TABLE 1 .

Classification of the Lake Mendota data set^a using SILVA alone, the FreshTrain alone, or TaxAss to leverage both databases

Taxonomy level	% classified byb:			Taxonomic richness withc:
	SILVA	TaxAss	FreshTrain	SILVA	TaxAss	FreshTrain
Phylum	97	98	85	63	63	6
Class	96	97	84	160	162	10
Order	83	91	76	387	388	31
Family/lineage	72	82	69	700	742	57
Genus/clade	35	63	56	1,468	1,529	94
Species/tribe	0	41	41	1,468	1,579	147

^aVersions of this table for each tested data set can be found in Table S2.

^b% classified = total reads classified/total reads in data set × 100%.

^cTaxonomic richness represents total unique classifications.