Genomic Epidemiology of Carbapenemase Producing Klebsiella pneumoniae Strains at a Northern Portuguese Hospital Enables the Detection of a Misidentified Klebsiella variicola KPC-3 Producing Strain

Population genomics of Klebsiella pneumoniae

(2020) Kelly L. Wyres et al.   NATURE REVIEWS MICROBIOLOGY

Klebsiella pneumoniae carriage in low-income countries: antimicrobial resistance, genomic diversity and risk factors

(2020) Bich-Tram Huynh et al.   Gut Microbes

Whole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese tertiary-care hospital

(2020) João Perdigão et al.   Microbial Genomics

Description of Klebsiella africanensis sp. nov., Klebsiella variicola subsp. tropicalensis subsp. nov. and Klebsiella variicola subsp. variicola subsp. nov.

(2019) Carla Rodrigues et al.   RESEARCH IN MICROBIOLOGY

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Genomics for molecular epidemiology and detecting transmission of carbapenemase-producing Enterobacterales in Victoria, Australia, 2012-2016

(2019) Norelle L. Sherry et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis

(2018) Francesc Coll et al.   NATURE GENETICS

OUP accepted manuscript

(2018)   CLINICAL INFECTIOUS DISEASES

Klebsiella pneumoniae type VI secretion system contributes to bacterial competition, cell invasion, type-1 fimbriae expression, and in vivo colonization

(2018) Pei-Fang Hsieh et al.   JOURNAL OF INFECTIOUS DISEASES

Virulence and resistance determinants of Klebsiella pneumoniae isolated from a Portuguese tertiary university hospital centre over a 31-year period

(2018) Cátia Caneiras et al.   ENFERMEDADES INFECCIOSAS Y MICROBIOLOGIA CLINICA

Population Structure, Antibiotic Resistance, and Uropathogenicity of Klebsiella variicola

(2018) Robert F. Potter et al.   mBio

Tracking key virulence loci encoding aerobactin and salmochelin siderophore synthesis in Klebsiella pneumoniae

(2018) Margaret M. C. Lam et al.   Genome Medicine

Complete Genomic Analysis of a Kingdom-Crossing Klebsiella variicola Isolate

(2018) Yatao Guo et al.   Frontiers in Microbiology

IMI-2 carbapenemase in a clinical Klebsiella variicola isolated in the UK

(2017) Katie L. Hopkins et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Identification and Characterization of an Antibacterial Type VI Secretion System in the Carbapenem-Resistant Strain Klebsiella pneumoniae HS11286

(2017) Lu Liu et al.   Frontiers in Cellular and Infection Microbiology

PHYLOViZ 2.0: providing scalable data integration and visualization for multiple phylogenetic inference methods

(2016) Marta Nascimento et al.   BIOINFORMATICS

Identification and Characterization of Imipenem-ResistantKlebsiella pneumoniaeand SusceptibleKlebsiella variicolaIsolates Obtained from the Same Patient

(2016) Ulises Garza-Ramos et al.   Microbial Drug Resistance

Klebsiella pneumoniae: Going on the Offense with a Strong Defense

(2016) Michelle K. Paczosa et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

KPC-3-Producing Klebsiella pneumoniae in Portugal Linked to Previously Circulating Non-CG258 Lineages and Uncommon Genetic Platforms (Tn4401d-IncFIA and Tn4401d-IncN)

(2016) Carla Rodrigues et al.   Frontiers in Microbiology

In SilicoDetection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing

(2014) Alessandra Carattoli et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

The genome of a clinicalKlebsiella variicolastrain reveals virulence-associated traits and a pl9-like plasmid

(2014) Bruno Gabriel N. Andrade et al.   FEMS MICROBIOLOGY LETTERS

Benchmarking of Methods for Genomic Taxonomy

(2014) M. V. Larsen et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Klebsiella variicola Is a Frequent Cause of Bloodstream Infection in the Stockholm Area, and Associated with Higher Mortality Compared to K. pneumoniae

(2014) Makaoui Maatallah et al.   PLoS One

D-galactan II is an immunodominant antigen in O1 lipopolysaccharide and affects virulence in Klebsiella pneumoniae: implication in vaccine design

(2014) Pei-Fang Hsieh et al.   Frontiers in Microbiology

OqxAB, a Quinolone and Olaquindox Efflux Pump, Is Widely Distributed among Multidrug-Resistant Klebsiella pneumoniae Isolates of Human Origin

(2013) Federico Perez et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Genetic Features of the Widespread Plasmid Coding for the Carbapenemase OXA-48

(2011) Laurent Poirel et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Evaluation of Boronic Acid Disk Tests for Differentiating KPC-Possessing Klebsiella pneumoniae Isolates in the Clinical Laboratory

(2008) A. Tsakris et al.   JOURNAL OF CLINICAL MICROBIOLOGY