[HTML][HTML] A genomic overview of the population structure of Salmonella

NF Alikhan, Z Zhou, MJ Sergeant, M Achtman - PLoS genetics, 2018 - journals.plos.org
For many decades, Salmonella enterica has been subdivided by serological properties into
serovars or further subdivided for epidemiological tracing by a variety of diagnostic tests with …

Persistent infection and long-term carriage of typhoidal and nontyphoidal salmonellae

O Gal-Mor - Clinical microbiology reviews, 2018 - Am Soc Microbiol
The ability of pathogenic bacteria to affect higher organisms and cause disease is one of the
most dramatic properties of microorganisms. Some pathogens can establish transient …

The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny, and Escherichia core genomic diversity

Z Zhou, NF Alikhan, K Mohamed, Y Fan… - Genome …, 2020 - genome.cshlp.org
EnteroBase is an integrated software environment that supports the identification of global
population structures within several bacterial genera that include pathogens. Here, we …

MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies

J Robertson, JHE Nash - Microbial genomics, 2018 - microbiologyresearch.org
Large-scale bacterial population genetics studies are now routine due to cost-effective
Illumina short-read sequencing. However, analysing plasmid content remains difficult due to …

GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens

Z Zhou, NF Alikhan, MJ Sergeant, N Luhmann… - Genome …, 2018 - genome.cshlp.org
Current methods struggle to reconstruct and visualize the genomic relationships of large
numbers of bacterial genomes. GrapeTree facilitates the analyses of large numbers of allelic …

[HTML][HTML] The Salmonella In Silico Typing Resource (SISTR): An Open Web-Accessible Tool for Rapidly Typing and Subtyping Draft Salmonella Genome Assemblies

CE Yoshida, P Kruczkiewicz, CR Laing, EJ Lingohr… - PloS one, 2016 - journals.plos.org
For nearly 100 years serotyping has been the gold standard for the identification of
Salmonella serovars. Despite the increasing adoption of DNA-based subtyping approaches …

Salmonella enterica genomes from victims of a major sixteenth-century epidemic in Mexico

ÅJ Vågene, A Herbig, MG Campana… - Nature ecology & …, 2018 - nature.com
Indigenous populations of the Americas experienced high mortality rates during the early
contact period as a result of infectious diseases, many of which were introduced by …

[HTML][HTML] Supplement 2008–2010 (no. 48) to the white–Kauffmann–Le minor scheme

S Issenhuth-Jeanjean, P Roggentin, M Mikoleit… - Research in …, 2014 - Elsevier
Abstract This supplement (no. 48) of the White–Kauffmann–Le Minor scheme reports on the
characterization of 63 new Salmonella serovars and 25 new variants of previously described …

Salmonella serotype determination utilizing high-throughput genome sequencing data

S Zhang, Y Yin, MB Jones, Z Zhang… - Journal of clinical …, 2015 - Am Soc Microbiol
Serotyping forms the basis of national and international surveillance networks for
Salmonella, one of the most prevalent foodborne pathogens worldwide (1–3). Public health …

[PDF][PDF] The temporal dynamics of antimicrobial-resistant Salmonella enterica and predominant serovars in China

Y Wang, Y Liu, N Lyu, Z Li, S Ma, D Cao… - National Science …, 2023 - academic.oup.com
Salmonella enterica is one of the most common bacterial pathogens in humans and
animals. Systematic studies on the trends and geographical distribution of antimicrobial …