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Table 2 Key to sequence identifiers

From: Dynamic diversity of the tryptophan pathway in chlamydiae: reductive evolution and a novel operon for tryptophan recapture

Genes evaluated

Gene-product acronym

NCBI GI number*

trpC †

  

   Escherichia coli

Eco TrpC

16129223

   Chlamydia trachomatis D

Ctra TrpC

7227938

   Chlamydia muridarum

Cmu TrpC

8163265

   Chlamydophila psittaci

Cpsi TrpC

N/A

   Pseudomonas aeruginosa

Pae TrpC

15598309

   Neisseria gonorrhoeae

Ngo TrpC

N/A

   Neisseria meningitidis

Nme TrpC

15793859

   Nitrosomonas europaea

Neu TrpC

N/A

   Bordetella pertussis

Bpe TrpC

N/A

   Bordetella bronchiseptica

Bbr TrpC

N/A

   Xylella fastidiosa

Xfa TrpC

15837975

   Thermotoga maritima

Tma TrpC

15642913

   Rhodobacter capsulatus

Rca TrpC

N/A

   Streptococcus mutans

Smu TrpC

N/A

   Aquifex aeolicus

Aae TrpC

15607040

   Chlorobium tepidum

Cte TrpC

N/A

   Nostoc punctiforme

Npu TrpC

N/A

   Streptococcus pneumoniae

Spn TrpC

15901642

   Anabaena sp.

Ana TrpC

N/A

   Clostridium acetobutylicum

Cac TrpC

15896407

   Rhodopseudomonas palustris

Rpa TrpC

N/A

   Synechocystis sp.

Syn TrpC

16331130

   Haemophilus influenzae

Hin TrpC

16273300

   Salmonella typhimurium

Sty TrpC

16765069

   Bacillus stearothermophilus

Bst TrpC

N/A

   Yersinia pestis

Ype TrpC

16122433

   Vibrio cholerae

Vch TrpC

15641184

   Pasteurella multocida

Pmu TrpC

15602445

   Yersinia pseudotuberculosis

Yps TrpC

N/A

   Deinococcus radiodurans

Dra TrpC

15805163

   Bacillus subtilis

Bsu TrpC

421536

   Escherichia coli

Eco TrpC

16129223

   Helicobacter pylori

Hpy TrpC

15645893

   Staphylococcus aureus

Sau TrpC

15924361

   Bacillus halodurans

Bha TrpC

15614225

   Synechococcus sp.

Ssp. TrpC

N/A

   Prochlorococcus marinus

Pma TrpC

N/A

   Chlamydia trachomatis

Ctr TrpC

15605050

   Chlamydia muridarum

Cmu TrpC

15835220

   Corynebacterium diphtheriae

Cdi TrpC

N/A

   Methanococcus jannaschii

Mja TrpC

15668627

   Pyrococcus furiosus

Pfu TrpC

18978079

   Archaeoglobus fulgidus

Afu TrpC

11499194

   Pyrococcus abyssii

Pab TrpC

N/A

   Methanobacterium thermoautotrophicum

Mth TrpC

136346

   Methanococcus maripaludis

Mma TrpC

N/A

   Ferroplasma acidarmanus

Fac TrpC

N/A

   Saccharomyces cerevisiae

Sce TrpC

6320210

   Arabidopsis thaliana

Ath TrpC

5031254

trpEa ‡

  

   Salmonella typhimurium

Sty TrpEa

16765071

   Chlamydia trachomatis D

Ctra TrpEa

15604890

   Chlamydophila psittaci

Cpsi TrpEa

N/A

trpEb §

  

   Salmonella typhimurium

Sty TrpEb

136281

   Chlamydia trachomatis D

Ctra TrpEb

15604889

   Chlamydia psittaci

Cpsi TrpEb1

N/A

   Chlamydia psittaci

Cpsi TrpEb2

N/A

Homologs of E. coli TyrP, Mtr and TnaB (Figure 7)

