Table 2.

Summary of the optimal linear mixed model explaining microbial phylogenetic diversity of body sites in relation to the main factors

DOI: http://dx.doi.org/10.7554/eLife.00458.004

Age group	Body site	Term	Type	Estimate	SE	%Variability
All	Palms (L&R)	NoDog	Fixed	−0.19	0.06
		Family	Random			38.98
		Age	Random			17.14
		Plate	Random			4.34
		FamSize	Random			0.38
		Lane	Random			0
		BS	Random			0
		Residual				39.16
	Forehead	Family	Random			24.85
		Age	Random			15.41
		Lane	Random			8.50
		FamSize	Random			7.81
		Plate	Random			6.33
		Residual				37.10
	Fecal	Age	Random			45.64
		Plate	Random			7.15
		FamSize	Random			3.08
		Family	Random			2.24
		Lane	Random			2.97 × 10-9
		Residual				41.88
	Oral	Age	Random			35.92
		Family	Random			14.54
		Lane	Random			3.64
		Plate	Random			4.60 × 10-10
		FamSize	Random			0
		Residual				45.90
Adults	Palms (L&R)	NoDogs	Fixed	−0.22	0.068
		Male	Fixed	−0.11	0.031
		Family	Random			46.90
		Plate	Random			2.77
		FamSiz	Random			5.17 × 10-11
		Lane	Random			2.16 × 10-12
		BS	Random			0
		Residual				50.33
	Forehead	NoDogs	Fixed	−0.27	0.087
		Family	Random			34.91
		FamSize	Random			9.08
		Plate	Random			0.80
		Lane	Random			0
		Residual				55.21
	Fecal	Family	Random			20.20
		Lane	Random			9.77
		FamSize	Random			0
		Plate	Random			0
		Residual				70.03
	Oral	Family	Random			26.16
		FamSize	Random			14.59
		Lane	Random			3.43
		Plate	Random			3.42
		Residual				52.40

The model takes into account the variability between age groups (Age), families (Family), family sizes (FamSize), sequencing lanes (Lane), and primer plates (Plate). Variability between left and right palms (BS) is also controlled for in the palm model. The table gives parameter estimates and standard errors for the significant terms in the model and the percentage of explained variability for each of the random effects ordered from highest to lowest.