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List of works by Thomas R. Connor

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A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers

scientific article
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins.

scientific article
Emergence and global spread of epidemic healthcare-associated Clostridium difficile

scientific article published on 9 December 2012
Evidence for several waves of global transmission in the seventh cholera pandemic

scientific article
Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice

scientific article
Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella pneumoniae, an urgent threat to public health

scientific article published on 22 June 2015
Hierarchical and spatially explicit clustering of DNA sequences with BAPS software

scientific article published on 13 February 2013
Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa

scientific article
Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer

scientific article published in February 2012
Distinguishable epidemics of multidrug-resistant Salmonella Typhimurium DT104 in different hosts

scientific article
Hyper-recombination, diversity, and antibiotic resistance in pneumococcus

scientific article published in June 2009
Patterns of genome evolution that have accompanied host adaptation in Salmonella

scientific article
Assessing the reliability of eBURST using simulated populations with known ancestry

scientific article published on 12 April 2007
Identification of enterotoxigenic Escherichia coli (ETEC) clades with long-term global distribution

scientific article
Parallel independent evolution of pathogenicity within the genus Yersinia

scientific article
Salmonella bongori provides insights into the evolution of the Salmonellae

scientific article published in August 2011
Intercontinental dissemination of azithromycin-resistant shigellosis through sexual transmission: a cross-sectional study

scientific article published on 27 April 2015
Signatures of adaptation in human invasive Salmonella Typhimurium ST313 populations from sub-Saharan Africa.

scientific article
Whole genome sequencing reveals potential spread of Clostridium difficile between humans and farm animals in the Netherlands, 2002 to 2011.

scientific article published on 13 November 2014
Microevolution of Monophasic Salmonella Typhimurium during Epidemic, United Kingdom, 2005-2010.

scientific article published on April 2016
Species-wide whole genome sequencing reveals historical global spread and recent local persistence in Shigella flexneri

scientific article published on 4 August 2015
An extended genotyping framework for Salmonella enterica serovar Typhi, the cause of human typhoid

scientific article published on 05 October 2016
Emergence of a new epidemic Neisseria meningitidis serogroup A Clone in the African meningitis belt: high-resolution picture of genomic changes that mediate immune evasion.

scientific article
Sequencing and functional annotation of avian pathogenic Escherichia coli serogroup O78 strains reveal the evolution of E. coli lineages pathogenic for poultry via distinct mechanisms

scientific article published on 28 December 2012
CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community.

scientific article
Zoonotic Transfer of Clostridium difficile Harboring Antimicrobial Resistance between Farm Animals and Humans.

scientific article
Historical zoonoses and other changes in host tropism of Staphylococcus aureus, identified by phylogenetic analysis of a population dataset

scientific article
Genome and transcriptome adaptation accompanying emergence of the definitive type 2 host-restricted Salmonella enterica serovar Typhimurium pathovar

scientific article published on 27 August 2013
Population structure in the Neisseria, and the biological significance of fuzzy species

scientific article published on 9 November 2011
Characterization of plasmids in extensively drug-resistant acinetobacter strains isolated in India and Pakistan

scientific article
Retrospective analysis of whole genome sequencing compared to prospective typing data in further informing the epidemiological investigation of an outbreak of Shigella sonnei in the UK.

scientific article
Peptide-MHC Class I Tetramers Can Fail To Detect Relevant Functional T Cell Clonotypes and Underestimate Antigen-Reactive T Cell Populations.

scientific article published on 26 February 2018
What's in a Name? Species-Wide Whole-Genome Sequencing Resolves Invasive and Noninvasive Lineages of Salmonella enterica Serotype Paratyphi B

scientific article
Whole genome sequencing of Shigella sonnei through PulseNet Latin America and Caribbean: advancing global surveillance of foodborne illnesses.

scientific article
Engineering of Isogenic Cells Deficient for MR1 with a CRISPR/Cas9 Lentiviral System: Tools To Study Microbial Antigen Processing and Presentation to Human MR1-Restricted T Cells

scientific article published on 15 June 2016
Bayesian semi-supervised classification of bacterial samples using MLST databases

scientific article published on 26 July 2011
Novel R pipeline for analyzing Biolog Phenotypic MicroArray data

scientific article
Population subdivision and the detection of recombination in non-typable Haemophilus influenzae

scientific article published on 4 October 2012
Use of whole-genus genome sequence data to develop a multilocus sequence typing tool that accurately identifies Yersinia isolates to the species and subspecies levels

scientific article
Retrospective Analysis of Serotype Switching of Vibrio cholerae O1 in a Cholera Endemic Region Shows It Is a Non-random Process

scientific article
Genome mining identifies cepacin as a plant-protective metabolite of the biopesticidal bacterium Burkholderia ambifaria

article
Travel- and Community-Based Transmission of Multidrug-Resistant Shigella sonnei Lineage among International Orthodox Jewish Communities

scientific article
The Type III Secretion System Effector SeoC of Salmonella enterica subsp. salamae and S. enterica subsp. arizonae ADP-Ribosylates Src and Inhibits Opsonophagocytosis

scientific article published on 10 October 2016
Correction: Signatures of Adaptation in Human Invasive Salmonella Typhimurium ST313 Populations from Sub-Saharan Africa

scientific article published on 15 June 2015
CLIMB-COVID: continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance

publication published on 01 July 2021
Discovery of the Pseudomonas Polyyne Protegencin by a Phylogeny-Guided Study of Polyyne Biosynthetic Gene Cluster Diversity

scientific article published on 03 August 2021
Genomic Assemblies of Members of and Related Genera as a Resource for Natural Product Discovery

scientific article published on 15 October 2020
Genomic epidemiology reveals geographical clustering of multidrug-resistant Escherichia coli sequence type (ST)131 associated with bacteraemia in Wales, United Kingdom

Genome Sequence of Pluralibacter gergoviae ECO77, a Multireplicon Isolate of Industrial Origin

scientific article published on 27 February 2020
Monitoring SARS-CoV-2 in municipal wastewater to evaluate the success of lockdown measures for controlling COVID-19 in the UK

scientific article published in July 2021

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