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Table 1 General function of F. nucleatum genes, divided by group of best BLAST hit1.

From: Evolutionary relationships of Fusobacterium nucleatum based on phylogenetic analysis and comparative genomics

Function Category Archaea CFB group Low GC Gram pos α, β, γ Proteo δ, ε Proteo Other eubact Spiro-chaetes Eukarya/No hit Total
Aa biosynthesis 2 (6.5,3.9)   22 (71,2.3) 3 (9.7,2.0) 2 (6.5,1.9) 1 (3.2,1.4)   1 (3.2,0.2) 31
Cofactors and carriers biosynth. 1 (1.4,2.0)   59 (83,6.2) 4 (5.6,2.6) 2 (2.8,1.9) 2 (2.8,2.7) 2 (2.8,2.2) 1 (1.4,0.2) 71
Cell envelope 1 (0.6,2.0) 6 (3.6,11.3) 45 (27.1,4.7) 24 (14.5,16) 12 (7.2,11.4) 7 (4.2,9.5) 12 (7.2,13.3) 59 (35.5,10) 166
Cellular processes 2 (3.1,3.9) 2 (3.1,3.8) 35 (54.7,3.7) 4 (6.2,2.6) 2 (3.1,1.9)   2 (3.1,2.2) 17 (26.6,2.9) 64
Central intermed. metab. 3 (7.0,5.9) 3 (7.0,5.7) 24 (55.8,2.5) 6 (14.0,4.0) 2 (4.7,1.9)   3 (7.0,3.3) 2 (4.7,0.3) 43
DNA metab. 4 (5.5,7.8)   45 (61.6,4.7) 5 (6.8,3.3) 3 (4.1,2.9) 4 (5.5,5.4) 1 (1.4,1.1) 11 (15.1,1.9) 73
Energy metab. 1 (0.9,2.0) 9 (7.8,17.0) 82 (70.7,8.6) 6 (5.2,4.0) 6 (5.2,5.7) 4 (3.4,5.4) 3 (2.6,3.3) 5 (4.3,0.9) 116
Lipid metab.    21 (75.0,2.2) 3 (10.7,2.0) 3 (10.7,2.9)    1 (3.6,0.2) 28
Hypothetical prots.   3 (2.1,5.7) 43 (29.9,4.5) 4 (2.8,2.6) 2 (1.4,1.9) 3 (2.1,4.1) 9 (6.2,10.0) 80 (55.6,14) 144
Other categories   1 (5.3,1.9) 15 (79,1.6) 1 (5.3,0.7) 1 (5.3,1.0)    1 (5.3,0.2) 19
Protein fate   4 (7.0,7.5) 33 (58,3.5) 7 (12,4.6) 4 (7.0,3.8) 4 (7.0,5.4) 1 (1.8,1.1) 4 (7.0,0.7) 57
Protein synthesis 1 (0.9,2.0) 1 (0.9,1.9) 88 (78,9.2) 5 (4.4,3.3) 7 (6.2,6.7) 8 (7,10.8)   3 (2.7,0.5) 113
Nucleotides metab. 1 (2.9,2.0) 1 (2.9,1.9) 28 (80,2.9) 2 (5.7,1.3) 1 (2.9,1.0) 2 (5.7,2.7)    35
Regulat. functions 1 (2.0,2.0) 2 (3.9,3.8) 29 (57,3.0) 3 (5.9,2.0) 3 (5.9,2.9) 2 (3.9,2.7) 5 (9.8,5.6) 6 (11.8,1) 51
Signal transduction    3 (60.0,0.3)      2 (40,0.3) 5
Transcription 1 (5.0,2.0) 1 (5.0,1.9) 15 (75,1.6)    1 (5.0,1.4) 1 (5.0,1.1) 1 (5.0,0.2) 20
Transport/binding proteins 11 (5.7,21.6) 2 (1.0,3.8) 91 (47.4,9.5) 23 (12,15.2) 15 (7.8,14.3) 14 (7.3,18.9) 18 (9.4,20.0) 18 (9.4,3.1) 192
Unclassified 11 (7.0,21.6) 3 (1.9,5.7) 72 (45.6,7.5) 16 (10,10.6) 9 (5.7,8.6) 1 (0.6,1.4) 6 (3.8,6.7) 40 (25.3,6.8) 158
Unknown function 3 (3.4,5.9) 3 (3.4,5.7) 50 (57.5,5.2) 4 (4.6,2.6) 10 (11.5,9.5) 5 (5.7,6.8) 3 (3.4,3.3) 9 (10.3,1.5) 87
Hipothetical function 8 (1.3,15.7) 12 (2.0,22.6) 155 (26.1,16.2) 31 (5.2,20.5) 21 (3.5,20.0) 16 (2.7,21.6) 24 (4.0,26.7) 327 (55,55.6) 594
Total 51 53 955 151 105 74 90 588 2067
  1. 1 First number between brackets indicates the percentage of genes with a best match in a given taxon that have the function indicated on the row heading. Second number between brackets indicate the percentage of genes with a given function that have a best match in the taxon indicated on the column heading.