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Table 1 Genes differentially expressed in fnr+ and fnr strains of N. gonorrhoeae.

From: The small FNR regulon of Neisseria gonorrhoeae: comparison with the larger Escherichia coli FNR regulon and interaction with the NarQ-NarP regulon

fnr++ NO2-/fnr fnr+- NO2-/fnr       
     Gene number Gene name   FNR binding site upstream ChIP enrichment
       Product Sequence Location  
Transcripts more abundant in the Ratio t-test Ratio t-test fnr+ strain
46.30 1.1 × 10 p value -5 73.06 7.3 × 10 p value -6 NMB1205   Transcript of unknown function TTGAT TTGAATCAA 41.5 Yes
12.27 3.2 × 10 -4 6.60 7.3 × 10 -5 NGO1688 ompU Putative iron uptake OMP none   Yes
6.02 1.9 × 10 -5 3.56 8.2 × 10 -4 NGO1276 aniA Nitrite reductase TTGAC TTAAATTAA 88.5 Yes §
4.57 4.8 × 10 -4 3.52 3.2 × 10 -5 NGO1215   Conserved hypothetical protein (COG2847) TTAAT CTACATCAA 73.5 NE
2.31 2.1 × 10 -3 2.88 5.2 × 10 -5 NGO0546 res Type III restriction-modification system EcoPI enzyme TTGAA TGTGATTAT 106.5 NE
4.21 1.9 × 10 -3 ND   XNG1301 nosR Regulatory protein TTGAT TTGCATCAA 20.5 NT
2.85 3.1 × 10 -3 0.72 0.06 NGO1621   Putative phage associated protein none   NT
2.75 1.0 × 10 -3 0.83 0.28 NGO1622   Putative phage associated protein none   NT
2.70 4.1 × 10 -3 0.86 0.47 NGO0472   Putative phage associated protein none   NT
2.63 1.7 × 10 -4 1.00 0.51 NGO1455   Putative NRAMP family Manganese/Iron transporter none   NE
2.56 5.1 × 10 -3 2.80 0.05 NGO0602   Putative MerR family transcriptional regulator TTGTT TCATTTCCA 130.5 NT
2.20 9.5 × 10 -3 1.21 0.16 NGO0087   Hypothetical protein none   NT
2.10 2.0 × 10 -3 1.02 0.83 NGO0473   Neisseria specific protein. GTGAT TCTGACAAA 199.5 NE
2.01 1.4 × 10 -3 1.00 0.71 NGO1615   Putative phage associated protein TTCAG CTGCTTCAA
CTGAT CAGCCTCAT
70.5
25.5
NT
Transcripts more abundant in the fnr strain
0.14 9.6 × 10 -6 0.18 8.1 × 10 -6 NGO1716   Putative phosphotransferase TTGAG TGAAAATAA 85.5 Yes
0.29 7.3 × 10 -3 1.23 0.39 NGO0340 cysK Cysteine synthetase none   Yes
0.47 3.4 × 10 -4 1.47 0.04 NGO0374 glnQ Amino acid ABC transporter none   NT
0.37 0.12 0.19 8.4 × 10 -6 NGO0653 dnrN Putative NO- response protein ATGTT CAAAACCAA 36.5 NE
0.60 0.84 0.28 2.9 × 10 -3 NGO1275 norB Nitric oxide reductase TGAAT TTTAAACAA 33.5 Yes §
0.91 0.31 0.49 2.6 × 10 -4 NGO1428   Short Neisseria specific protein none   NE
  1. The ratio of transcript intensity and Student's t-test p value are shown for each gene in each comparison; fnr+ + NO2 -/fnr and fnr+ - NO2 -/fnr. Predicted FNR binding sites with at most 3 mismatches to the consensus E. coli FNR binding site, TTGATNNNNATCAA, located up to 200 bases upstream of the translation start of the gene, are displayed. Note that positions 33.5, 88.5 etc indicate that the central bases of the inverted repeat sequence are located between bases 33 and 34, or between bases 88 and 89, upstream from the translation start. A ChIP enrichment of 60% or more is scored positive. ND, No data for this gene; NE, no enrichment; NT, not tested by ChIP. § The aniA and norB promoters are divergent; ChIP detected FNR binding to the aniA-norB region but cannot be used to resolve the two promoters.