Download Is Autoinducer-2 A Universal Signal For

Supplementary Table s1. Presence of AI-2 synthesis and detection genes in 138 completed genomes of the KEGG database (July 2003).
Abbreviations: luxS, AI-2 synthetase/SRH cleavage enzyme; pfs, SAH-nucleosidase enzyme; sahH, SAH hydrolase; metH and metH, methionine
synthetase; metK SAM synthetase; luxP, AI-2 binding protein; luxQ, membrane bound hybrid sensor kinase; luxU, histidine phosphorelay
protein ; luxO response regulator. See Fig. 1 for further information on the synthesis pathway and Fig. 2 for the phosporelay detection cascade.
Organisms shaded violet contain neither luxS nor sahH.
Fungi
Bacteria
Proteobacteria
Gammaproteobacteria
Enterobacteriales
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
R
R
R
R
R
R
R
U
U
luxU
R
luxP
metE
sahH
R
R
R
luxO
Protozoa
hsa
mmu
rno
dre
dme
cel
ath
osa
pfa
tbr
sce
spo
ecu
eco
ecj
ece
ecs
ecc
sty
stt
luxQ
Fish
Insect
Nematode
Plants
Homo sapiens
Mus musculus
Rattus norvegicus
Danio rerio
Drosophila melanogaster
Caenorhabditis elegans
Arabidopsis thaliana
Oryza sativa japonica
Plasmodium falciparum
Trypanosoma brucei
Saccharomyces cerevisiae
Schizosaccharomyces pombe
Encephalitozoon cuniculi
Escherichia coli K-12 MG1655
Escherichia coli K-12 W3110
Escherichia coli O157:H7 EDL933
Escherichia coli O157:H7 Sakai
Escherichia coli CFT073
Salmonella typhi CT18
Salmonella typhi Ty2
metK
Mammals
Abr.
metH
Eukaryotes
Species
pfs
Category
luxS
Genes
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
U
U
U
U
U
U
U
1
Pasteurellales
Xanthomonadales
Vibrionales
Pseudomonadales
Legionellales
Alteromonadaceae
Beta-proteobacteria
Epsilon-proteobacteria
Alpha-proteobacteria
Salmonella typhimurium LT2
Yersinia pestis CO92
Yersinia pestis KIM
Shigella flexneri 301 (serotype 2a)
Shigella flexneri 2457T (serotype 2a)
Buchnera sp. APS (symbiont of Acyrthosiphon pisum)
Buchnera aphidicola Sg (symbiont Schizaphis graminum)
Buchnera aphidicola (symbiont of Baizongia pistaciae)
Wigglesworthia brevipalpis
Haemophilus influenzae Rd
Pasteurella multocida PM70
Xylella fastidiosa 9a5c
Xylella fastidiosa Temecula1
Xanthomonas campestris pv. campestris ATCC 33913
Xanthomonas axonopodis pv. citri 306
Vibrio cholerae El Tor N16961 (serotype O1)
Vibrio vulnificus CMCP6
Vibrio parahaemolyticus RIMD 2210633
Pseudomonas aeruginosa PA01
Pseudomonas putida KT2440
Pseudomonas syringae pv. tomato DC3000
Coxiella burnetii SA 493
Shewanella oneidensis MR-1
Neisseria meningitidis MC58 (serogroup B)
Neisseria meningitidis Z2491 (serogroup A)
Ralstonia solanacearum GMI1000
Nitrosomonas europaea ATCC 19718
Helicobacter pylori 26695
Helicobacter pylori J99
Campylobacter jejuni NCTC11168
Rickettsia prowazekii Madrid E
stm
ype
ypk
sfl
sfx
buc
bas
bab
wbr
hin
pmu
xfa
xft
xcc
xac
vch
vvu
vpa
pae
ppu
pst
cbu
son
nme
nma
rso
neu
hpy
hpj
cje
rpr
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
U
U
U
R
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
R
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
R
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
R
R
R
2
Firmicutes
Bacillales
Lactobacillales
Rickettsia conorii Malish 7
Mesorhizobium loti MAFF303099
Sinorhizobium meliloti 1021
Agrobacterium tumefaciens C58 (UWash/Dupont)
Agrobacterium tumefaciens C58 (Cereon)
Brucella melitensis 16M
Brucella suis 1330
Bradyrhizobium japonicum USDA110
Caulobacter crescentus
Bacillus subtilis 168
Bacillus halodurans C-125
Bacillus anthracis Ames
Bacillus cereus ATCC 14579
Oceanobacillus iheyensis HTE831
Staphylococcus aureus N315 (meticillin-resistant)
