Distribution of Genes Encoding Nucleoid-Associated Protein Homologs in Plasmids

Table 6

Gram-negative plasmids containing the gene encoding Hha-like protein^a.

Plasmid name	Accession no.	Source organism	Length (nt)	G+C content (%)^b	NAP gene homolog	Identity (%)^c	Query coverage (%)	Subject start	Subject end	MOB family^d
55989p	NC_011752	Escherichia coli 55989	72482	46		53	92	10025	9828
NR1	NC_009133	Escherichia coli	94289	52		53	92	87193	87390	MOBF
p1658/97	NC_004998	Escherichia coli	125491	51		55	92	36419	36616	MOBF
p1ESCUM	NC_011749	Escherichia coli UMN026	122301	50		53	92	53508	53311	MOBF
p2ESCUM	NC_011739	Escherichia coli UMN026	33809	42		62	90	7682	7488	MOBQ
p53638_226	NC_010719	Escherichia coli 53638	225683	48		55	92	67615	67418	MOBF
pAPEC-O1-R	NC_009838	Escherichia coli APEC O1	241387	46		50	92	61389	61586	MOBH
pAPEC-O2-ColV	NC_007675	Escherichia coli	184501	49		55	92	3882	3685	MOBF
pAPEC-O2-R	NC_006671	Escherichia coli	101375	53		53	92	4856	4659	MOBF
pBS512_211	NC_010660	Shigella boydii CDC 3083-94	210919	46		55	89	190719	190910	MOBF
pBS512_33	NC_010657	Shigella boydii CDC 3083-94	33103	41		62	90	2894	3088
pC15-1a	NC_005327	Escherichia coli	92353	53		53	92	87490	87687	MOBF
pCP301	NC_004851	Shigella flexneri 2a str. 301	221618	46		55	92	207828	208025	MOBF
pCROD1	NC_013717	Citrobacter rodentium ICC168	54449	47		56	92	53220	53417
pCROD2	NC_013718	Citrobacter rodentium ICC168	39265	42		62	90	15526	15332
pCT02021853_74	NC_011204	Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853	74551	49		62	90	48482	48288	MOBQ
pCTX-M3	NC_004464	Citrobacter freundii	89468	51		38	71	26136	26294	MOBP
			89468			31	96	40648	40439
pCTXM360	NC_011641	Klebsiella pneumoniae	68018	51		38	71	64551	64709	MOBP
			68018			31	96	10927	10718
pCVM29188_146	NC_011076	Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188	146811	49		53	92	18755	18558	MOBF
pEC14_114	NC_013175	Escherichia coli	114222	51		53	92	113985	114182	MOBF
pEC-IMP	NC_012555	Enterobacter cloacae	318782	48	H-NS	50	92	60491	60688	MOBH
pEC-IMPQ	NC_012556	Enterobacter cloacae	324503	48	H-NS	50	92	60491	60688	MOBH
pEG356	NC_013727	Shigella sonnei	70275	52		53	92	69444	69641	MOBF
pEK499	NC_013122	Escherichia coli	117536	53		53	92	41985	42182
pEK516	NC_013121	Escherichia coli	64471	53		53	92	31410	31213
pEL60	NC_005246	Erwinia amylovora	60145	51		38	71	23187	23345	MOBP
			60145			31	96	37863	37654
pEntH10407	NC_013507	Escherichia coli ETEC H10407	67094	51		55	78	43421	43254	MOBF
pHCM1	NC_003384	Salmonella enterica subsp. enterica serovar Typhi str. CT18	218160	48	H-NS	47	100	105911	106117	MOBH
pK2044	NC_006625	Klebsiella pneumoniae NTUH-K2044	224152	50	H-NS, Lrp	45	85	143331	143528
pK29	NC_010870	Klebsiella pneumoniae	269674	46		50	92	59322	59519	MOBH
pKF3-70	NC_013542	Klebsiella pneumoniae	70057	52		53	92	15967	15770	MOBF
pKF3-94	NC_013950	Klebsiella pneumoniae	94219	52		58	96	9596	9390	MOBF
pKP187	NC_011282	Klebsiella pneumoniae 342	187922	47		64	96	110083	109877
			187922			42	89	1550	1344
