Table 1 |
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|
List of 51 chromosomes under study |
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|
Chromosome |
Strain |
ACC |
EMGLib |
Genome (bp) |
Chir |
G+C (%) |
P12 |
P3 |
GCIGR |
|
|
|||||||||
|
Aeropyrum pernix |
K1 |
CG0043 |
1,669,695 |
No |
56.3 |
0.567 |
0.662 |
0.506 |
|
|
Aquifex aeolicus |
VF5 |
AE000657 |
CG0034 |
1,551,335 |
No |
43.5 |
0.442 |
0.488 |
0.386 |
|
Archaeoglobus fulgidus |
DSM 4304 |
AE000782 |
CG0032 |
2,178,400 |
No |
48.6 |
0.507 |
0.489 |
0.377 |
|
Bacillus halodurans |
C-125 |
BA000004 |
CG0057 |
4,202,353 |
Yes |
43.7 |
0.466 |
0.403 |
0.384 |
|
Bacillus subtilis |
168 |
AL009126 |
CG0031 |
4,214,814 |
Yes |
43.5 |
0.455 |
0.424 |
0.364 |
|
Borrelia burgdorferi |
B31 |
AE000783 |
CG0033 |
910,724 |
Yes |
28.6 |
0.347 |
0.197 |
0.212 |
|
Buchnera sp. |
APS |
AP000398 |
CG0058 |
640,681 |
Yes |
26.3 |
0.360 |
0.122 |
0.155 |
|
Caulobacter crescentus |
CB15 |
AE005673 |
CG0068 |
4,016,947 |
Yes |
67.2 |
0.600 |
0.856 |
0.625 |
|
Campylobacter jejuni |
NCTC11168 |
AL111168 |
CG0047 |
1641481 |
Yes |
30.6 |
0.381 |
0.175 |
0.205 |
|
Chlamydia muridarum |
MoPn |
AE002160 |
CG0054 |
1069412 |
Yes |
40.3 |
0.462 |
0.317 |
0.360 |
|
Chlamydia trachomatis |
D/U W-3/Cx |
AE001273 |
CG0037 |
1,042,519 |
Yes |
41.3 |
0.468 |
0.330 |
0.360 |
|
Chlamydophila pneumoniae |
CWL029 |
AE001363 |
CG0041 |
1,230,230 |
Yes |
40.6 |
0.459 |
0.332 |
0.323 |
|
Chlamydophila pneumoniae |
AR39 |
AE002161 |
CG0053 |
1,229,853 |
Yes |
40.6 |
0.460 |
0.271 |
0.340 |
|
Chlamydophila pneumoniae |
J138 |
BA000008 |
CG0062 |
1,228,267 |
Yes |
40.6 |
0.459 |
0.332 |
0.323 |
|
Deinococcus radiodurans chromosome 1 |
R1 |
AE000513 |
CG0049 |
2,648,638 |
Yes |
67.0 |
0.622 |
0.801 |
0.623 |
|
Deinococcus radiodurans chromosome 2 |
R1 |
AE001825 |
CG0050 |
412,348 |
Yes |
66.7 |
0.605 |
0.824 |
0.593 |
|
Escherichia coli |
K-12 |
U00096 |
CG0028 |
4,639,221 |
Yes |
50.8 |
0.514 |
0.534 |
0.425 |
|
Escherichia coli |
EDL933 |
AE005174 |
CG0069 |
5,528,970 |
Yes |
50.4 |
0.513 |
0.527 |
0.425 |
|
Escherichia coli |
RIMD 0509952 |
BA000007 |
CG0070 |
5,498,450 |
Yes |
50.5 |
0.514 |
0.528 |
0.424 |
|
Halobacterium sp. |
NRC-1 |
AE004437 |
CG0065 |
2,014,239 |
No |
67.9 |
0.600 |
0.880 |
0.634 |
|
Haemophilus influenzae |
KW20 |
L42023 |
CG0001 |
1,830,140 |
Yes |
38.2 |
0.447 |
0.265 |
0.312 |
|
Helicobacter pylori |
26695 |
AE000511 |
CG0001 |
1,667,877 |
Yes |
38.2 |
0.396 |
0.404 |
0.302 |
|
Helicobacter pylori |
J99 |
AE001439 |
CG0042 |
1,643,831 |
Yes |
39.2 |
0.397 |
0.411 |
0.308 |
|
Lactococcus lactis |
IL1403 |
AE005176 |
CG0074 |
2365589 |
Yes |
35.5 |
0.425 |
0.229 |
0.276 |
|
Methanobacterium thermoautotrophicum |
H |
AE000666 |
CG0030 |
1,751,377 |
No |
49.5 |
0.525 |
0.500 |
0.383 |
|
Methanococcus jannaschii |
DSM 2661 |
L77117 |
CG0003 |
1,664,977 |
No |
31.4 |
0.347 |
0.307 |
0.252 |
|
Mycobacterium leprae |
TN |
AL450380 |
CG0071 |
3,268,203 |
Yes |
57.8 |
0.576 |
0.638 |
0.546 |
|
Mycobacterium tuberculosis |
H37Rv |
AL123456 |
CG0035 |
4,411,529 |
Yes |
65.6 |
0.604 |
0.787 |
0.625 |
|
Mycobacterium tuberculosis |
CDC1551 |
AE000516 |
CG0073 |
