Genomics

Dataset Information

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Host genotyping data from Dutch adult bacterial meningitis patients and linked bacterial genome sequences

ABSTRACT: Streptococcus pneumoniae is a common nasopharyngeal colonizer, but can also cause life-threatening invasive diseases such as empyema, bacteremia and meningitis. Genetic variation of host and pathogen is known to play a role in invasive pneumococcal disease, though to what extent is unknown. This study includes 1146 samples of host genotyping data (genotyped and imputed) from Illumina Omni arrays. Samples were collected from adults (>16 yrs) patients with CSF confirmed bacterial meningitis in the Netherlands between 2006 and 2015. Metadata includes patient outcome, species of bacteria, and for 467 samples a link to an ENA run with the associated bacterial genome (S. pneumoniae only).

PROVIDER: EGAS00001005993 | EGA |

REPOSITORIES: EGA

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Publications

Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis.

Lees John A JA   Ferwerda Bart B   Kremer Philip H C PHC   Wheeler Nicole E NE   Serón Mercedes Valls MV   Croucher Nicholas J NJ   Gladstone Rebecca A RA   Bootsma Hester J HJ   Rots Nynke Y NY   Wijmega-Monsuur Alienke J AJ   Sanders Elisabeth A M EAM   Trzciński Krzysztof K   Wyllie Anne L AL   Zwinderman Aeilko H AH   van den Berg Leonard H LH   van Rheenen Wouter W   Veldink Jan H JH   Harboe Zitta B ZB   Lundbo Lene F LF   de Groot Lisette C P G M LCPGM   van Schoor Natasja M NM   van der Velde Nathalie N   Ängquist Lars H LH   Sørensen Thorkild I A TIA   Nohr Ellen A EA   Mentzer Alexander J AJ   Mills Tara C TC   Knight Julian C JC   du Plessis Mignon M   Nzenze Susan S   Weiser Jeffrey N JN   Parkhill Julian J   Madhi Shabir S   Benfield Thomas T   von Gottberg Anne A   van der Ende Arie A   Brouwer Matthijs C MC   Barrett Jeffrey C JC   Bentley Stephen D SD   van de Beek Diederik D  

Nature communications 20190515 1

Streptococcus pneumoniae is a common nasopharyngeal colonizer, but can also cause life-threatening invasive diseases such as empyema, bacteremia and meningitis. Genetic variation of host and pathogen is known to play a role in invasive pneumococcal disease, though to what extent is unknown. In a genome-wide association study of human and pathogen we show that human variation explains almost half of variation in susceptibility to pneumococcal meningitis and one-third of variation in severity, ide  ...[more]

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