Table 2

E. coli pathogen-specific ecs clones identified by SCOTS

Functional group and locusHomolog, source* (% identity/% similarity)Accession no. of ecs homologFunctionTissue
Adherence
ecs-1pilN, R721 (96) AP002527 R721 pilus assemblyA
 ecs-2 pilQ, R721 (98) AP002527 R721 pilus assemblyA
 ecs-3 Z5222, EcO157 (66/81) AAG58927 Putative fimbrial usherP
 ecs-4 TcfD, St (52/67) CAB51577 Putative fimbrial subunitP
 ecs-5 tsh, pAPEC-1 (99) AF218073 HemagglutininA
hbp, ColV (99) AJ223631 Hemoglobin protease
LPS synthesis
 ecs-6 waaO, EcF470 (96) AF019746 LPS core biosynthesisA
 ecs-7 waaY, EcF470 (94) AF019746 LPS core biosynthesisA
Iron-responsive
 ecs-8 iutA ColV (96) X05874 Aerobactin/cloacinP
 ecs-9 iutA ColV (93)DF13 receptor
 ecs-10 iucA ColV (98) X76100 Aerobactin synthesisP
 ecs-11 iucD ColV (92) U90207 Aerobactin synthesisA
 ecs-12 iroC Ec536 (97) X16664 Putative ABC transporterA
Plasmid function
 ecs-13 to ecs-28ColE2-type plasmids (87–98) D30059 Replication, relaxationA, P
 ecs-29 traK F (92) U01159 F-plasmid transferA
 ecs-30 traG F (90) U01159 F-plasmid transferA
 ecs-31 traT F (97) U01159 Exclusion, serum resistanceA
 ecs-32 SopA F (78/81) P08866 F-plasmid partitioningA
 ecs-33 psiA pO157 (90) AF074613 Inhibition of SOS responseA
Phage-related
 ecs-34 hkaG (96), φHK620 AF335538 Unknown functionP
 ecs-35 hkbV (97), φHK620 AF335538 DNA stabilizationA
 ecs-36 HkbQ (43/63), φHK620AAK28892Portal proteinA
 ecs-37 HkbQ (61/74), φHK620AAK28892Portal proteinA
 ecs-38 Z3370(51/56), φCP-933VAAG57253Unknown functionP
 ecs-39 Int (46/57), φP2 P36932 IntegraseP
Other
 ecs-40 CC0532 Cc (62/77)AAK22519Putative mandelate racemaseA
 ecs-41 TM0427 Tm (41/58) C72379 Putative oxidoreductaseP
 ecs-42 YPO3000 Yp (39/62)CAC92244Putative ABC transporterA
 ecs-43 rhsH Ec45 (97) AF044501 Rearrangement hot spot elementP
 ecs-44 RSp0733 Rs (46/52)NP_522294Hypothetical proteinA
  • Details regarding ecs homologs are published as supporting information on the PNAS web site. 

  • * % nucleic acid identity for gene homologs (italicized); % identity/similarity for translated products (raw type). 

  • Bacterial species: Cc, Caulobacter crescentus; Ec, E. coli strains EDL933:EcO157, F470:Ec470, 536:Ec536, and ec45:Ec45; Rs, Ralstonia solanacearum; St, Salmonella enterica serovar Typhi; Tm, Thermotoga maritima; Yp, Yersinia pestis. Plasmids: R721, pAPEC-1, ColV-K30, F, pO157. Enterobacterial bacteriophages (φ): HK620, CP-933V, and P2. 

  • Clone derived from RNA isolated in air sacs (A) or pericardium (P).