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. 2015 Jul 21;81(16):5363–5374. doi: 10.1128/AEM.01221-15

TABLE 1.

RNA-Seq: effect of growth medium on the number of differentially expressed genes

Growth medium and gene status Condition and no. of genesa
WT vs AbpA− mutant
 Amylase vs control
KS1ΩabpA vs KS1 KS1ΩabpA vs KS1 KS1 KS1ΩabpA
TSBY No amylase Amylase Denatured amylase Denatured amylase
    Genes upregulated 0 1 NS NS
    Genes downregulated 12 9 NS NS
DM–0.8% glucose No amylase Amylase Denatured amylase Denatured amylase
    Genes upregulated 97 34 54 NS
    Genes downregulated 69 39 51 NS
DM–0.2% glucose No amylase Amylase Buffer Buffer
    Genes upregulated ND 3 13 2
    Genes downregulated ND 11 4 3
a

For KS1ΩabpA-versus-KS1 values, the control was the KS1 parental strain. For the amylase-versus-control values, the control was heat-denatured amylase (100°C for 15 min) diluted in simulated salivary buffer when using denatured amylase or simulated salivary buffer (21 mM sodium phosphate buffer, 36 mM NaCl, 0.96 mM CaCl2) when using buffer. NS, not significant after Benjamini-Hochberg correction (P > 0.05); ND, analysis not done.