International Journal of Evolutionary Biology

Research Article

Distribution of Genes Encoding Nucleoid-Associated Protein Homologs in Plasmids

Table 8

MOB_Q-family plasmids of Gram-negative origin^a.


Plasmid name	Accession no.	Source organism	Length (nt)	G+C content (%)^b	NAP gene homolog	Identity (%)^c	Query coverage (%)	Subject start	Subject end

1	NC_008242	Chelativorans sp. BNC1	343931	62	HU	41	94	133932	133678
3	NC_007617	Nitrosospira multiformis ATCC 25196	14159	50
3	NC_007961	Nitrobacter hamburgensis X14	121408	62
At	NC_003064	Agrobacterium tumefaciens str. C58	542868	57	IHF	36	82	112654	112412
C	NC_010542	Cyanothece sp. ATCC 51142	14685	38
ColE9-J	NC_011977	Escherichia coli	7577	50
DN1	NC_002636	Dichelobacter nodosus	5112	62
F plasmid	NC_008036	Sphingopyxis alaskensis RB2256	28543	60
p11745	NC_013546	Actinobacillus pleuropneumoniae	5486	38
p12494	NC_010889	Actinobacillus pleuropneumoniae	14393	33
p1ABAYE	NC_010401	Acinetobacter baumannii AYE	5644	35
p1META1	NC_012807	Methylobacterium extorquens AM1	44195	68
p1METDI	NC_012987	Methylobacterium extorquens DM4	141504	65
p2007057	NC_011897	Salmonella enterica subsp. enterica serovar Bovismorbificans	4270	47
p2ABSDF	NC_010396	Acinetobacter baumannii SDF	25014	35
p2ESCUM	NC_011739	Escherichia coli UMN026	33809	42
p2META1	NC_012809	Methylobacterium extorquens AM1	37858	65	IHF	44	95	28369	28635
p3ABSDF	NC_010398	Acinetobacter baumannii SDF	24922	34
p42a	NC_007762	Rhizobium etli CFN 42	194229	58
p49879.1	NC_006907	Leptospirillum ferrooxidans	28878	58	HU	47	99	3281	3015
p49879.2	NC_006909	Leptospirillum ferrooxidans	28012	55	HU	48	99	15858	15592
pAb5S9	NC_009476	Aeromonas bestiarum	24716	54
pACRY07	NC_009473	Acidiphilium cryptum JF-5	5629	58
pAgK84	NC_011994	Agrobacterium radiobacter K84	44420	54
pAM5	NC_008691	Acidiphilium multivorum	5161	58
pAMI2	NC_010847	Paracoccus aminophilus	18563	62
pAMI3	NC_013513	Paracoccus aminophilus	5575	61
pAPA01-030	NC_013212	Acetobacter pasteurianus IFO 3283-01	49961	54
pAPA01-040	NC_013213	Acetobacter pasteurianus IFO 3283-01	3204	54
pAtK84b	NC_011990	Agrobacterium radiobacter K84	184668	59	IHF	38	86	54109	53855
pAtS4b	NC_011991	Agrobacterium vitis S4	130435	56	IHF	47	97	44880	45152
pAtS4c	NC_011984	Agrobacterium vitis S4	211620	59	HU	45	94	141245	140991
pAtS4e	NC_011981	Agrobacterium vitis S4	631775	57	HU	41	94	40476	40222
					Lrp	30	87	460443	460871
					Lrp	34	74	425247	424888
pAV2	NC_010310	Acinetobacter venetianus	15135	36
pB	NC_010996	Rhizobium etli CIAT 652	429111	58
pBGR3	NC_012847	Bartonella grahamii as4aup	28192	36
pBS512_5	NC_010659	Shigella boydii CDC 3083-94	5114	46
pC	NC_010997	Rhizobium etli CIAT 652	1091523	61	Lrp	46	88	617696	618130
					Lrp	42	90	609059	608619
					Lrp	39	95	417738	418202
					Lrp	42	79	714804	715193
					Lrp	39	93	406570	407025
