Table 1.

Number of read counts, OTUs, and results of alpha-diversity metrics in the ruminal microbial and chloroplast composition of sika deer summarized by season and location.

Ruminal community	Groupsa	Number of samples	Read count/sampleb	OTU/sampleb	Observed OTUsb	q-valuec	Shannonb	q-valuec	Faith’s PDb	q-valuec	Pielou’s evennessb	q-valuec
Bacteria	NW	12	303,368 (104,305)	348.4 (48.4)	1873.8 (481.3)	0.83	8.9 (0.7)	0.41	126.2 (23.4)	0.54	0.82 (0.04)	0.10
	NS	10	256,181 (30,447)	388.5 (25.1)	2174.8 (322.7)	0.59	9.1 (0.6)	0.43	145.5 (14.2)	0.51	0.82 (0.04)	0.10
	HW	5	168,101 (10,281)	397.8 (12.4)	1998.4 (171.7)	0.59	9.5 (0.3)	0.41	141.4 (8.1)	0.23	0.86 (0.02)	0.90
	p-valued				0.42		0.34		0.18		0.12
Eukaryotae	NW	12	302,958 (171,675)	44.9 (16.4)	65.4 (20.9)	0.71	1.4 (0.5)	0.02	14.6 (5.0)	0.75	0.24 (0.09)	0.02
	NS	10	191,784 (72,609)	48.9 (6.9)	78.0 (16.1)	0.49	2.4 (0.6)	0.002	17.4 (4.0)	0.21	0.38 (0.09)	0.006
	HW	5	166,911 (53,320)	44.8 (16.7)	71.4 (27.1)	0.49	2.2 (0.5)	0.54	13.3 (2.5)	0.21	0.36 (0.07)	0.62
	p-valued				0.37		0.001		0.17		0.003
Chloroplast	NW	12	114,621 (98,009)	35.6 (11.7)	70.3 (28.9)	0.23	2.6 (0.8)	0.29	2.5 (0.4)	0.14	0.4 (0.1)	0.14
	NS	10	62,179 (26,875)	44.8 (8.4)	107.7 (36.4)	0.06	3.7 (0.8)	0.05	2.6 (0.4)	0.69	0.6 (0.1)	0.69
	HW	5	30,892 (23,085)	26.2 (9.2)	53.4 (24.7)	0.05	2.8 (0.8)	0.17	2.0 (0.4)	0.14	0.5 (0.1)	0.14
	p-valued				0.02		0.036		0.14		0.21

^aNW, Nagano winter; NS, Nagano spring; HW, Hokkaido winter.

^b() indicates standard deviation.

^cq-values for each pair were calculated by pairwise Kruskal–Wallis test. q-values in NW, NS, and HW show the statistics against HW, NW, and NS, respectively.

^dp-values for all groups were calculated by Kruskal–Wallis test.

^eMitochondria and chloroplast taxa were excluded.