Table 1.

Overview of bacteria found in the explanted lung samples by culturing and 16S rRNA gene analysis

Patient	Culturing	16S rRNA gene analysis
		Species (BLAST)a	OTU	No.b
Patient 1	Achromobacter xylosoxidans	Achromobacter xylosoxidans	1	115
		Uncultured bacterium	2*c	3
		Burkholderia fungorum	3	2
		Uncultured bacterium	4*	2
		Bacillus cereus	5	1
		Uncultured Flavobacterium	6*	1
		Uncultured bacterium	7*	1
		Uncultured bacterium	8*	1
		Uncultured bacterium	9*	1
		Uncultured bacterium	10*	1
Patient 2	Pseudomonas aeruginosa	Pseudomonas aeruginosa	1	118
		Lactobacillus mucosae	2	1
Patient 3	Pseudomonas aeruginosa	Pseudomonas aeruginosa	1	406
		Uncultured Bacteroidetes bacterium	2	27
		Stenotrophomonas maltophilia	3	11
		Uncultured bacterium	4*	3
		Uncultured bacterium	5*	2
		Uncultured Saprospiraceae bacterium	6	1
		Uncultured Bacteroidetes bacterium	7	1
		Uncultured bacterium	8*	1
		Uncultured bacterium	9*	1
		Uncultured bacterium	10*	1
Patient 4	Pseudomonas aeruginosa	Pseudomonas aeruginosa	1	191
	Stenotrophomonas maltophilia	Stenotrophomonas maltophilia	2	6
		Uncultured bacterium	3	2
		Uncultured betaproteobacterium	4	1
		Uncultured betaproteobacterium	5*	1
		Uncultured betaproteobacterium	6	1
		Polaromonas sp.	7	1
		Uncultured bacterium	8*	1
		Uncultured bacterium	9	1
Patient 5	Achromobacter xylosoxidans	Achromobacter xylosoxidans	1	440
		Stenotrophomonas maltophilia	2	1

^aThe species found by 16S rRNA gene analysis is given by the closest relatives of the bacterial OTUs in clone libraries for the patients.

^bThe number of sequences that make up the OTUs.

^cAsterisks indicate clones where the identification by BLAST differed from the identification made by phylogenetic analysis.