Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host

Table 3 Percent variance explained by systematic and host-specific biological factors in New Zealand Sheep Rumen Samples

Profiling Metric	Group^a	Cohort^b	Library^c	BatchShelf^d	Well^e	BRR^f	AOD^g	BDEV^h
Number of Reads	3.74***	3.79***	4.08***	13.94***	16.44***	0.07	0.01	0.02
RB_Prop	15.18***	22.67***	6.66***	7.25**	10.36	0.14	0.05	0.30
RF_Prop	8.77***	28.27***	34.00***	7.66**	10.23	0.42	0.01	0.09

^aGroup = the combination of diet, age, time off feed, and country
^bCohort = the set of samples that were collected during the same period
^cLibrary = the set of samples that were sequenced simultaneously
^dBatchShelf = the sample freeze-drying and grinding batch, and freeze-drying shelf
^eWell = the position on the DNA extraction plate
^fBRR = birth rear rank, i.e., the combination of the number of lambs born to the dam at the time the lamb was born, and the number of lambs that were reared
^gAOD = age of dam at time the individual was born
^hBDEV = birth date deviation within contemporary group
P-values from an F-test
^* < 0.05
^** < 0.001
^*** < 0.00001

ISSN: 1471-2164