Table 3 |
|
|
Membership composition of Tryptophan Congruency Groupsa |
|
|
TCG-1 |
[Corynebacterium diptheriae]b |
|
[Corynebacterium glutamicum]b |
|
|
Escherichia coli |
|
|
Haemophilus influenzae |
|
|
[Helicobacter pylori]b |
|
|
Shewanella putrefaciens |
|
|
Vibrio cholerae |
|
|
Actinobacillus actinomycetemcomitans |
|
|
Buchnera aphidicolac |
|
|
Blochmannia floridanusc |
|
|
[Corynebacterium efficiens]b |
|
|
Erwinia carotovora |
|
|
Klebsiella pneumoniae |
|
|
Pasteurella multocida |
|
|
Photorhabdus luminescens |
|
|
Salmonella enterica |
|
|
Shigella flexneri |
|
|
Vibrio parahaemolyticus |
|
|
Vibrio vulnificus |
|
|
Yersinia pestis |
|
|
TCG-2d |
Burkholderia fungorum |
|
Methylococcus capsulatus |
|
|
Neisseria meningitidis |
|
|
Nitrosomonas europaea |
|
|
Pseudomonas aeruginosa* |
|
|
Pseudomonas syringae* |
|
|
Ralstonia metallidurans |
|
|
Thiobacillus ferrooxidans |
|
|
Xanthomonas campestris |
|
|
Xylella fastidiosa |
|
|
Acinetobacter sp. |
|
|
Azotobacter vinelandii* |
|
|
Bordetella bronchisepticum |
|
|
Bordetella parapertussis |
|
|
Bordetella pertussis |
|
|
Burkholderia cepacia |
|
|
Burkholderia multivorans |
|
|
Chromobacterium violaceum |
|
|
Microbulbifer degradans |
|
|
Neisseria gonorrhoeae |
|
|
Pseudomonas fluorescens* |
|
|
Pseudomonas putida* |
|
|
Psychrobacter sp. |
|
|
Ralstonia solanacearum |
|
|
Xanthomonas axonopodis |
|
|
TCG-3 |
Caulobacter crescentus |
|
Rhodobacter sphaeroides |
|
|
Sphingomonas aromaticivorans |
|
|
Agrobacterium tumefaciens |
|
|
Bradyrhizobium japonicum |
|
|
Brucella melitensis |
|
|
Brucella suis |
|
|
Rhizobium loti |
|
|
Rhodopseudomonas palustris |
|
|
Sinorhizobium meliloti |
|
|
TCG-4 |
Anabaena (Nostoc) sp. PCC 7120 |
|
Nostoc punctiforme |
|
|
Prochlorococcus marinus CCMP 1986 (MED4) |
|
|
Synechococcus sp. WH8102 |
|
|
Synechocystis sp. PCC 6803 |
|
|
Anabaena variabilis ATCC 29413 |
|
|
Crocosphaera watsonii WH 8501 |
|
|
Gloeobacter violaceus PCC 2471 |
|
|
Prochlorococcus marinus CCMP1375 (SS120) |
|
|
Prochlorococcus marinus MIT9313 |
|
|
Synechococcus elongatus PCC 7942 |
|
|
Thermosynechococcus elongatus BP-1 |
|
|
Tricodesmium erythraeum |
|
|
TCG-5e |
Streptomyces coelicolor |
|
Mycobacterium tuberculosis |
|
|
Thermomonospora fusca |
|
|
Bifidobacterium longum |
|
|
Mycobacterium avium |
|
|
Mycobacterium bovis |
|
|
Mycobacterium leprae |
|
|
Mycobacterium smegmatis |
|
|
Streptomyces avermitilis |
|
|
TCG-6 |
Bacillus halodurans |
|
Bacillus stearothermophilus |
|
|
Bacillus subtilis |
|
|
Oceanobacillus iheyensis |
|
|
TCG-7 |
Bacillus anthracis |
|
Lactococcus lactis |
|
|
Listeria monocytogenes |
|
|
Staphylococcus aureus |
|
|
Streptococcus pneumoniae |
|
|
Bacillus cereus |
|
|
Listeria innocua |
|
|
Staphylococcus epidermidis |
|
|
Streptococcus gordonii |
|
|
Streptococcus mutans |
|
|
|
|
|
aEach tryptophan congruency group (TCG) defined by the concatenated tree for Trp proteins (Fig. 2) is congruent with the color-coded subtree section within the 16S rRNA tree (Fig. 1). Organisms that are included in the concatenated tree of Fig. 2 are indicated in boldface type, whereas additional organisms not included in the concatenated tree but that were qualitatively determined to belong to a given TCG are indicated in regular type. bTCG members originating by LGT are indicated within brackets and indented. cInsect symbionts. dThe five organisms marked with asterisks form a distinctive subclade that is, in fact, not a "pure" component of TCG-2 because of the LGT origins of trpEa and trpEb from TCG-3 (see text). eAll members of TCG-5 lack trpC and presumably utilize a dual-pathway hisA (priA) for this function. |
|
|
Xie et al. BMC Biology 2004 2:15 doi:10.1186/1741-7007-2-15 |
|