4,403,836 |
Yes |
65.6 |
0.605 |
0.783 |
0.627 |
|
Mycoplasma genitalium |
G-37 |
L43967 |
CG0002 |
580,073 |
Yes |
31.7 |
0.367 |
0.221 |
0.272 |
|
Mycoplasma pneumoniae |
M 129 |
U00089 |
CG0011 |
816,394 |
Yes |
40.0 |
0.409 |
0.403 |
0.339 |
|
Mycoplasma pulmonis |
UAB CTIP |
AL445566 |
CG0072 |
963879 |
Yes |
26.6 |
0.343 |
0.140 |
0.182 |
|
Neisseria meningitidis |
Z2491 (A) |
AL162759 |
CG0056 |
2,184,406 |
Yes |
51.8 |
0.503 |
0.598 |
0.444 |
|
Neisseria meningitidis |
MC58 (B) |
AE002098 |
CG0055 |
2,272,351 |
Yes |
51.5 |
0.502 |
0.593 |
0.447 |
|
Pasteurella multocida |
PM70 |
AE004439 |
CG0075 |
2,257,487 |
Yes |
40.4 |
0.453 |
0.323 |
0.329 |
|
Pseudomonas aeruginosa |
PA01 |
AE004091 |
CG0059 |
6,264,403 |
Yes |
66.6 |
0.583 |
0.870 |
0.616 |
|
Pyrococcus abyssi |
GE5 |
AL096836 |
CG0045 |
1,765,118 |
Yes |
44.7 |
0.457 |
0.511 |
0.379 |
|
Pyrococcus horikoshii |
OT3 |
CG0038 |
1,738,505 |
Yes |
41.9 |
0.449 |
0.428 |
0.376 |
|
|
Rickettsia prowazekii |
Madrid E |
AJ235269 |
CG0040 |
1,111,523 |
Yes |
29.0 |
0.387 |
0.168 |
0.242 |
|
Staphylococcus aureus |
Mu50 |
BA000017 |
CG0076 |
2,878,134 |
Yes |
32.9 |
0.404 |
0.205 |
0.277 |
|
Staphylococcus aureus |
N315 |
BA000018 |
CG0077 |
2,813,641 |
Yes |
32.8 |
0.404 |
0.204 |
0.274 |
|
Streptococcus pyogenes |
SF370 |
AE004092 |
CG0078 |
1,852,441 |
Yes |
38.5 |
0.439 |
0.297 |
0.325 |
|
Sulfolobus solfataricus |
P2 |
AE006641 |
CG0079 |
2,992,245 |
No |
35.8 |
0.409 |
0.325 |
0.310 |
|
Synechocystis sp. |
PCC 6803 |
AB001339 |
CG0010 |
3,573,470 |
No |
47.7 |
0.503 |
0.468 |
0.421 |
|
Thermoplasma acidophilum |
DSM 1728 |
AL139299 |
CG0060 |
1,564,906 |
Yes |
46.0 |
0.473 |
0.558 |
0.361 |
|
Thermotoga maritima |
MSB8 |
AE000512 |
CG0044 |
1,860,725 |
Yes |
46.2 |
0.456 |
0.524 |
0.397 |
|
Treponema pallidum |
Nichols |
AE000520 |
CG0036 |
1,138,011 |
Yes |
52.8 |
0.537 |
0.538 |
0.541 |
|
Ureaplasma urealyticum |
ATCC 700970 |
AF222894 |
CG0048 |
751,719 |
Yes |
25.5 |
0.334 |
0.112 |
0.178 |
|
Vibrio cholerae chromosome 1 |
N16961 |
AE003852 |
CG0063 |
2,961,149 |
Yes |
47.7 |
0.494 |
0.470 |
0.412 |
|
Vibrio cholerae chromosome 2 |
N16961 |
AE003853 |
CG0064 |
1,072,315 |
Yes |
46.9 |
0.482 |
0.458 |
0.431 |
|
Xylella fastidiosa |
9a5c |
AE003849 |
CG0061 |
2,679,306 |
Yes |
52.7 |
0.535 |
0.552 |
0.468 |
|
|
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|
The first column is the species names with chromosome number when necessary, the second the strain that was sequenced. ACC is the accession number in the DDBJ/EMBL/GenBank database, EMGLib the accession number in EMGlib database [88]. Chir denotes whether a clear chirochore structure allowed for the classification of subsequences (for example, CDS) in the leading or lagging group. The G+C contents are given for the whole genome (G+C), in first and second codon positions (P12), in third codon positions (P3), and large intergenic spaces (GCIGR) as defined in the Materials and methods section. |
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|
Lobry and Sueoka Genome Biology 2002 3:research0058.1 doi:10.1186/gb-2002-3-10-research0058 |
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