Table 1

Enriched gene sets after 10, 20 and 40 minutes of treatment with fosfomycin.

Downregulation

Upregulation

Gene set

10 min

20 min

40 min

10 min

20 min

40 min


AMINO ACID BIOSYNTHESIS_ASPARTATE FAMILY

0.000

0.003

0.005

AMINO ACID BIOSYNTHESIS_OTHER

0.171

TRANSPORT AND BINDING PROTEINS_AMINO ACIDS, PEPTIDES AND AMINES

0.000

0.010

TRANSPORT AND BINDING PROTEINS_CARBOHYDRATES, ORGANIC ALCOHOLS, AND ACIDS

0.090

0.008

TRANSPORT AND BINDING PROTEINS_CATIONS AND IRON CARRYING COMPOUNDS

0.078

0.228

TRANSPORT AND BINDING PROTEINS_UNKNOWN SUBSTRATE

0.092

0.022

ENERGY METABOLISM_AMINO ACIDS AND AMINES

0.135

0.008

ENERGY METABOLISM_ATP-PROTON MOTIVE FORCE INTERCONVERSION, BIOSYNTHESIS AND DEGRADATION OF POLYSACCHARIDES, PYRUVATE DEHYDROGENASE

0.005

ENERGY METABOLISM_GLYCOLYSIS_GLUCONEOGENESIS

0.088

0.238

ENERGY METABOLISM_SUGARS AND TCA CYCLE

0.077

0.089

SIGNAL TRANSDUCTION_PTS

0.033

0.008

CELL ENVELOPE_BIOSYNTHESIS AND DEGRADATION OF MUREIN SACCULUS AND PEPTIDOGLYCAN

0.068

0.015

CELL ENVELOPE_BIOSYNTHESIS AND DEGRADATION OF SURFACE POLYSACCHARIDES AND LIPOPOLYSACCHARIDES

0.000

0.009

0.228

CELL ENVELOPE_OTHER

0.087

CELLULAR PROCESSES_CELL DIVISION

0.238

0.051

CELLULAR PROCESSES_PATHOGENESIS

0.237

CELLULAR PROCESSES_TOXIN PRODUCTION AND RESISTANCE

0.068

CENTRAL INTERMEDIARY METABOLISM_NITROGEN METABOLISM AND AMINO SUGARS

0.046

CENTRAL INTERMEDIARY METABOLISM_OTHER

0.140

PURINES, PYRIMIDINES, NUCLEOSIDES, AND NUCLEOTIDES

0.000

0.036

REGULATORY FUNCTIONS_OTHER

0.169

PROTEIN SYNTHESIS_TRNA AMINOACYLATION

0.083

PROTEIN FATE_DEGRADATION OF PROTEINS, PEPTIDES, AND GLYCOPEPTIDES

0.238

0.220

PROTEIN FATE_PROTEIN AND PEPTIDE SECRETION AND TRAFFICKING

0.071

0.020

PROTEIN FATE_PROTEIN MODIFICATION AND REPAIR_PROTEIN FOLDING AND STABILIZATION

0.132

0.000

PROTEIN SYNTHESIS_RIBOSOMAL PROTEINS: SYNTHESIS AND MODIFICATION_TRANSLATION FACTORS

0.001

0.005

PROTEIN SYNTHESIS_TRNA AND RRNA BASE MODIFICATION

0.241

TRANSCRIPTION

0.030

DNA METABOLISM

0.249


Downregulation corresponds to negative correlation and upregulation corresponds to positive correlation with the fosfomycin concentration. Numbers show false discovery rates (FDR). Only gene sets with FDR < 0.25 in at least one time point are shown; bold is used when FDR < 0.05.

Petek et al. BMC Microbiology 2010 10:159   doi:10.1186/1471-2180-10-159

Open Data