pCAUL01	NC_010335	Caulobacter sp. K31	233649	67	HU	44	99	97598	97329
					Lrp	34	89	182479	182042
pCAUL02	NC_010333	Caulobacter sp. K31	177878	64
pCCK1900	NC_011378	Pasteurella multocida	10226	61
pCCK381	NC_006994	Pasteurella multocida	10874	61
pCFPG4	NC_011563	Candidatus Azobacteroides pseudotrichonympha genomovar. CFP2	4149	44
pCHE-A	NC_012006	Enterobacter cloacae	7560	60
pColE8	NC_012882	Escherichia coli	6751	51
pCROD3	NC_013719	Citrobacter rodentium ICC168	3910	51
pCT02021853_74	NC_011204	Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853	74551	49
pCVM19633_4	NC_011093	Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633	4585	48
pDSHI01	NC_009955	Dinoroseobacter shibae DFL 12	190506	60
pET09	NC_010695	Erwinia tasmaniensis Et1/99	9299	47
pGDIA01	NC_011367	Gluconacetobacter diazotrophicus PAl 5	27455	59
pGOX3	NC_006674	Gluconobacter oxydans 621H	14547	56
pHCG3	NC_005873	Oligotropha carboxidovorans OM5	133058	61
pHRM2a	NC_012109	Desulfobacterium autotrophicum HRM2	68709	42
pIGJC156	NC_009781	Escherichia coli	5146	47
pIGMS5	NC_010883	Escherichia coli	6750	51
pIGWZ12	NC_010885	Escherichia coli	4072	50
pISP3	NC_013970	Sphingomonas sp. MM-1	43398	63
pJD4	NC_002098	Neisseria gonorrhoeae	7426	38
plasmid1	NC_007801	Jannaschia sp. CCS1	86072	58
pLD-TEX-KL	NC_009966	Fluoribacter dumoffii	66512	39
pMAC	NC_006877	Acinetobacter baumannii	9540	35
pMAS2027	NC_013503	Escherichia coli	42644	43
pMbo4.6	NC_013500	Moraxella bovis	4658	39
pMCHL01	NC_011758	Methylobacterium chloromethanicum CM4	380207	66
pMG160	NC_004527	Rhodobacter blasticus	3431	67
pMG828-2	NC_008487	Escherichia coli	4091	50
pMG828-4	NC_008489	Escherichia coli	7462	48
pMMCU1	NC_013056	Acinetobacter calcoaceticus	8771	35
pMMCU2	NC_013506	Acinetobacter baumannii	10270	36
pMRAD01	NC_010510	Methylobacterium radiotolerans JCM 2831	586164	70
pMS260	NC_005312	Actinobacillus pleuropneumoniae	8124	61
pNGR234a	NC_000914	Rhizobium sp. NGR234	536165	59	Lrp	41	70	197189	196845
					Lrp	30	89	188867	188430
pNGR234b	NC_012586	Rhizobium sp. NGR234	2430033	62	Lrp	46	90	656547	656107
					Lrp	45	85	667494	667913
					Lrp	43	90	1038020	1038463
					Lrp	44	85	682796	683215
					Lrp	38	96	2400849	2401319
					Lrp	44	79	709104	708715
					Lrp	41	89	28336	28761
					Lrp	33	89	1108900	1109337
					Lrp	36	90	703213	702764
					Lrp	32	77	1112953	1112582
pNL2	NC_009427	Novosphingobium aromaticivorans DSM 12444	487268	66
pO111_4	NC_013367	Escherichia coli O111:H- str. 11128	8140	50
pO26-S4	NC_011228	Escherichia coli	6758	51
pOLA52	NC_010378	Escherichia coli	51602	46
pOU1114	NC_010421	Salmonella enterica subsp. enterica serovar Dublin	34595	42
pOU1115	NC_010422	Salmonella enterica subsp. enterica serovar Dublin	74589	49
pP	NC_003455	Salmonella enterica subsp. enterica serovar Enteritidis	4301	50
pP742405	NC_011733	Cyanothece sp. PCC 7424	18083	38
pP742406	NC_011734	Cyanothece sp. PCC 7424	15219	40
