Table 1.

Methanotroph-specific primers and probes

Name (sequence)aTarget generaE. coli positionDescription
MethT1bR (5′-GATTCYMTGSATGTCAAGG-3′) Methylomonas Methylobacter Methylomicrobium Methylococcus 988–1006Degenerate version of 1035-RuMP (10) broadened to include M. capsulatus; 100% nucleotide identity to unidentifiedVibrionaceae clone (GenBank accession no. U14582), gas vacuolate strain 37 (U73721), gas vacuolate strain 174 (U73722), facultative barophile CNPT3 (U91588), marine psychrophile IC004 (U85849), and barophile WHB 46 clone 2 (X54745)
MethT1cR (5′-ATCCAATCGAGTTCCCAGGTTAAGCCC-3′) Methylomonas 614–640100% identity to Chromatium purpuratum and Gluconobacter oxydans; one mismatch at 5′ end with many Erwinia spp.
Methylobacter
Methylomicrobium
Methylococcus
MethT1dF (5′-CCTTCGGGMGCYGACGAGT-3′) Methylomonas 84–102100% identity to some Alcaligenes spp.,Ectothiorhodospira spp., and Thiobacillus spp., as well as some uncharacterized bacteria
Methylobacter
Methylomicrobium
Methylococcus
MethT2R (5′-CATCTCTGRCSAYCATACCGG-3′) Methylocystis 997–1017Specific for the two target genera
Methylosinus
  • a Y represents C or T; R represents A or G; M represents A or C; S represents C or G.