Genomic and phenotypic variation in epidemic-spanning Salmonella enterica serovar Enteritidis isolates

Laura Betancor; Lucia Yim; Maria Fookes; Araci Martinez; Nicholas R Thomson; Alasdair Ivens; Sarah Peters; Clare Bryant; Gabriela Algorta; Samuel Kariuki; Felipe Schelotto; Duncan Maskell; Gordon Dougan; Jose A Chabalgoity

doi:10.1186/1471-2180-9-237

BMC Microbiology

Table 4 Regions (REG) and single genes (SING) absent in the S. Enteritidis PT4 P125109 chromosome and predicted by CGH analysis as present in at least one Enteritidis isolate.

From: Genomic and phenotypic variation in epidemic-spanning Salmonella enterica serovar Enteritidis isolates

	ISOLATE DESIGNATION	GENE RANGE	HOMOLOGOUS^a	GENE DESCRIPTION
REG 10A	31/88	SDT1842-SDT1843	No	Similar to E coli K12 ymfD, ymfE phage proteins
REG 10B	31/88, 8/89, 47/95 (only SDT1860)	SDT1846-SDT1860	No	Shigella Phage proteins
REG 11#	8/89, AF3353, 31/88 (only STY1036)	STY1034-STY1036	SL1344, LT2, TY2, DT104	Part of Gifsy-2 antitermination ninG, dnaJ
REG 12A	31/88, 8/89	SL2583-SL2584	SBG	Phage related protein
REG 12B	31/88, 8/89	SL2588-SL2594	some SBG	Phage proteins, putative methyltransferase, unknown
REG 12C	31/88, 8/89	SL2599-SL2600	LT2, SDT104	Gifsy-1 integrase, unknown
REG 13	AF3353, 8/89 (only STY1013)	STY1011-STY1013	TY2, LT2, SL1344, DT104	Phage proteins (integrase, excisionase)
REG 14	AF3353, 8/89 (only STY1021)	STY1021-STY1024	TY2, LT2, SL1344, DT104	Phage proteins
REG 15A#	AF3353	STY3674-STY3689	SL1344, LT2, TY2, SPA	ST35 phage proteins
REG 15B	AF3353	STY3696-STY3702	TY2, SPA, LT2, SL1344	ST35 phage proteins
REG16A	AF3353	STY4600-STY4602	TY2, SPA. LT2, SL1344, SBG (except 4600)	Part of S. Typhi phage SopE
REG16B	AF3353	STY4605-STY4607	TY2, SPA, LT2, SL1344, SBG	Part of S. Typhi phage SopE
REG16C#	AF3353	STY4613-STY4628	TY2, SPA. LT2, SL1344 (except 4619)	Part of S. Typhi phage SopE
REG16D#	AF3353	STY4633-STY4635	SL1344, LT2, SPA	Part of S. Typhi phage SopE
REG16E	AF3353	STY4638-STY4639	TY2, SPA, LT2. SL1344 (except 4639)	Part of S. Typhi phage SopE
REG16F	AF3353	STY4641-STY4645	TY2, SPA. LT2 (except 4641)	Part of S. Typhi phage SopE
SING 10	53/94, 57/94, 47/95, 49/98	SBG0310	No	unknown
SING 11	31/88	SBG3602	LT2, CT18	Hypothetical protein
SING 12	S1400/94	STY0114	TY2, SPA	Putative IS transposase
SING 13	77/02	STY0480	TY2, SPA	Hypothetical protein
SING 14	49/98	STY4582	No	Exported protein
SING 15	31/88	STM0293	SL1344, DT104	unknown
SING 16	31/88	SDT2674	SL1344	unknown
SING 17	31/88, 8/89	STM2584	DT104, SL1344	gogB, leucine-rich repeat protein
SING 18	49/98	STY3619	TY2, SPA, LT2, SL1344	Conserved membrane protein
SING 19	AF3353	SBG0897	SBG	Phage related protein
SING 20	AF3353	SDT1865	No	unknown
SING 21	AF3353	SDT3861	No	unknown
SING 22	AF3353	STY1073	LT2, TY2	unknown
SING 23	AF3353	STY2013	TY2	unknown
SING 24	AF3353	STY4600	TY2, SPA	Transcriptional regulator
SING 25	AF3353	STY4619	TY2, SPA	Putative membrane protein
SING 26	AF3353	STY4639	TY2, LT2, SPA	Hypothetical protein

^a indicates when the REG or SING has homologous region described in other sequenced Salmonella serovars (see list of abbreviations). # indicates that the genetic region was previously described as variable among S. Enteritidis isolates [21].

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