (C3), respectively, and seven singletons. Resistance gene profile, carbapenemase genes, and their plasmid types were variable in both C1 and C2 clusters. The majority of CRKP-ST14 had KL2, but members of the C2 cluster and two further singletons possessed KL64 capsular locus. Based on cgMLST comparison of regional and global isolates, CRKP-ST14 with KL64 from four continents formed a distinct cluster, suggesting a recent emergence and spread of this variant. Our findings confirmed clonal transmission coupled with likely horizontal gene transfer in carbapenem-resistant Klebsiella pneumoniae ST14. Dissemination of this genetically flexible, highly resistant clone warrants further monitoring.

scholarly journals Outer Membrane Profiles of Clonally Related Klebsiella pneumoniae Isolates from Clinical Samples and Activities of Cephalosporins and Carbapenems

1998 ◽  
Vol 42 (7) ◽  
pp. 1636-1640 ◽  
Author(s):  
Carmen Ardanuy ◽  
Josefina Liñares ◽  
María Angeles Domínguez ◽  
Santiago Hernández-Allés ◽  
Vicente J. Benedí ◽  
...  
Keyword(s):  
Klebsiella Pneumoniae ◽  
Parental Strain ◽  
Electrophoretic Analysis ◽  
Clinical Samples ◽  
Nosocomial Outbreak ◽  
Chromosomal Dna ◽  
Clonal Type ◽  
Extended Spectrum ◽  
Gene Coding ◽  
High Level

ABSTRACT Fifteen isolates of Klebsiella pneumoniae producing extended-spectrum β-lactamases (ESBLs) isolated during a nosocomial outbreak were studied. The strains belonged to the same clonal type, as shown by pulsed-field gel electrophoretic analysis of chromosomal DNA. All the isolates were resistant to extended-spectrum cephalosporins, aztreonam, gentamicin, and fluoroquinolones and were susceptible to carbapenems, tobramycin, netilmicin, and amikacin. None of the isolates expressed the OmpK36 porin. Eight isolates, for which the MICs of cefoxitin were ≥64 μg/ml, showed a diminished level or no expression of a 35-kDa porin. The MICs of meropenem, cefotaxime, and cefpirome were three to eight times higher for porin-deficient isolates than for isolates expressing the 35-kDa porin, but the MICs of imipenem increased two times for porin-deficient isolates compared to those for isolates expressing the porin. This MIC increase reverted to a level similar to that for the parental strain when porin-deficient isolates were transformed with the gene coding for theK. pneumoniae porin OmpK36. It is concluded that the high level of resistance to cefoxitin and the increase in the MICs of meropenem, cefotaxime, and cefpirome for the ESBL-producingK. pneumoniae isolates studied are associated with porin deficiency.

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