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. 2010 Mar 19;76(10):3244–3254. doi: 10.1128/AEM.03069-09

TABLE 2.

Phenotypic and genotypic characterization of denitrifying isolates

Genus (class or phylum) and isolatea Isolation conditions
 Denitrificationc
 Aerobic growthd SSU rRNA (rrs) Primer set (GenBank accession no.)e
 GenBank accession no. for draft genome sequence
Electron donorb Nitrate concn (mM) N2O production N2 production nirK nosZ nirK nosZ
Afipia (Alphaproteobacteria)
    1NLS2* Lactate 0.5 — — — FJ851425 1 6
    2LS1 Lactate 1 — — — FJ851426 2 6
    3AS3* Acetate 10 Neg Pos Pos FJ851427 1 (GQ404513) 6 (GQ404519)
    4AS1 Acetate 25 Neg Pos — FJ851428 1 (GQ404514) 6
    4LS2 Lactate 25 Neg Pos — FJ851429 1 6
    4LS4 Lactate 25 — — — FJ851430 2 6 (GQ404520)
    4LS5 Lactate 25 Neg Pos — FJ851431 1 6
Hyphomicrobium (Alphaproteobacteria)
    1NES1* Ethanol 0.5 Neg Pos VW FJ851438 4 (GU814013) 6 (GQ404521)
    2NES1* Ethanol 1 Neg Pos — FJ851439 4 6 (GQ404522)
Rhodanobacter (Gammaproteobacteria)
    2AS1* Acetate 1 Pos Pos — FJ851443 3 (GQ404515) 7 (GQ404523)
    2APBS1* APB 1 — — Pos FJ851444 3 (GQ404516) 7 (GQ404524) GU233006, GU233007 GU233008
    3LS1 Lactate 10 Pos Pos — FJ851445 3 7
Intrasporangium (Actinobacteria)
    3APBS1* APB 10 Pos Neg Pos FJ851441 Neg Neg
    3AS1 Acetate 10 Pos Neg — FJ851440 Neg Neg
    4LS1* Lactate 25 Pos Neg — FJ851442 Neg Neg GU233009
Bacillus (Firmicutes)
    1NLA3E* Lactate 0.5 Pos Neg Pos FJ851432 Neg Neg
    2NLA3E* Lactate 1 — — — FJ851433 Neg Neg
    AS31 Lactate 0.5 — — — FJ851434 Neg Neg
    A3S2 Lactate 0.5 — — — FJ851435 Neg Neg
    A3S3 Lactate 0.5 — — — FJ851436 Neg Neg
    AS34 Lactate 0.5 — — — FJ851437 Neg Neg
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.