TABLE 2.

Genes identified as being potentially involved in fimbrial biogenesis in D. nodosus

Locusa	Designationa	No. of amino acids	Potential function	Rationaleb
DNO_0110	fimA	163	Major pilin	66% similarity to P. aeruginosa PilA/COG4969
DNO_0238	fimX	684	Signal transduction protein	59% similarity to P. aeruginosa FimX/COG4943
DNO_0344	pilM	337	Fimbrial biogenesis	60% similarity to P. aeruginosa PilM/COG4972
DNO_0345	pilN	215	Fimbrial biogenesis	59% similarity to P. aeruginosa PilN/COG3166
DNO_0346	pilO	222	Fimbrial biogenesis	61% similarity to P. aeruginosa PilO/COG3167
DNO_0347	pilP	206	Fimbrial biogenesis	57% similarity to P. aeruginosa PilP/COG3168
DNO_0348	pilQ	734	Secretin	67% similarity to P. aeruginosa PilQ/COG4796
DNO_0434	pilS	581	Two-component system/sensor protein	59% similarity to P. aeruginosa PilS/COG0642
DNO_0435	pilR	528	Two-component system/response regulator	70% similarity to P. aeruginosa PilR/COG2204
DNO_0515	pilF	253	Fimbrial assembly	60% similarity to P. aeruginosa PilZ/COG3063
DNO_0532	rpoN	469	σ51 factor	70% similarity to P. aeruginosa RpoN/COG1508
DNO_0675	pilT	357	Twitching motility ATPase	86% similarity to P. aeruginosa PilT/COG2805
DNO_0676	pilU	406	Twitching motility ATPase	76% similarity to P. aeruginosa PilU/COG5008
DNO_0712	fimV	959	Fimbrial biogenesis	53% similarity to P. aeruginosa FimV/COG3170
DNO_0890	pilE	151	Pilin-like protein	69% similarity to P. aeruginosa PilE/COG4968
DNO_0891	fimU	159	Pilin-like protein	58% similarity to P. aeruginosa FimU/T/COG4970
DNO_0892	pilX	221	Pilin-like protein	53% similarity to P. aeruginosa PilX/COG4726
DNO_0893	pilW	381	Pilin-like protein	46% similarity to P. aeruginosa PilW/COG4966
DNO_0894	pilV	189	Pilin-like protein	52% similarity to P. aeruginosa PilV/COG4967
DNO_0895	pilC	1272	Fimbrial biogenesis/adhesin	52% similarity to N. gonorrhoeae PilC/COG3419
DNO_1093	chpA	2554	CheA/CheY hybrid, chemosensory	55% similarity to P. aeruginosa ChpA/COG0643
DNO_1094	pilJ	436	PilJ homolog, chemosensory	54% similarity to P. aeruginosa PilJ/COG0840
DNO_1095	pilI	173	CheW-like protein, chemosensory	54% similarity to P. aeruginosa PilI/COG0835
DNO_1096	pilH	120	CheY-like protein, chemosensory	87% similarity to P. aeruginosa PilH/COG0745
DNO_1097	pilG	127	CheY homolog, chemosensory	82% similarity to P. aeruginosa PilG/COG0745
DNO_1106	ppk	722	Polyphosphate kinase	70% similarity to P. aeruginosa Ppk/COG0855
DNO_1124	fimP	286	Prepilin peptidase	77% similarity to P. aeruginosa PilD/XcpA/COG1989
DNO_1125	fimO	407	Fimbrial assembly	78% similarity to P. aeruginosa PilC/COG1459
DNO_1126	fimN	564	Fimbrial assembly	80% similarity to P. aeruginosa PilB/COG2804
DNO_1215	pilZ	120	Fimbrial assembly	76% similarity to P. aeruginosa PilZ/COG3215

^aLocus names and designations are as previously described (30, 34, 54, 61).

^bPercentage of overall similarity as determined by CLUSTAL W alignments.