Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Comparative genome hybridization of meningococcal isolates II

ABSTRACT: Meningococcal strains from different serogroups and different clonal complexes were compared using cGH analyses DNA isolated from the various strains were compared using a common reference design where the common reference comprised of a pool of all individual DNA´s.

ORGANISM(S): Neisseria meningitidis

SUBMITTER: Biju Joseph

PROVIDER: E-GEOD-18158 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Publications

Evaluation of one- and two-color gene expression arrays for microbial comparative genome hybridization analyses in routine applications.

Schwarz Roland R Joseph Biju B Gerlach Gabriele G Schramm-Glück Anja A Engelhard Kathrin K Frosch Matthias M Müller Tobias T Schoen Christoph C

Journal of clinical microbiology 20100630 9

DNA microarray technology has already revolutionized basic research in infectious diseases, and whole-genome sequencing efforts have allowed for the fabrication of tailor-made spotted microarrays for an increasing number of bacterial pathogens. However, the application of microarrays in diagnostic microbiology is currently hampered by the high costs associated with microarray experiments and the specialized equipment needed. Here, we show that a thorough bioinformatic postprocessing of the micro ...[more]

PMID: 20592156

Similar Datasets

Project description:Vaccines to prevent capsular group B meningococcal disease have been based on proteins, as the polysaccharide capsule was deemed unsuitable due to its similarity to human tissues. Outer membrane vesicle (OMV) vaccines have been targeted at specific capsular group B epidemics in Cuba, Norway, and New Zealand, with the major immunogen determined as porin A (PorA). Subcapsular protein vaccines aim to increase breadth of coverage of meningococcal strains, by the inclusion of protein variants from many different clonal complexes (ccs). Using scalable and portable genomic techniques, it is possible to study the diversity of OMV and subcapsular proteins in relevant meningococcal populations. Shotgun proteomics identified 461 proteins in the OMVs derived from NZ98/254, a component of the Bexsero® vaccine, with a complex proteome comprised of outer membrane proteins and proteins from other cellular compartments. Amino acid sequences for 24 selected proteins were catalogued within the PubMLST Neisseria database as part of the OMV peptide Typing (OMVT) scheme. Of the 24 proteins included, there was variation in the extent of diversity and association with ccs from the most conserved peptides FbpA (NEISp0578) and putative periplasmic proteins (NEISp1063) to the most diverse TbpA (NEISp1690). There were 1752 OMVTs identified amongst 2492/3506 isolates. OMVTs were further grouped into clusters (identical at ≥18 peptide sequences), 45.3% of isolates were assigned to one of 27 OMVT clusters. Both OMVTs and clusters were strongly associated with cc, genogroup and recombinant Bexsero® antigens. The OMVT scheme represents an open-access, web-based tool for the systematic analysis of the multiple components of OMV vaccines, demonstrating that combinations of OMV proteins exist in discrete, non-overlapping combinations associated with both genogroup and Bexsero® Antigen Sequence type (BAST). This highly structured population of disease-causing meningococci is consistent with proposed effects of host immune selection and competition between allelic variants on meningococcal population structure. This has implications for future vaccine assessment, and development, especially the choice of antigen combinations. The methodology is portable and will facilitate region-specific WGS interrogation, allowing informed choices about vaccine development or implementation.

Dataset Information

Comparative genome hybridization of meningococcal isolates II

Publications

Evaluation of one- and two-color gene expression arrays for microbial comparative genome hybridization analyses in routine applications.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure