The microbiota in bronchoalveolar lavage from young children with chronic lung disease includes taxa present in both the oropharynx and nasopharynx

Table 2 OTUs detected at >50 % relative abundance in each specimen type

Specimen type	OTU	SILVA reference taxonomy	BLASTn (% identity)	Maximum relative abundance (%)
NP swabs	OTU00003	Moraxella	Moraxella catarrhalis (98 %)	99.8
	OTU00002	Pasteurellaceae	Haemophilus influenzae (99 %)	96.7
	OTU00008	Staphylococcus	Staphylococcus aureus (100 %)	96.4
	OTU00012	Corynebacterium	Corynebacterium propinquum (100 %)	98.1
	OTU00001	Streptococcus	Mitis Group Streptococci (99 %)	94.9
	OTU00022	Moraxella	Moraxella nonliquefaciens (99 %)	94.1
	OTU00017	Enhydrobacter	Moraxella lincolnii (98 %)	81.2
	OTU00061	Unclassified	Mycoplasma amphoriforme (99 %)	61.3
	OTU00029	Flavobacteriaceae	Ornithobacterium rhinotracheale (90 %)	54.7
	OTU00060	Proteobacteria	Unclassified	53.6
OP swabs	OTU00006	Bacteroidetes	Porphyromonas sp. (99 %)	62.5
Lavage-1	OTU00003	Moraxella	Moraxella catarrhalis (98 %)	92.6
	OTU00008	Staphylococcus	Staphylococcus aureus (100 %)	83.8
	OTU00002	Pasteurellaceae	Haemophilus influenzae (99 %)	83.5
	OTU00022	Moraxella	Moraxella nonliquefaciens (99 %)	79.2
	OTU00011	Neisseria	Neisseria lactamica (99 %)	60.2
	OTU00004	Prevotella	Prevotella sp. (98 %)	51.9
Lavage-2	OTU00002	Pasteurellaceae	Haemophilus influenzae (99 %)	99.7
	OTU00003	Moraxella	Moraxella catarrhalis (98 %)	87.7
	OTU00001	Streptococcus	Mitis Group Streptococci (99 %)	67.4
	OTU00004	Prevotella	Prevotella sp. (98 %)	51.2

BLASTn identities were selected based on 100 % coverage and >98 % identity score (% identity), except for OTU00029 which was not identified above 90 % identity. This OTU was conditionally identified as Ornithobacterium rhinotracheale, but this taxonomy must be interpreted with caution. Bacterial load in specimens dominated by the Enhydrobacter OTU at >50 % relative abundance was consistently >1 × 10³ GE/μL extracted DNA (Additional file 1: Figure S5)

ISSN: 2049-2618