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Table 5 Biological processes with significant genes over-represented after short- and long-term N availability increase

From: Global transcription profiling reveals differential responses to chronic nitrogen stress and putative nitrogen regulatory components in Arabidopsis

Biological Process No. in Genome % in Genome 2 hr N increase 24 hr N increase
    No. in List % in List P-value No. in List % in List P-value
Up-regulated         
transport 1398 7.7 11 20.4 0.002    
cell homeostasis 64 0.4 3 5.6 0.0009    
nitrate assimilation 7 0.04 2 3.7 0.0002    
sulfate assimilation 11 0.06 2 3.7 0.0005    
response to carbohydrate stimulus 29 0.16 2 3.7 0.003    
primary metabolism 5170 28.5     203 54.7 1.0E-26
protein biosynthesis 500 2.8     121 32.6 4.2E-98
organelle organization and biogenesis 439 2.4     45 12.1 3.5E-19
ribosome biogenesis and assembly 117 0.6     34 9.2 5.9E-30
translation 136 0.7     13 3.5 4.4E-06
response to auxin stimulus 191 1.1     12 3.2 0.0006
nucleosome assembly 56 0.3     9 2.4 1.8E-06
DNA packaging 106 0.6     9 2.4 0.0003
translational elongation 31 0.2     8 2.2 1.5E-07
nitrogen compound metabolism 124 0.7     8 2.2 0.004
amino acid biosynthesis 99 0.5     7 1.9 0.004
ribonucleotide biosynthesis 45 0.2     5 1.3 0.002
chlorophyll biosynthesis 14 0.08     4 1.1 0.0001
response to cytokinin stimulus 31 0.2 3 5.6 0.0001 4 1.1 0.003
Down-regulated         
response to abiotic stimulus 1091 6.0     40 15.5 3.2E-08
secondary metabolism 249 1.4     14 5.4 1.4E-05
response to abscisic acid stimulus 113 0.6     11 4.3 6.3E-07
phenylpropanoid biosynthesis 79 0.4     7 2.7 0.0001
flavonoid biosynthesis 30 0.2     5 1.9 6.0E-05
anthocyanin biosynthesis 8 0.04 1 10 0.004 3 1.2 0.0002
starch biosynthesis 7 0.04     2 0.8 0.004
  1. The gene list was imported into GeneSpring. The number of genes in each biological process either in a whole genome (No. in Genome), or in the list (No. in list), as well as their corresponding percentage and p-value was generated by GeneSpring.