The sputum microbiome is distinct between COPD and health, independent of smoking history

Haldar, Koirobi; George, Leena; Wang, Zhang; Mistry, Vijay; Ramsheh, Mohammadali Yavari; Free, Robert C.; John, Catherine; Reeve, Nicola F.; Miller, Bruce E.; Tal-Singer, Ruth; Webb, Adam J.; Brookes, Anthony J.; Tobin, Martin D.; Singh, Dave; Donaldson, Gavin C.; Wedzicha, Jadwiga A.; Brown, James R.; Barer, Michael R.; Brightling, Christopher E.

doi:10.1186/s12931-020-01448-3

Respiratory Research

Table 2 OTU groups that distinguish the Healthy and the COPD subjects

From: The sputum microbiome is distinct between COPD and health, independent of smoking history

OTU	Taxonomy	Healthy_mean	COPD_mean	FDR_P	Bonferroni_P
579,608	Firmicutes\|Bacilli\|Lactobacillales\|Streptococcaceae\|Streptococcus	658	88	0.001	0·020
787,709	Actinobacteria\|Actinobacteria\|Actinomycetales\|Actinomycetaceae\|Actinomyces	363	64	0.001	0·020
1,078,207	Firmicutes\|Bacilli\|Lactobacillales\|Streptococcaceae\|Streptococcus	7	184	0.001	0·020
865,469	Proteobacteria\|Gammaproteobacteria\|Pasteurellales\|Pasteurellaceae\|Haemophilus	297	2150	0.001	0·020
585,419	Firmicutes\|Clostridia\|Clostridiales\|Veillonellaceae\|Veillonella	1611	1214	0.001	0·020
1,083,037	Proteobacteria\|Gammaproteobacteria\|Pseudomonadales\|Moraxellaceae\|Moraxella	12	345	0.001	0·020
968,954	Firmicutes\|Bacilli\|Lactobacillales\|Streptococcaceae\|Streptococcus	906	2	0.001	0·020
932,696	Proteobacteria\|Gammaproteobacteria\|Enterobacteriales\|Enterobacteriaceae\|Erwinia	0	782	0.001	0·020
579,924	Proteobacteria\|Gammaproteobacteria\|Pasteurellales\|Pasteurellaceae\|	2	210	0.001	0·020
1,083,194	Firmicutes\|Bacilli\|Lactobacillales\|Streptococcaceae\|Streptococcus	1290	5	0.001	0·020
1,027,587	Firmicutes\|Bacilli\|Lactobacillales\|Carnobacteriaceae\|Granulicatella	57	702	0.001	0·020
1,017,181	Actinobacteria\|Actinobacteria\|Actinomycetales\|Micrococcaceae\|Rothia	488	63	0.001	0·020
667,570	Proteobacteria\|Gammaproteobacteria\|Enterobacteriales\|Enterobacteriaceae\|Cronobacter	0	702	0.001	0·020
935,742	Bacteroidetes\|Bacteroidia\|Bacteroidales\|Prevotellaceae\|Prevotella	298	101	0.001	0·020
342,427	Firmicutes\|Clostridia\|Clostridiales\|Veillonellaceae\|Veillonella	44	284	0.001	0·020

Non-parametric t-test was performed on rarefied OTU table at 11,000 reds with OTUs that were observed in minimum 25% of the total number of samples and had a minimum contribution of 1% of the total reads

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ISSN: 1465-993X

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