Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms

Table 3 Functional distance-based PERMANOVA results for differences in general functional community composition (EggNOG) and carbohydrate-active enzymes (CAZY) between host species and host environments based on shared abundance (Bray-Curtis) and shared presence (Jaccard) of functions (P values are adjusted via Hommel procedure)

Distance	Factor	Data	DF	F	P	P _Hommel	R ²	adj. R²
Bray-Curtis	Organism	CAZY	10,47	7.3323	0.0001	0.0001	0.6094	0.5263
		EggNOG categories	10,49	5.6088	0.0001	0.0001	0.5337	0.4386
		EggNOG gene + description	10,49	4.4454	0.0001	0.0001	0.4757	0.3687
		EggNOG (MEGAN categories)	10,49	12.2594	0.0001	0.0001	0.7144	0.6562
		EggNOG (MEGAN gene)	10,49	8.2788	0.0001	0.0001	0.6282	0.5523
	Environment	CAZY	1,56	5.4257	0.0001	0.0007	0.0883	0.0721
		EggNOG categories	1,58	2.5429	0.0195	0.0195	0.0420	0.0255
		EggNOG gene + description	1,58	3.0662	0.0001	0.0007	0.0502	0.0338
		EggNOG (MEGAN categories)	1,58	3.7703	0.0015	0.0030	0.0610	0.0448
		EggNOG (MEGAN gene)	1,58	3.7271	0.0002	0.0012	0.0604	0.0442
Jaccard	Organism	CAZY	10,47	3.9098	0.0001	0.0001	0.4541	0.3380
		EggNOG categories	10,49	3.7179	0.0001	0.0001	0.4314	0.3154
		EggNOG gene + description	10,49	2.5275	0.0001	0.0001	0.3403	0.2057
		EggNOG (MEGAN categories)	10,49	7.7781	0.0001	0.0001	0.6135	0.5346
		EggNOG (MEGAN gene)	10,49	5.4989	0.0001	0.0001	0.5288	0.4326
	Environment	CAZY	1,56	2.5866	0.0003	0.0021	0.0442	0.0271
		EggNOG categories	1,58	1.4180	0.1442	0.1442	0.0239	0.0070
		EggNOG gene + description	1,58	1.9535	0.0004	0.0024	0.0326	0.0159
		EggNOG (MEGAN categories)	1,58	3.0425	0.0460	0.0920	0.0498	0.0335
		EggNOG (MEGAN gene)	1,58	3.1222	0.0001	0.0009	0.0511	0.0347

ISSN: 2049-2618