Skip to main content

Advertisement

Table 1 Rates of the four types of genome dynamics events a

From: Genomes in turmoil: quantification of genome dynamics in prokaryote supergenomes

ATGC Genera Gain Loss Expansion Reduction
Site Gene Site Gene Site Gene Site Gene
ATGC001 Enterobacteria 18563 17.3 50517 47.1 1864 1.7 4405 4.1
ATGC002 Enterobacter–Klebsiella 25866 24.5 6448 6.1 1914 1.8 237 0.2
ATGC003 Streptococcus 11894 11.8 53500 53.0 1368 1.4 5092 5.0
ATGC004 Streptococcus 5633 5.5 29233 28.5 1601 1.6 2984 2.9
ATGC005 Streptococcus 11940 11.3 42215 40.0 3755 3.6 2380 2.3
ATGC014 Bacillus 25485 25.5 77488 77.7 3895 3.9 6908 6.9
ATGC015 Bacillus 6521 6.6 25293 25.5 804 0.8 1343 1.4
ATGC021 Chlamydia 16346 14.0 25968 22.3 419 0.4 240 0.2
ATGC022 Chlamydia–Chlamydophila 5434 5.2 11202 10.8 1213 1.2 524 0.5
ATGC025 Mycobacterium 50823 45.9 74868 67.6 5109 4.6 3708 3.3
ATGC033 Mycoplasma 5865 4.6 8335 6.6 2484 2.0 548 0.4
ATGC046 Rickettsia 6677 7.4 23674 26.4 325 0.4 750 0.8
ATGC052 Helicobacter 3733 3.6 8293 8.0 288 0.3 974 0.9
ATGC054 Staphylococcus 21512 19.9 146937 135.8 2924 2.7 21696 20.1
ATGC056 Lactobacillus 3417 3.3 17553 17.2 1094 1.1 314 0.3
ATGC067 Corynebacterium 10013 9.0 146236 131.5 1582 1.4 734 0.7
ATGC068 Corynebacterium 5338 4.9 82891 76.0 2335 2.1 4414 4.0
ATGC072 Pseudomonas 10467 9.2 25516 22.5 2162 1.9 1766 1.6
ATGC082 Clostridium 7223 6.6 82676 75.8 3745 3.4 1030 0.9
ATGC089 Burkholderia 39593 35.5 252406 226.3 4988 4.5 3417 3.1
ATGC090 Burkholderia 15276 13.6 54192 48.2 4582 4.1 1644 1.5
ATGC094 Sulfolobus 5956 6.1 42639 43.4 3931 4.0 1643 1.7
ATGC105 Bifidobacterium 10383 8.3 11148 9.0 655 0.5 817 0.7
ATGC106 Bifidobacterium 11039 8.9 16473 13.3 742 0.6 812 0.7
ATGC109 Listeria 7650 7.5 3411 3.4 551 0.5 207 0.2
ATGC121 Shewanella 8576 7.3 5340 4.5 973 0.8 348 0.3
ATGC128 Yersinia 20234 17.5 39460 34.2 2391 2.1 2369 2.1
ATGC135 Xanthomonas 13993 12.2 31495 27.4 3413 3.0 1518 1.3
ATGC137 Brucella–Ochrobactrum 16268 15.6 25177 24.1 1968 1.9 1033 1.0
ATGC138 Neisseria 7278 6.4 29817 26.4 990 0.9 2638 2.3
ATGC139 Francisella 2324 2.0 9075 7.7 546 0.5 401 0.3
ATGC144 Campylobacter 14997 14.6 6085 5.9 1365 1.3 109 0.1
ATGC153 Acinetobacter 5416 5.1 54454 51.7 3747 3.6 2029 1.9
ATGC163 Propionibacterium 2948 2.7 13223 12.0 446 0.4 145 0.1
ATGC186 Legionella 2082 1.9 99232 89.9 3546 3.2 1647 1.5
Median   10013 8.3 29233 26.4 1864 1.7 1343 1.3
  1. aFor each ATGC, the rates of each type of GDE per nucleotide substitution per site and per nucleotide substitution per gene are indicated.