Table 2.

Regions of genome plasticity (RGP) in seven sequenced P. aeruginosa genomes.

RGP		Flanking loci		Strain
	Insertion Site	In PAO11	In PA141	PAO1	PA14	LESB58	PA7	2192	C3719	PACS2
RGP1		0201/0208	02530/02550	*			i		*	*
RGP2	tRNAArg	0256/0264	03160/03420	*	i	*	i	*	*
RGP3		0611/0629	07960/08160	*	*	i2	i		+	+
RGP4		0641/0648	08300/08330	*	i	i2	i	*	i	i
RGP5	tRNAGly	0714/0730	55100/54830	i	i		i	i		i
RGP6	tmRNA	0819/0827	53680/53560	i	i	i	i	i	i	i
RGP7	tRNALys	0976/0988	51670/51510	i	i		i
RGP8	tRNASer	1013/1014	51240/51220				i		i
RGP93		1087/1092	50340/50290	*	*	*	i	i	*	i
RGP10		1191/1192	49040/48870		i	i	i
RGP11		1222/1225	48520/48440	*	i	*	i	*	*	*
RGP12		1243/1244	48160/48150				i	i
RGP13		1367/1373	46630/46490	i	i	i	i	i
RGP14		1375/1376	46470/46540		i				i
RGP15		1377/1394	46440/46390	i	i		i4	i	i	i
RGP16		1530/1531	44650/44640		i5				i	i
RGP17	tRNAHis	1796/1797	41350/41280				i	i
RGP19		1964/1965	39130/39110					i
RGP20		2024/2070	38340/37730	i	*	*	i	i		i
RGP21		2099/2107	37360/37350	*				*
RGP22		2181/2187	36370/36360	*		*	i		*	*
RGP23		2217/2235	36050/35690	i	i	i	i	i	i	i
RGP24		2422/2423	33370/33290		i		i	i	*	*
RGP25		2455/2464	32860/32770	i	i	i	i	i	i	i
RGP26	tRNALeu	2570/2571	31290/30840		i		i
RGP27	tRNAGly	2583/2584	30700/30670		i	i	i			i
RGP28	tRNAPro	2727/2737	28895/28730	i	i	i	i	i	i	i
RGP29	tRNAGly	2817/2820	27710/27590	+	*	*	+	i	*	*
RGP30		2950/2951	25900/25880					i
RGP316		3141/3160	23470/23360	i	i	i	i	*	i	*
RGP32		3222/3223	22560/22490		i
RGP33		3239/3240	22290/22075		i
RGP34		3496/3515	18870/18860	i
RGP35		3536/3537	18620/18610					i
RGP36		3768/3769	15670/15340		i	i				i
RGP37		3865/3870	13990/13850	*	i			*
RGP38		4162/4163	10130/10040		*		*
RGP39		4190/4196	09700/09690	*		*		*	*	*
RGP41	tRNALys	4541/4542	58900/60190		i			i	i	i
RGP42	tRNAMet	4673/4674	61820/61840	i7			i	i		i
RGP43		2770/2773	28280/28220	*8	i	*8	i	*8	*8	*8
RGP44		4100/4108	10850/10820	*	i	*	*	*	*	*
RGP46		0041/0042	00510/00530		i	i	i	i	i
RGP47		1149/1153	49530/49500	i	i	*		*	i	*
RGP48		1238/1242	48240/48170	*	*			*		*
RGP50		1655/1656	43110/43050		i
RGP52		1934/1940	39500/39460	i	i	i	i	i	i	i
RGP53		2332/2337	34450/34440	*		*		*	*	*
RGP56		2793/2795	28000/27980	*	*	+	i	+	*	+9
RGP58	tRNAArg	3366/3368	20560/20490	*	i	i	*	*	*	i
RGP6010	tRNAThr	4524/4526	58700/58750	i	*	+	i	+	*	i
RGP62	tRNAPhe	5149/5150	68000/68040							i
RGP63		006911	0081011				i
RGP64		027811	0362011				i
RGP65		0377/0378	04940/04950				i
RGP66	tRNAMet	0574/0575	07450/07500		i		i
RGP67		3858/3859	14080/14100				i
RGP6812		3840/3844	14290/14340	*	i	*	i	*	*	*
RGP69		3714/3715	16340/16350				i
RGP70	tRNAPro	3031/3032	24860/24880				i
RGP71		2650/2651	29820/29830			*	i		*	*
RGP72	tRNACys	2581/2582	30710/30730				i
RGP7313		2397/2403	33600/33690	*	*	i	+	i	+	+
RGP74		2201/2202	36230/36250				i
RGP75		1579/1580	44070/44080				i
RGP76		1425/1428	45980/46010	*	*	*	i	*	*	*
RGP77		1397/1398	46330/46350				*			*
RGP78		4466/4467	57980/57990				i
RGP79		5290/5291	69840/69850				i
RGP80		5454/5460	72000/72060	*	*	*	i	*	*	*
RGP81		4138/4139	10420/10380			i
RGP82		3663/3664	16980/16970			i
RGP83		3463/3464	19330/19320	i14		i		i14	*14	*14
RGP84	tRNASer	2603/2604	30430/30410			i	15
RGP85		2593/2594	30550/30560			i	15
RGP86		0831/0832	53510/53520			i
RGP87	tRNAThr	5160/5161	68140/68170					i		i
RGP88		396116	1263016
RGP89		3834/3836	14440/14390	*	i	*	+	i	*	+

Differentiation of accessory elements in the RGPs: i, strain-specific accessory element; *or +, identical accessory elements in two or more strains. RGPs 1–62 were defined by Mathee et al. (2008) and RGPs 63–80 by Roy et al. (2010). The novel RGPs 81–89 were extracted from the sequences of genomic islands in strain LESB58 (RGP 81–86; Winstanley et al., 2009) and strain PSE9 (RGP 87–89; Battle et al., 2009).

¹Insertions are designated by the numbers of the flanking loci in the PAO1 and PA14 genomes (e.g., 0201 is PA0201, 02530 is PA14_02530).

²Insertion LESPP-1 between PA0612 and PA0648 homologs comprises RGP3 and RGP4.

³Region containing flagellin glycosylation genes (replacement island).

⁴Partial duplication of sequence of the core genome (between RGP27 and RGP28).

⁵No annotated ORF in this insertion.

⁶Region contains O-antigen gene cluster (replacement island).

⁷No insertion in PAO1 reference sequence but in variants PAO1-DSM and MPAO1 (Klockgether et al., 2010).

⁸Identical sequence with discordant ORF annotation for the different strains.

⁹Identical sequence with discordant annotation for PACS2 versus LESB58 and 2192.

¹⁰Region contains pilA gene (replacement island).

¹¹Homologous ORF in PA7 disrupted by the insertion.

¹²Insertion contains exoS gene in PAO1, LESB58, 2192, C3719, and PACS2.

¹³Region contains pyoverdine synthesis gene cluster (replacement island).

¹⁴<1 kb insertion in PAO1, 2192, C3719, and PACS2 with no predicted ORF.

¹⁵Insertion in PA7 comprises RGP84 and RGP85.

¹⁶Homologous ORF in strain PSE9 disrupted by PAGI-7.