Staphylococcus aureus Mu50 (vancomycin-resistant)
Staphylococcus aureus MW2
Staphylococcus epidermidis ATCC 12228
Listeria monocytogenes EGD-e
Listeria innocua CLIP 11262
Lactococcus lactis IL1403
Streptococcus pyogenes SF370 (serotype M1)
Streptococcus pyogenes MGAS8232 (serotype M18)
Streptococcus pyogenes MGAS315 (serotype M3)
Streptococcus pyogenes SSI-1 (serotype M3)
Streptococcus pneumoniae TIGR4
Streptococcus pneumoniae R6
Streptococcus agalactiae 2603 (serotype V)
Streptococcus agalactiae NEM316
Streptococcus mutans UA159 (serotype C)
Lactobacillus plantarum WCFS1
rco
mlo
sme
atu
atc
bme
bms
bja
ccr
bsu
bha
ban
bce
oih
sau
sav
sam
sep
lmo
lin
lla
spy
spm
spg
sps
spn
spr
sag
san
smu
lpl
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
R
R
U
U
U
U
U
U
U
U
U
R
U
U
U
U
U
U
U
U
U
U
R
U
U
U
U
U
U
U
U
U
U
U
R
3
Clostridia
Mollicutes
Actinobacteria
Fusobacteria
Chlamydia
Spirochete
Enterococcus faecalis V583
Clostridium acetobutylicum ATCC824
Clostridium perfringens 13
Clostridium tetani E88
Thermoanaerobacter tengcongensis MB4T
Mycoplasma genitalium G-37
Mycoplasma pneumoniae M129
Mycoplasma pulmonis
Mycoplasma penetrans HF-2
Mycoplasma gallisepticum R
Ureaplasma urealyticum (serovar 3)
Mycobacterium tuberculosis H37Rv (lab strain)
Mycobacterium tuberculosis CDC1551
Mycobacterium bovis AF2122/97
Mycobacterium leprae TN
Corynebacterium glutamicum ATCC 13032
Corynebacterium efficiens YS-314
Streptomyces coelicolor A3(2)
Streptomyces avermitilis
Bifidobacterium longum NCC2705
Tropheryma whipplei Twist
Tropheryma whipplei TW08/27
Fusobacterium nucleatum ATCC 25586
Chlamydia trachomatis (serovar D)
Chlamydia muridarum (Chlamydia trachomatis MoPn)
Chlamydophila pneumoniae CWL029
Chlamydophila pneumoniae AR39
Chlamydophila pneumoniae J138
Chlamydophila caviae GPIC
Borrelia burgdorferi B31
Treponema pallidum Nichols
efa
cac
cpe
ctc
tte
mge
mpn
mpu
mpe
mga
uur
mtu
mtc
mbo
mle
cgl
cef
sco
sma
blo
twh
tws
fnu
ctr
cmu
cpn
cpa
cpj
cca
bbu
tpa
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
U
4
R
R
R
R
R
U
R
U
U
U
U
U
U
U
U
U
U
U
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
3(5)
R
U
U
U
U
U
U
U
R
U
7(109)
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
R
U
U
U
U
U
U
U
U
U
8(109)
138
R
U
3(28)
Sum
mja
mac
mma
mth
mka
afu
hal
tac
tvo
pho
pab
pfu
ape
sso
sto
pai
R
R
R
R
R
R
R
R
R
R
R
112
Crenarchaeota
Methanococcus jannaschii DSM2661
Methanosarcina acetivorans C2A
Methanosarcina mazei Goe1
Methanobacterium thermoautotrophicum deltaH
Methanopyrus kandleri AV19
Archaeoglobus fulgidus DSM4304
Halobacterium sp. NRC-1
Thermoplasma acidophilum
Thermoplasma volcanium GSS1
Pyrococcus horikoshii OT3
Pyrococcus abyssi
Pyrococcus furiosus DSM3638
Aeropyrum pernix K1
Sulfolobus solfataricus P2
Sulfolobus tokodaii strain7
Pyrobaculum aerophilum IM2
R
R
R
R
R
R
R
R
78
Euryarchaeota
R
85
Archaea
R
R
R
R
R
R
R
R
R
R
R
60
Radioresistant bac.
R
86
Green sulfur bac.
Hyperthermophilic bacteria
lil
bth
syn
tel
ana
cte
aae
tma
dra
51
Bacteroid
Cyanobacteria
Leptospira interrogans 56601 (serovar lai)
Bacteroides thetaiotaomicron VPI-5482
Synechocystis sp. PCC6803
Thermosynechococcus elongatus BP-1
Anabaena sp. PCC7120 (Nostoc sp. PCC7120)
Chlorobium tepidum TLS
Aquifex aeolicus VF5
Thermotoga maritima MSB8
Deinococcus radiodurans R1
a. “R” means the presence of a reciprocal-best-hit orthologous gene in a specific genome. “U” means only uni-directional hit. The cutoff E-value is 1E-4.
b. The presence of luxS, pfs is marked as green background while the one of sahH as red.
c. The genomes which have neither luxS nor sahH are marked as violet background.
5