TABLE 3 .

Comparison of pedigree-based and genome-wide measures of kinship to take host genetics into account in a permutational analysis of variance (adonis) on salivary microbiome dissimilarities of 111 individuals^a

Variableb	Pedigree (kinship2)		Genome-wide SNPs (LDAK)
	R2	P	R2	P
Sequencing plate	0.028	<0.001	0.028	<0.001
Gender	0.011	0.094	0.011	0.096
Age	0.023	<0.001	0.023	<0.001
MDS1	0.010	0.174	0.011	0.119
MDS2	0.007	0.706	0.010	0.231
MDS3	0.012	0.063	0.011	0.131
MDS4	0.016	0.009	0.011	0.111
MDS5	0.009	0.325	0.007	0.617
Parental household	0.215	<0.001	0.217	<0.001
Residuals	0.670		0.671
Total	1		1

^aUsing pedigree information to produce kinship results in a significant association with human genetics via the fourth MDS axis, which is not present using kinships calculated with LDAK based on genome-wide SNPs.

^bThe order of variables in the model is given by their order in the table.