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Table 1 Number of genes and proteins in COG classes up- and down-regulateda on various substrates compared to cellobiose

From: Transcriptomic and proteomic analyses of core metabolism in Clostridium termitidis CT1112 during growth on α-cellulose, xylan, cellobiose and xylose

COG class Description Xylose vs cellobiose genes Xylose vs cellobiose proteins Xylose vs cellobiose (overlap of genes and proteins) α-cellulose vs cellobiose genes α-cellulose vs cellobiose proteins α-cellulose vs cellobiose (overlap of genes and proteins) Xylan vs cellobiose genes Xylan vs cellobiose proteins Xylan vs cellobiose (overlap of genes and proteins)
Down Up Down Up Down Up Down Up Down Up Down Up Down Up Down Up Down Up
C Energy production and conversion 3 1     1 2 1 3 1 2 2 3 1 2 0 1 1
D Cell cycle control, cell division, chromosome partitioning 2 0      1 2           
E Amino acid transport and metabolism 8 14 2 4 1 4 4 8 0 3 1 1 4 0 2 0 2 1
F Nucleotide transport and metabolism        0 2           
G Carbohydrate transport and metabolism 11 32 3 23 7 27 5 28 3 20 1 33 7 40 5 24 7 40
H Coenzyme transport and metabolism 4 3      1 6 0 2   3 2 0    1 3
I Lipid transport and metabolism 7 1 2 0 1   1 3 1 2 1 1 4 0 4 0 3  
J Translation, ribosomal structure and biogenesis          4 1 1        
K Transcription 6 1    1 4 4 6 1 3 1 2 1 2 3 1 1 1
L Replication, recombination and repair 3 1    1              
M Cell wall/membrane/envelope biogenesis 3 1      1 15 1 9 1 4 1 2     
N Cell motility        3 1 2 1 1        
O Posttranslational modification, protein turnover, chaperones 2 1      3 4 2 5 1 4       
P Inorganic ion transport and metabolism 2 4 2 1   1 1 4    1 1 2 0     
Q Secondary metabolites biosynthesis, transport and catabolism 19 1 6 0 5   1 7 2 0 1 1 15 0 7 0 5 2
R General function prediction only 6 9 3 2 1 3 3 17 1 4 1 5 2 7 3 2 2 6
S Function unknown 6 0 0 3    1 11 3 4    2 1 3 0   
T Signal transduction mechanisms 2 5     2 3 4 3 1 1 1 0 3     1
U Intracellular trafficking, secretion, and vesicular transport 2 0      2 0           
V Defense mechanisms        2 3 2 0   1       
TOTAL   86 74 18 33 17 42 38 122 28 56 14 59 43 56 29 27 22 55
  1. Overlap of differentially expressed genes and proteins with Z-score magnitudes of ≥ 1.65 were manually assessed and do not include genes in category S and hypotheticals
  2. aUp- and down-regulation enumeration uses Z-scores with magnitudes ≥ 1.65, approximately representing outermost 10 % of the population