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Airway Metagenomes from People with Cystic Fibrosis in South Australia

This study comprises 127 respiratory specimens (sputum and bronchoalveolar lavage fluid) collected from 64 individuals with cystic fibrosis receiving clinical care in South Australia. DNA was extracted and subjected to shotgun metagenomic sequencing using both MGI and Oxford Nanopore Technologies platforms. The dataset captures diverse clinical states, including stable periods, antimicrobial exposure, pulmonary exacerbations, and varying lung-function metrics. The study aims to characterise taxonomic and functional diversity, pathogen dynamics—including early detection of Pseudomonas aeruginosa—and the ecological structure of CF airway microbiomes.

Type: Metagenomics
Archive: European Genome-phenome Archive (EGA)

1 Dataset

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD50000002144	This dataset contains encrypted raw sequencing files generated from sputum and bronchoalveolar lavage samples collected from individuals with cystic fibrosis in Adelaide, South Australia, Australia. DNA was extracted following microbial-enrichment protocols and sequenced using MGI short-read and Oxford Nanopore long-read technologies to characterise the microbial and viral communities present in the lower airways. The dataset includes paired-end short-read whole-genome metagenomes and single-molecule long-read metagenomes, accompanied by non-identifiable sample metadata. All data are controlled-access and may be used only for ethically approved research into respiratory microbiomes, host–microbe interactions, pathogen dynamics, and related biomedical or computational methods.	DNBSEQ-G400 MinION PromethION	127