TABLE 2.

Phenotypic and genotypic characterization of denitrifying isolates

Genus (class or phylum) and isolateaIsolation conditionsDenitrificationcAerobic growthdSSU rRNA (rrs)Primer set (GenBank accession no.)eGenBank accession no. for draft genome sequence
Electron donorbNitrate concn (mM)N2O productionN2 productionnirKnosZnirKnosZ
Afipia (Alphaproteobacteria)
    1NLS2*Lactate0.5FJ85142516
    2LS1Lactate1FJ85142626
    3AS3*Acetate10NegPosPosFJ8514271 (GQ404513)6 (GQ404519)
    4AS1Acetate25NegPosFJ8514281 (GQ404514)6
    4LS2Lactate25NegPosFJ85142916
    4LS4Lactate25FJ85143026 (GQ404520)
    4LS5Lactate25NegPosFJ85143116
Hyphomicrobium (Alphaproteobacteria)
    1NES1*Ethanol0.5NegPosVWFJ8514384 (GU814013)6 (GQ404521)
    2NES1*Ethanol1NegPosFJ85143946 (GQ404522)
Rhodanobacter (Gammaproteobacteria)
    2AS1*Acetate1PosPosFJ8514433 (GQ404515)7 (GQ404523)
    2APBS1*APB1PosFJ8514443 (GQ404516)7 (GQ404524)GU233006, GU233007GU233008
    3LS1Lactate10PosPosFJ85144537
Intrasporangium (Actinobacteria)
    3APBS1*APB10PosNegPosFJ851441NegNeg
    3AS1Acetate10PosNegFJ851440NegNeg
    4LS1*Lactate25PosNegFJ851442NegNegGU233009
Bacillus (Firmicutes)
    1NLA3E*Lactate0.5PosNegPosFJ851432NegNeg
    2NLA3E*Lactate1FJ851433NegNeg
    AS31Lactate0.5FJ851434NegNeg
    A3S2Lactate0.5FJ851435NegNeg
    A3S3Lactate0.5FJ851436NegNeg
    AS34Lactate0.5FJ851437NegNeg
  • a An asterisk indicates that the isolate is presented in the phylogenetic tree (Fig. 1).

  • b Electron donor concentrations: acetate, 10 mM; lactate, 10 mM; ethanol, 20 mM; acetate, propionate, butyrate (APB), 10 mM.

  • c Production of nitrous oxide or nitrogen gas was tested by gas chromatography, as described in Materials and Methods. Neg, negative; Pos, positive; —, not tested.

  • d Pos, positive growth on agar medium under aerobic conditions; VW, very weak growth; —, not tested.

  • e Primer set number (Table 1) used for PCR amplification of the target gene. Amplification of 16S rRNA genes was performed using primers 27F and 1492R (Table 1). Neg, no amplification with any primer set for that functional gene.