Species-level resolution of 16S rRNA gene amplicons sequenced through the MinION™ portable nanopore sequencer

Table 2 Taxonomy assignment of 2d reads derived from 16S rDNA sequencing using MinION™

Genus assignment	At 80 % identity (SINA)	At 70 % identity (SINA)	At 60 % identity (SINA)	Species assignment (Blast^a)
Bacillus	3	3	4	*B. cereus*
Escherichia	61	93	103	*E. coli* , E. fergusonii, Shigella flexneri
Streptococcus	69	96	111	*S. mutans* , S. gordonii, *S. agalactiae*
Lactobacillus	2	2	3	*L. gasseri* , L. fornicalis
Staphylococcus	37	55	60	*S. epidermidis* , S. capitis, *S. aureus*
Rhodobacter	4	8	10	*R. sphaeroides*
Clostridium	0	2	2	N/A
Listeria	0	0	1	N/A
Cronobacter*	0	1	1	N/A
Yersinia*	0	0	1	N/A
Citrobacter*	0	0	1	C. koseri, C. muytjensii
Alteromonas*	0	0	1	N/A
Burkholderia*	0	0	1	N/A
Sulfitobacter*	0	0	1	N/A
Total assigned	176/601	260/601	300/601	172/601

^aBlast searching against the NCBI bacterial 16S database. Valid assignments were based on E-values < 1e⁻⁰³ and alignments larger than 800 bp. N/A means no species was found for the respective genus. Species matching with those present in the mock community are underlined and in bold. Rows with genera, species, and read counts highlighted with asterisk (*) indicate they are not expected to be present in the mock community