Survey of methanotrophic diversity in various ecosystems by degenerate methane monooxygenase gene primers

AMB Express

Table 2 Comparison of targeting ability between two newly designed degenerate primers and pmoA189

Phylum	pmoC374				pmoA344				pmoA189
	Mismatches				Mismatches				Mismatches
	0	1	2	3	0	1	2	3	0	1	2	3
Gammaproteobacteria	10/18	18/18	18/18	18/18	16/18	18/18	18/18	18/18	7/18	18/18	18/18	18/18
Alphaproteobacteria	16/16	16/16	16/16	16/16	14/16	16/16	16/16	16/16	16/16	16/16	16/16	16/16
Verrucomicrobia	3/7	5/7	5/7	6/7	0/7	0/7	1/7	3/7	0/7	0/7	0/7	3/7
NC10	1/1	1/1	1/1	1/1	0/1	0/1	0/1	0/1	1/1	1/1	1/1	1/1

Percent sequence coverage of all pmoCAB available sequences within each phylum were calculated by looking at how many sequences each primer could target. Targeting ability is also shown for zero, one, two and three mismatches within each primer