Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform

Table 2 Abundance (%) of bacterial mock community at the level of phylum

Taxonomic level Phylum	Expected abundance (%)	MiSeq platform				Roche 454 GS Junior
Taxonomic level Phylum	Expected abundance (%)	V1-V3 primer pair		V3-V4 primer pair		V1-V3 primer pair		V3-V4 primer pair
		MBx	MHx	MBx	MHx	MBx	MHx	MBx	MHx
Firmicutes	64	94.03	94.02	68.12	69.81	61.44	53.42	75.43	77.70
Proteobacteria	27	5.60	5.79	25.20	23.65	28.46	33.63	18.43	15.12
Actinobacteria	9	0.26	0.18	6.63	6.52	7.18	11.15	5.03	6.39

MBx In-house mock bacterial community with only bacterial DNA, MHx In-house mock bacterial community with human genomic DNA, V1-V3 primer pair primer pair targeting the V1-V3 hypervariable region of the 16S rRNA gene, V3-V4 primer pair primer pair targeting the V3-V4 hypervariable region of the 16S rRNA gene, Roche 454 GS Junior platform pyrosequencing next generation sequencing platform, MiSeq platform sequencing by synthesis next generation sequencing platform

ISSN: 1471-2180