TABLE 2.

Diversity indices with 97% or 90% similarity cutoffs for comammox amoA gene sequences^a

Sample name	Cutoff
	97%			90%
	No. of OTUs	Chao1	Shannon	No. of OTUs	Chao1	Shannon
Dry land soil	82	160	3.00	36	66	2.43
Coal mine soil	64	99	3.17	41	59	2.08
Landfill soil	141	224	4.44	69	81	3.79
Paddy soil	85	139	3.89	37	46	2.96
Plateau soil	144	187	5.33	50	60	4.18
Forest soil	56	99	2.54	30	93	2.04
Tidal flat sediment	128	184	5.03	64	84	4.20
Saltmarsh sediment	117	148	4.25	66	73	3.83
Coastal sediment	76	144	3.55	41	53	3.06
River sediment	139	225	4.76	73	90	3.83
Lake sediment	111	211	2.81	49	65	2.22
Anaerobic sludge	51	181	1.93	26	59	1.66
Tap water	50	75	2.44	27	34	1.48
Coastal water	50	107	2.78	28	43	2.22
River water	162	243	4.87	61	84	3.86
Lake water	54	90	2.69	31	61	1.97
Leaf surface	78	152	3.40	38	114	2.84

^aAmplified with partial nested PCR in different environmental samples after the read numbers were rarified to 1,900 for each sample.