Comparative genomics and biological characterization of sequential Pseudomonas aeruginosa isolates from persistent airways infection

Table 1 Predicted genomic islands in the genome of P. aeruginosa RP73 and comparison with other RP isolates and prototype strains

RP73 genomic island annotation						Other strains from patient RP		Prototype strains
Predicted Island	Start position	End position	Size (bp)	Annotation	Region of genome plasticity	RP45	RP1	PA14	PAO1	LESB58	PA7
1–3	1023578	1126198	102620	Pseudomonas aeruginosa strain C plasmid pKLC102	41	P	*	*	-	-	*
4	1372342	1385723	13381	Major facilitator transporter, 2-isopropylmalate synthase, putative membrane-bound lytic murein transglycolase A, hypothetical proteins	na	P	P	P	P	P	-
5	1408824	1421034	12210	Pseudomonas aeruginosa strain SMC4389 CRISPR repeat sequence	12	P	P	-	-	-	-
6	2576892	2587628	10736	Non-ribosomal peptide synthetases, hypothetical proteins	na	P	P	P	P	P	-
7	3092401	3101220	8819	Type II secretion system proteins, ABC transporter permease, hypothetical proteins	na	P	P	P	P	P	-
8	3764047	3768307	4260	Hypothetical proteins	na	P	P	P	P	P	-
9	3818768	3828628	9860	Non-ribosomal peptide synthetase, FAD-dependent monooxygenase, short chain dehydrogenase, cytochrome P450, 3-oxoacyl-(acyl carrier protein) synthase III, acyl carrier protein, major facilitator transporter	na	P	P	P	P	P	-
10	4356197	4363888	7691	Pseudomonas aeruginosa PAGI-9 genomic island sequence	89	P	P	-	-	-	-
11	5866390	5877731	11341	Putative short-chain dehydrogenase, ABC transporter ATP-binding protein, hypothetical proteins	na	P	*	*	*	*	*
12	6002572	6007043	4471	Hypothetical proteins	na	P	P	-	P	P	-

Genomic islands were predicted using Island Viewer [52] and described based on annotation with xBase [53] using P. aeruginosa PAO1 as a reference genome
Colocalization with regions of genome plasticity previously described by Klockgether et al. [5], P present, *: partially present (20–90 % coverage), -: absent

ISSN: 1471-2164