A gene-by-gene population genomics platform: de novo assembly, annotation and genealogical analysis of 108 representative Neisseria meningitidis genomes

HB Bratcher, C Corton, KA Jolley, J Parkhill… - BMC genomics, 2014 - Springer
Background Highly parallel,'second generation'sequencing technologies have rapidly
expanded the number of bacterial whole genome sequences available for study, permitting …

NeMeSys: a biological resource for narrowing the gap between sequence and function in the human pathogen Neisseria meningitidis

C Rusniok, D Vallenet, S Floquet, H Ewles… - Genome biology, 2009 - Springer
Background Genome sequences, now available for most pathogens, hold promise for the
rational design of new therapies. However, biological resources for genome-scale …

Population and functional genomics of Neisseria revealed with gene-by-gene approaches

MCJ Maiden, OB Harrison - Journal of clinical microbiology, 2016 - Am Soc Microbiol
Rapid low-cost whole-genome sequencing (WGS) is revolutionizing microbiology; however,
complementary advances in accessible, reproducible, and rapid analysis techniques are …

Large-scale analysis of the meningococcus genome by gene disruption: resistance to complement-mediated lysis

MC Geoffroy, S Floquet, A Métais, X Nassif… - Genome …, 2003 - genome.cshlp.org
The biologic role of a majority of the Neisseria meningitidis 2100 predicted coding regions is
still to be assigned or experimentally confirmed. Determining the phenotypic effect of gene …

Neisseria meningitidis: using genomics to understand diversity, evolution and pathogenesis

DA Caugant, OB Brynildsrud - Nature Reviews Microbiology, 2020 - nature.com
Meningococcal disease remains an important cause of morbidity and death worldwide
despite the development and increasing implementation of effective vaccines. Elimination of …

Whole-genome comparison of disease and carriage strains provides insights into virulence evolution in Neisseria meningitidis

C Schoen, J Blom, H Claus… - Proceedings of the …, 2008 - National Acad Sciences
Neisseria meningitidis is a leading cause of infectious childhood mortality worldwide. Most
research efforts have hitherto focused on disease isolates belonging to only a few …

Independent evolution of the core and accessory gene sets in the genus Neisseria: insights gained from the genome of Neisseria lactamica isolate 020-06

JS Bennett, SD Bentley, GS Vernikos, MA Quail… - BMC genomics, 2010 - Springer
Abstract Background The genus Neisseria contains two important yet very different
pathogens, N. meningitidis and N. gonorrhoeae, in addition to non-pathogenic species, of …

Validation of a bioinformatics workflow for routine analysis of whole-genome sequencing data and related challenges for pathogen typing in a European National …

B Bogaerts, R Winand, Q Fu, J Van Braekel… - Frontiers in …, 2019 - frontiersin.org
Despite being a well-established research method, the use of whole-genome sequencing
(WGS) for routine molecular typing and pathogen characterization remains a substantial …

Homologous Recombination Drives Both Sequence Diversity and Gene Content Variation in Neisseria meningitidis

Y Kong, JH Ma, K Warren, RSW Tsang… - Genome biology and …, 2013 - academic.oup.com
The study of genetic and phenotypic variation is fundamental for understanding the
dynamics of bacterial genome evolution and untangling the evolution and epidemiology of …

A phylogenetic method to perform genome-wide association studies in microbes that accounts for population structure and recombination

C Collins, X Didelot - PLoS computational biology, 2018 - journals.plos.org
Genome-Wide Association Studies (GWAS) in microbial organisms have the potential to
vastly improve the way we understand, manage, and treat infectious diseases. Yet, microbial …