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. 2015 Mar 12;81(7):2339–2348. doi: 10.1128/AEM.03358-14

TABLE 2.

D. alaskensis G20 genes identified as important for syntrophic growth as the electron-accepting partnera

Gene type and locus tag Gene annotation H2-SO42− growth Expression fold change in G20b
Coculture with S. aciditrophicus Coculture with S. wolfei Pure culture on H2-SO42−
Surface assembly genes
    Dde_0215 Glycosyl transferase, group 2 family protein ++ 0.659 0.193† –0.28†
    Dde_0439 Glycosyl or glycerophosphate transferase +++ 3.06** 1.85* 0.04
    Dde_0590 Cardiolipin synthase +++ 0.393† 0.11† 0.068†
Flagellum and pilus assembly genes
    Dde_0353 FliF flagellar ring protein +++ 3.88** 2.02** 0.323
    Dde_0380 FlhA flagellar biosynthesis protein ++ 2.79** 1.80* –0.19
    Dde_2365 TadC, Flp pilus assembly protein +++ ND ND 1.22*†
Energy metabolism genes
    Dde_0582 Electron transport complex RnfD + 0.494 2.02** 1.21*
    Dde_0585 Electron transport complex RnfA – 0.413 1.91* 1.37*
    Dde_0604 Pyruvate phosphate dikinase +++ –0.51 0.36† 0.0004†
    Dde_0653 High-molecular-weight cytochrome c – –1.34* –0.67 0.82
    Dde_0681 Fe-S cluster hydrogenase component +++ 4.52** 3.51*† 2.29**†
    Dde_2281 Iron-only hydrogenase + –0.079 –1.99† 2.87**
    Dde_2933 Qrc-quinone reactive complex – –0.893 –0.27 0.966*
Miscellaneous genes
    Dde_0304 Glyoxylase family protein +++ 0.032† 1.20* 0.321†
    Dde_2611 Putative lipoprotein +++ –0.983 0.51 –0.038
    Dde_3047 Serine phosphatase +++ 3.75** 2.88* 0.041†
    Dde_3305 Choline glycine betaine transporter +++ –0.035 –0.08 –0.249
a

Genes are grouped into their functional categories. Whether each mutant was able to grow on H2-sulfate is indicated by the relative amount of growth compared to the parent strain with a “−” indicating no detectable growth and “+++” indicating growth equivalent to that of the parent strain.

b

The relative RNA expression of individual genes in coculture with S. wolfei, with S. aciditrophicus, or in pure culture on H2-sulfate is given relative to growth in pure culture on lactate-sulfate. Fold regulation values were calculated as the log10(normalized reads for S. aciditrophicus, S. wolfei, or hydrogen-grown G20/normalized reads for G20 lactate-sulfate). †, value calculated with both normalized read values below 1; *, gene abundance that was one sigma unit from the mean; **, gene abundance that was two or more sigma units from the mean, i.e., putatively significant. ND, not determined.