   Chlamydophila psittaci

Cpsi

N/A

   Chlamydophila pneumoniae CWL029

Cpn-1

15618876

   Chlamydophila pneumoniae CWL029

Cpn-2

15618878

   Chlamydia muridarum

Cmu-1

15834824

   Chlamydia muridarum

Cmu-2

15834825

   Chlamydia trachomatis D

Ctr-1

15605552

   Chlamydia trachomatis D

Ctr-2

15605553

   Haemophilus ducreyi

Hdu-1

N/A

   Haemophilus ducreyi

Hdu-2

N/A

   Haemophilus ducreyi

Hdu-3

N/A

   Nostoc punctiforme

Npu

N/A

   Haemophilus influenzae

Hin-1

16272242

   Haemophilus influenzae

Hin-2

16272424

   Haemophilus influenzae

Hin-3

16272472

   Pasteurella multocida

Pmu-1

15602597

   Pasteurella multocida

Pmu-2

15603057

   Pasteurella multocida

Pmu-3

15602675

   Pasteurella multocida

Pmu-4

15603284

   Vibrio cholerae

Vch-1

15601527

   Vibrio cholerae

Vch-2

15600930

   Escherichia coli

TyrP

16129857

   Escherichia coli

Mtr

16131053

   Escherichia coli

TnaB

16131577

   Yersinia pestis

Ype-1

16121500

   Yersinia pestis

Ype-2

16121568

   Salmonella typhi

Sty-1

16760884

   Salmonella typhi

Sty-2

16762044

   Neisseria meningitidis

Nme

15677855

   Pseudomonas aeruginosa

Pae-1

15600627

   Pseudomonas aeruginosa

Pae-2

15597112

   Pseudomonas aeruginosa

Pae-3

15598961

   Neisseria gonorrhoeae

Ngo

N/A

Homologs of E. coli SstT and Pgin SstT (Figure 8)

   Chlamydia trachomatis (Group A)

Ctra

gil15605126

   Chlamydia muridarum (Group A)

Cmu

gil15835296

   Chlamydophila pneumoniae (Group A)

Cpn

gil15618439

   Chlamydia trachomatis (Group B)

Ctra

gil15604951

   Chlamydia muridarum (Group B)

Cmu

gil15835119

   Chlamydophila pneumoniae (Group B)

Cpn

gil15618209

   Porphyromonas gingivalis

Pgin

N/A

   Corynebacterium diphtheriae

Cdip

N/A

   Clostridium difficile

Cdi

N/A

   Treponema pallidum

Tpa

gil15639544

   Vibrio cholerae

Vch

gil15600807

   Pseudomonas aeruginosa

Pae

gil15597238

   Yersinia pestis

Ype

gil16120913

   Escherichia coli

Eco

gil16130984

   Yersinia pseudotuberculosis

Ype

N/A

   Campylobacter jejuni

Cje

gil15792422

   Haemophilus influenzae

Hin

gil16273445

   Pasteurella multocida

Pmu

gil15602756

   Neisseria meningitidis

Nme

gil15793312

   Neisseria gonorrhoeae

Ngo

N/A

   Haemophilus ducreyi

Hdu

N/A

   Enterococcus faecium

Efa

N/A

   Streptococcus pyogenes

Spy

gil15674487

   Streptococcus pneumoniae

Spn

gil15903640

   Streptococcus equi

Seq

N/A

  1. *N/A applies to genes not yet included in the NCBI database. †Includes in addition to identifiers of the four sequences shown in Figure 4, the sequence identifiers for the sequences used in the multiple alignment that supports the gaps and conserved residues indicated on line 1 of Figure 4. ‡See [30] for the sequence identifiers used in the multiple alignment which supports the gaps and conserved residues indicated on line 1 of Figure 5. § See [29] for the sequence identifiers used in the multiple alignment which support the gaps and conserved residues indicated on line 1 of Figure 6.