ASVs	Amplicon sequence variants
BAL	Bronchoalveolar lavage
CF	Cystic fibrosis
CFLD	Cystic fibrosis-related liver disease
CFRD	Cystic fibrosis-related diabetes
CFTR	Cystic fibrosis transmembrane conductance regulator
CT	Chest radiography
CTRLs	Controls
DIOS	Distal intestinal obstruction syndrome
EMA	European Medicines Agency
ETI	Elexacaftor/tezacaftor/ivacaftor
FDA	Food and Drug Administration
GI	Gastrointestinal
GM	Gut microbiota
KEGG	Kyoto Encyclopedia of Genes and Genomes
LCI	Lung clearance index
LDA	Linear discriminant analysis
LEfSe	Linear discriminant analysis effect size
MDR	Multi-drug resistant
MRSA	Methicillin-resistant Staphylococcus aureus
NIV	Non-invasive ventilation
OPBG	Ospedale Pediatrico Bambino Gesù
PCA	Principal component analysis
PCoA	Principal coordinate analysis
PERT	Pancreatic enzyme replacement therapy
PICRUSt2	Phylogenetic Investigation of Communities by Reconstruction of Unobserved States
pwCF	People with cystic fibrosis
RMSE	Root mean square error
SD	Standard deviation
SEM	Standard error of mean