pKPN3	NC_009649	Klebsiella pneumoniae subsp. pneumoniae MGH 78578	175879	52		59	97	56930	56721	MOBF
plasmid_153 kb	NC_009705	Yersinia pseudotuberculosis IP 31758	153140	40	H-NS	69	93	63342	63542
			153140			56	92	49734	49931
pLVPK	NC_005249	Klebsiella pneumoniae	219385	50	H-NS, Lrp	61	97	148056	147847
			219385			45	85	214828	215025
pMAK1	NC_009981	Salmonella enterica subsp. enterica serovar Choleraesuis	208409	47	H-NS	47	100	49208	49414	MOBH
pMAS2027	NC_013503	Escherichia coli	42644	43		62	90	19685	19491	MOBQ
pO103	NC_013354	Escherichia coli O103:H2 str. 12009	75546	49		55	92	51727	51924	MOBF
pO111_1	NC_013365	Escherichia coli O111:H- str. 11128	204604	47	H-NS	47	100	66925	67131	MOBH
pO111_3	NC_013366	Escherichia coli O111:H- str. 11128	77690	50		55	92	11975	12172	MOBF
pO157	NC_013010	Escherichia coli O157:H7 str. TW14359	94601	48		55	92	70792	70989
pO157	NC_011350	Escherichia coli O157:H7 str. EC4115	94644	48		55	92	54735	54932
pO157	NC_007414	Escherichia coli O157:H7 EDL933	92077	48		55	92	1667	1864
pO157	NC_002128	Escherichia coli O157:H7 str. Sakai	92721	48		55	92	71183	71380
pO26I	NC_011812	Escherichia coli	72946	51		53	92	66608	66805	MOBF
pO86A1	NC_008460	Escherichia coli	120730	49		55	92	101598	101795	MOBF
pOLA52	NC_010378	Escherichia coli	51602	46		62	90	12114	11920	MOBQ
pOU1114	NC_010421	Salmonella enterica subsp. enterica serovar Dublin	34595	41		62	90	5446	5252	MOBQ
pOU1115	NC_010422	Salmonella enterica subsp. enterica serovar Dublin	74589	49		62	90	37246	37052	MOBQ
pSB4_227	NC_007608	Shigella boydii Sb227	126697	47		55	92	110688	110885	MOBF
pSE11-1	NC_011419	Escherichia coli SE11	100021	50		56	92	58407	58210	MOBP
pSE34	NC_010860	Salmonella enterica subsp. enterica serovar Enteritidis	32950	41		62	90	21875	22069	MOBQ
pSFO157	NC_009602	Escherichia coli	121239	50		52	75	1709	1870	MOBF
pSG1	NC_007713	Sodalis glossinidius str. “morsitans”	83306	49	H-NS	48	92	2294	2491
pSG1	NC_007182	Sodalis glossinidius	81553	49		48	92	56217	56414
pSMS35_130	NC_010488	Escherichia coli SMS-3-5	130440	51		55	92	3364	3167	MOBF
pSS_046	NC_007385	Shigella sonnei Ss046	214396	45		55	92	178363	178560	MOBF
pUTI89	NC_007941	Escherichia coli UTI89	114230	51		53	92	113993	114190	MOBF
pWR501	NC_002698	Shigella flexneri	221851	46		55	92	207534	207731	MOBF
R100	NC_002134	Shigella flexneri 2b str. 222	94281	52		53	92	87185	87382	MOBF
R27	NC_002305	Salmonella enterica subsp. enterica serovar Typhi	180461	46	H-NS	47	100	159402	159196	MOBH
R478	NC_005211	Serratia marcescens	274762	46	H-NS	50	92	59426	59623	MOBH
R721	NC_002525	Escherichia coli	75582	43		66	90	35285	35091
Unnamed	NC_011148	Salmonella enterica subsp. enterica serovar Agona str. SL483	37978	41	H-NS	42	93	1363	1163

^aThis list is the result of a TBLASTN analysis using the amino acid sequence of Hha as a query under strict conditions (i.e., thresholds of 30% identity and 70% query coverage).
^bAverage G+C content of the plasmid.
^cReported TBLASTN identity to Hha.
^dPlasmid classification according to its relaxase gene sequence as described by Garcillán-Barcia et al. [16].