Table 1. Annotated functions of colonization factors identified through Tn-Seq screening.

Based on annotation, candidate genes contribute to virulence, production of alginate and psl polysaccharides, DNA repair, biosynthesis of small molecules (nucleotides, amino acids, and B vitamins), and respiration, among other functions.

Role (annotation)	Gene ID	Gene	COG Category	Virulence Factor?	Fly specific
Virulence Factors	PA0336	ygdP	Defense mechanisms [V]	reported (55)
	PA4229	pchC	Secondary structures [Q]	VFDB
	PA1776	sigX	Transcription [K]
	PA1777	oprF	Cell envelope [M]	reported (25)
	PA2397	pvdE	Inorganic ions[P]	VFDB
	PA4494	roxS	Signal transduction [T]	reported (28)
	PA4856	retS	Signal transduction [T]	reported (56)
Flagella	PA1094	fliD	Cell motility [N]	VFDB	+
	PA1077	flgB	Cell motility [N]	VFDB	+
	PA1078	flgC	Cell motility [N]	VFDB	+
	PA1453	flhF	Cell motility [N]	VFDB
	PA1454	fleN	Cell motility [N]; Cell division [D]	VFDB
	PA1455	fliA	Transcription [N]	VFDB	+
	PA1456	cheY	Signal transduction [T]
	PA1461	motD	Cell motility [N]	VFDB	+
	PA3351	flgM	Transcription [K]	VFDB
Polysaccharides	PA5322	algC	Carbohydrates [G]	VFDB
	PA5262	algZ/fim S	Signal transduction [T]	VFDB
	PA0762	algU	Transcription [K]	VFDB
	PA0763	mucA*	Signal transduction [T]	VFDB
	PA1727	mucR	Signal transduction [T]
	PA3649	mucP	Cell envelope [M]
	PA1801	clpP	Protein stability [O]	(16)
	PA1802	clpX	Protein stability [O]	(16)
	PA2234	pslD	Cell envelope [M]]		+
	PA2235	pslE	Cell envelope [M]		+
	PA2236	pslF	Cell envelope [M]
	PA2239	pslI	Cell envelope [M]
DNA repair	PA0965	ruvC	Replication and repair [L]
	PA0966	ruvA	Replication and repair [L]
	PA0967	ruvB	Replication and repair [L]
	PA5344	oxyR	Transcription [K]	reported (57)
	PA5345	recG	Replication and repair [L]
	PA0407	gshB	Coenzyme metabolism [H]		+
	PA5203	gshA	Coenzyme metabolism [H]
	PA3625	surE	Replication and repair [L]		+
	PA3777	xseA	Replication and repair [L]
	PA3617	recA	Replication and repair [L]
	PA4283	recD	Replication and repair [L]
	PA4284	recB	Replication and repair [L]
	PA4285	recC	Replication and repair [L]
Biosynthetic Pathways	PA0944	purN	Nucleotide metabolism [F]		+
	PA0945	purM	Nucleotide metabolism [F]
	PA3108	purF	Nucleotide metabolism [F]
	PA4854	purH	Nucleotide metabolism [F]
	PA4855	purD	Nucleotide metabolism [F]
	PA5425	purK	Nucleotide metabolism [F]
	PA4756	carB	Nucleotide metabolism [F]
	PA4758	carA	Nucleotide metabolism [F]
	PA3527	pyrC’	Nucleotide metabolism [F]
	PA0402	pyrB	Nucleotide metabolism [F]
	PA0430	metF	Amino acids [E]		+
	PA3107	metZ	Amino acids [E]		+
	PA3166	pheA	Amino acids [E]
	PA5277	lysA	Amino acids [E]
	PA0025	aroE	Amino acids [E]
	PA5038	aroB	Amino acids [E]
	PA5039	aroK	Amino acids [E]
	PA4846	aroQ1	Amino acids [E]
	PA3165	hisC2	Amino acids [E]		+
	PA5140	hisF1	Amino acids [E]
	PA5067	hisE	Amino acids [E]
	PA5066	hisI	Amino acids [E]
	PA0035	trpA	Amino acids [E]		+
	PA0036	trpB	Amino acids [E]
	PA0649	trpG	Amino acids [E]		+
	PA0353	ilvD	Amino acids [E]		+
	PA4695	ilvH	Amino acids [E]		+
	PA4694	ilvC	Amino acids [E]
	PA4696	ilvI	Amino acids [E]
	PA5013	ilvE	Amino acids [E]
	PA5204	argA	Amino acids [E]
	PA5323	argB	Amino acids [E]		+
	PA0662	argC	Amino acids [E]		+
	PA3525	argG	Amino acids [E]		+
	PA3537	argF	Amino acids [E]
	PA5263	argH	Amino acids [E]
	PA3118	leuB	Amino acids [E]		+
	PA3121	leuC	Amino acids [E]
	PA5495	thrB	Amino acids [E]
	PA3736	hom	Amino acids [E]		+
	PA0316	serA	Amino acids [E]
	PA4565	proB	Amino acids [E]		+
	PA0381	thiG	Coenzyme metabolism [H]
	PA5118	thiI	Coenzyme metabolism [H]		+
	PA3975	thiD	Coenzyme metabolism [H]		+
	PA0501	bioF	Coenzyme metabolism [H]
	PA0500	bioB	Coenzyme metabolism [H]
	PA0502	bioH	Coenzyme metabolism [H]
	PA0420	bioA	Coenzyme metabolism [H]
Respiration	PA1553	ccoO1	Energy [C]
	PA1556	ccoO2	Energy [C]
	PA5300	cycB	Energy [C]
	PA5490	cc4	Carbohydrates [G]
	PA2637-PA2649	nuoABC DEFGHI JKLMN	Energy [C]