TABLE 1.

PCR primers used in this study

Primer setIndividual primerGeneSequence (5′→3′)Primer positionAnnealing temp (°C)Intended targetSource
27FrrsAGA GTT TGA TCM TGG CTC AG8-27a55BacteriaLane (34)
1492RGGT TAC CTT GTT ACG ACT T1510-1492a
1nirK1FnirKGGM ATG GTK CCS TGG CA526-542b56UniversalBraker et al. (7)
nirK5RGCC TCG ATC AGR TTR TGG1040-1023b
2F1aCunirKATC ATG GTS CTG CCG CG568-584b50UniversalHallin and Lindgren (21)
R3CuGCC TCG ATC AGR TTG TGG TT1040-1021b
3MG763-F1aCunirKATC CTG GTC GAG CCG CC568-584b73RhodanobacterThis study
MG763-R3CuGCG CGG AAG ATC GAG TGG TC1040-1021b
4HD-nirkF1nirKCCA GCT CAA CCT TCT CGT TC439-458c55Hyphomicrobium denitrificansThis study
HD-nirKR1TTG CAT GAC GTA GAA CTC GC1040-1021c
5nirS1FnirSCCT AYT GGC CGC CRC ART763-780d61UniversalBraker et al. (7)
nirS6RCGT TGA ACT TRC CGG T1653-1638d
6nosZ2FnosZCGC RAC GGC AAS AAG GTS MSS GT1603-1625e65UniversalHenry et al. (23)
nosZ2RCAK RTG CAK SGC RTG GCA GAA1869-1849e
7Rh-nosZ-FnosZCGG CTG GGG TGT CAC CAA303-320e63RhodanobacterThis study
Rh-nosZ-RCAT GTG CAT CGC ATG GCA GAA1869-1849e
  • a According to the rrs gene of Escherichia coli (E05133).

  • b According to the nirK gene of Alcaligenes faecalis (D13155).

  • c According to the nirK gene of Hyphomicrobium denitrificans (AB076606).

  • d According to the nirS gene of Pseudomonas stutzeri (X56813).

  • e According to the nosZ gene of Pseudomonas fluorescens (AF197468).