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Table 1 Enriched gene sets after 10, 20 and 40 minutes of treatment with fosfomycin.

From: Revealing fosfomycin primary effect on Staphylococcus aureus transcriptome: modulation of cell envelope biosynthesis and phosphoenolpyruvate induced starvation

 

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

  1. 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.
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BMC Microbiology

ISSN: 1471-2180

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