Nasopharyngeal microbiota composition in infants with whooping cough compared to healthy controls.. Nasopharyngeal microbiota composition in infants with whooping cough.

This project contains 16S rRNA gene sequencing data from nasopharyngeal samples of 42 children younger than 1 year included in the paper: "Exploring the nasopharyngeal microbiota composition in infants with whooping cough: a test-negative case-control study". This study included 12 confirmed cases of whooping cough (clinical criteria and laboratory confirmation), 21 possible cases of whooping cough (only meeting clinical criteria) 9 and healthy/assymptomatic controls. Sequencing data for negative controls (PBS) is also included. Bacterial DNA was extracted by Nuclisens® EasyMag® (bioMérieux, Marcy-l’Etolie, France) according to manufacturer instructions and the V3-V4 region of the 16S rRNA gene (approximately 465bp in length) was amplified using the degenerate universal bacterial primers 41F (5’- CCTACGGGNGGCWGCAG-3’) and 805R (5’- GACTACHVGGGTATCTAATCC-3’). Next-generation sequencing library was build using 5 ng of total DNA for each sample using Nextera DNA Library Preparation kit (Illumina) according to the manufacturer's instructions and was further sequenced using Illumina MiSeq 2x300 bp reads.