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Table 4 Genes differentially expressed under various nutrient limitations

From: Integrated analysis of gene expression and metabolic fluxes in PHA-producing Pseudomonas putida grown on glycerol

Metabolic function CH vs. CL* NH vs. NL NH vs. CH NL vs. CL
Up Down Up Down Up Down Up Down
Translation, ribosomal structure and biogenesis 3 1 2 0 0 1 0 3
Transcription 1 2 0 0 4 1 8 3
Replication, recombination and repair 0 0 0 0 1 0 1 0
Energy production and conversion 2 3 2 2 14 6 12 8
Amino acid transport and metabolism 12 3 7 1 17 5 7 1
Nucleotide transport and metabolism 1 0 0 0 3 3 5 0
Carbohydrate transport and metabolism 2 2 1 0 9 6 11 8
Coenzyme transport and metabolism 5 1 3 2 3 2 9 5
Lipid transport and metabolism 1 1 1 0 2 2 1 2
Inorganic ion transport and metabolism 4 3 1 2 7 1 11 5
Secondary metabolites biosynthesis, transport, and catabolism 2 4 2 1 2 0 3 9
Cellular processing and signaling 6 14 3 1 32 9 38 6
Poorly Characterized 9 13 4 4 27 9 36 20
Total 48 47 26 13 121 45 142 70
  1. *Carbon-limitation at high (CH) and low (CL) dilution rate, and nitrogen-limitation at high (NH) and low (NL) dilution rate are compared to extract gene modulation due to limitation (NH vs. CH and NL vs. CL) and growth rate (CH vs. CL and NH vs. NL) changes