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Table 2 Gene Ontology (GO) terms enrichment analyses of GIs in 4 main phylogenetic groups

From: Patterns and architecture of genomic islands in marine bacteria

Taxonomic group GO term Name Ontology category FDR FWER Single test p-value
Cyanobacteria GO:0015979 Photosynthesis BP 8.3E-7 4.1E-7 ***
  GO:0030089 Phycobilisome CC 3.0E-6 3.2E-6 ***
  GO:0009898 Internal side of plasma membrane CC 3.0E-6 3.7E-6 ***
  GO:0018298 Protein-chromophore linkage BP 7.0E-4 2.3E-3 ***
  GO:0009521 Photosystem CC 7.0E-4 2.3E-3 ***
  GO:0046914 Transition metal ion binding MF 1.7E-3 6.7E-3 ***
  GO:0004175 Endopeptidase activity MF 1.8E-3 8.5E-3 ***
  GO:0006508 Proteolysis BP 3.3E-3 3.0E-2 ***
  GO:0016740 Transferase activity MF 3.3E-3 3.0E-2 ***
  GO:0009236 Cobalamin biosynthetic process BP 3.4E-3 3.3E-2 ***
  GO:0022900 Electron transport chain BP 4.5E-3 5.0E-2 ***
  GO:0006006 Glucose metabolic process BP 5.0E-3 5.6E-2 ***
  GO:0033178 Proton-transporting two-sector ATPase complex CC 6.1E-3 9.3E-2 **
  GO:0042777 Plasma membrane ATP synthesis coupled proton transport BP 6.1E-3 9.3E-2 **
  GO:0046933 Hydrogen ion transporting ATP synthase activity MF 6.1E-3 9.3E-2 **
  GO:0000105 Histidine biosynthetic process BP 6.1E-3 9.3E-2 **
  GO:0043231 Intracellular membrane-bounded organelle MF 6.1E-3 9.8E-2 **
  GO:0016820 Hydrolase activity, acting on acid anhydrides MF 7.2E-3 1.2E-1 **
Gammaprotebacteria GO:0009009 Site-specific recombinase activity MF 7.3E-4 1.8E-4 ***
  GO:0016874 Ligase activity MF 7.4E-4 3.7E-4 ***
Alphaproteobacteria GO:0042255 Ribosome assembly BP 3.3E-9 5.0E-9 ***
  GO:0003964 RNA-directed DNA polymerase activity MF 3.6E-4 9.1E-4 ***
  GO:0003995 Acyl-CoA dehydrogenase activity MF 4.1E-4 1.1E-3 ***
  GO:0040011 Locomotion BP 7.6E-4 2.3E-3 ***
  GO:0004803 Transposase activity MF 1.2E-3 3.8E-3 ***
  GO:0006313 Transposition, DNA-mediated BP 5.5E-3 2.0E-2 ***
Flavobacteria GO:0015662 ATPase activity, coupled to transmembrane MF 1.8E-3 1.4E-3 ***
movement of ions
  GO:0003899 DNA-directed RNA polymerase activity MF 2.2E-3 2.9E-3 ***
  GO:0003711 Transcription elongation regulator activity MF 2.2E-3 1.0E-2 ***
  GO:0032968 Positive regulation of RNA elongation from BP 2.2E-3 1.0E-2 ***
RNA pol. II promoter
  GO:0003924 GTPase activity MF 3.5E-3 1.8E-2 ***
  GO:0032549 Ribonucleoside binding MF 3.7E-3 2.4E-2 ***
  GO:0031564 Transcription antitermination BP 3.7E-3 2.4E-2 ***
  GO:0008135 Translation factor activity, nucleic acid binding MF 5.0E-3 3.6E-2 ***
Non- GO:0003735 Structural constituent of ribosome MF 1.3E-9 5.3E-9 ***
Marine Bacteroidetes GO:0006412 Translation BP 1.3E-9 5.3E-9 ***
  GO:0019843 rRNA binding MF 1.3E-9 5.3E-9 ***
  GO:0015935 Small ribosomal subunit CC 3.1E-7 2.1E-6 ***
  GO:0000049 tRNA binding MF 1.5E-6 1.1E-5 ***
  GO:0015934 Large ribosomal subunit CC 1.8E-3 1.4E-2 ***
  GO:0003917 DNA topoisomerase type I activity MF 5.3E-3 4.3E-2 ***