Differential nasopharyngeal microbiota composition according to respiratory health status

This project contains 16S rRNA gene sequencing data from the nasopharyngeal samples of children with Invasive Pneumococcal Disease (n=27), children with symptomatic upper viral respiratory infections (n=48) and healthy children (n=65) included in the paper: "Differential nasopharyngeal microbiota composition in children according to respiratory health status". This project also includes the sequencing data of negative controls. Bacterial DNA was extracted from samples by the automated system NucliSENS easyMag (BioMérieux, Marcy-l'Étoile, France) and 16S rRNA gene was amplified by using gene-specific primer sequences that target the hypervariable V3-V4 regions, of approximately 465 bp in length: 5'-CCTACGGGNGGCWGCAG-3' (S-D-Bact-0341-b-S-17) and 5'-GACTACHVGGGTATCTAATCC-3' (S-D-Bact-0785-a-A-21). A second amplification step attached dual index barcodes and Illumina sequencing adapters to the amplicons previously generated using the Nextera Index kit (Illumina, San Diego, California, USA). Amplicons from each sample were pooled in equimolar amounts and sequenced with Illumina Miseq platform (Illumina, San Diego, California, USA) with paired-end sequencing technology generating 2 x 300 bp reads.