pPMA4326C	NC_005921	Pseudomonas syringae pv. maculicola	8244	53
pPNAP07	NC_008763	Polaromonas naphthalenivorans CJ2	9898	57
pPRO2	NC_008608	Pelobacter propionicus DSM 2379	30722	56
pPT1	NC_002143	Comamonas testosteroni	15398	56
pR132501	NC_012848	Rhizobium leguminosarum bv. trifolii WSM1325	828924	60	Lrp	47	88	234905	234471
					Lrp	44	86	386338	386760
					Lrp	39	93	645542	645087
					Lrp	42	79	147165	146776
pR132502	NC_012858	Rhizobium leguminosarum bv. trifolii WSM1325	660973	61
pR132503	NC_012853	Rhizobium leguminosarum bv. trifolii WSM1325	516088	59	HU	47	94	300662	300916
pR132504	NC_012852	Rhizobium leguminosarum bv. trifolii WSM1325	350312	61
pR132505	NC_012854	Rhizobium leguminosarum bv. trifolii WSM1325	294782	60
pRF	NC_007110	Rickettsia felis URRWXCal2	62829	34
pRFdelta	NC_007111	Rickettsia felis URRWXCal2	39263	33
pRi1724	NC_002575	Agrobacterium rhizogenes	217594	57
pRi2659	NC_010841	Agrobacterium rhizogenes	185462	58
pRL10	NC_008381	Rhizobium leguminosarum bv. viciae 3841	488135	60
pRL11	NC_008384	Rhizobium leguminosarum bv. viciae 3841	684202	61
pRL12	NC_008378	Rhizobium leguminosarum bv. viciae 3841	870021	61	Lrp	46	88	599116	598682
					Lrp	43	88	658287	658718
					Lrp	39	93	45601	45146
					Lrp	42	79	450080	449691
pRL7	NC_008382	Rhizobium leguminosarum bv. viciae 3841	151564	58	HU	48	94	20484	20230
pRL8	NC_008383	Rhizobium leguminosarum bv. viciae 3841	147463	59	Lrp	33	87	70763	70344
pRLG201	NC_011368	Rhizobium leguminosarum bv. trifolii WSM2304	1266105	60	Lrp	45	89	917573	917136
					Lrp	44	85	41998	42417
					Lrp	44	79	473039	472650
					Lrp	40	93	1162146	1161691
					Lrp	40	93	1150939	1150484
					Lrp	32	88	707587	707162
pRM	NC_010927	Rickettsia monacensis	23486	32
pSC101	NC_002056	Salmonella enterica subsp. enterica serovar Typhimurium	9263	51
pSE11-6	NC_011411	Escherichia coli SE11	4082	49
pSE34	NC_010860	Salmonella enterica subsp. enterica serovar Enteritidis	32950	41
pSMED01	NC_009620	Sinorhizobium medicae WSM419	1570951	62	Lrp	40	77	143180	143557
					Lrp	34	89	574284	573847
pSMED02	NC_009621	Sinorhizobium medicae WSM419	1245408	60	Lrp	42	91	556486	556932
					Lrp	40	91	842324	842758
					Lrp	31	87	22345	21917
pSmeSM11a	NC_013545	Sinorhizobium meliloti	144170	60	Lrp	46	96	70449	70922
pSmeSM11b	NC_010865	Sinorhizobium meliloti SM11	181251	59
pSMS35_4	NC_010486	Escherichia coli SMS-3-5	4074	50
pSx-Qyy	NC_006826	Sphingobium xenophagum	5683	56
pSymA	NC_003037	Sinorhizobium meliloti 1021	1354226	60	Lrp
pSymB	NC_003078	Sinorhizobium meliloti 1021	1683333	62	Lrp	38	90	440778	440335
					Lrp	36	89	29555	29992
pTB3	NC_008388	Roseobacter denitrificans OCh 114	16575	55
pTcM1	NC_010600	Acidithiobacillus caldus	65158	57	IHF	56	89	25186	25449
pTiS4	NC_011982	Agrobacterium vitis S4	258824	57	HU	41	94	27356	27102
					HU	40	94	83408	83154
					Lrp	42	79	96920	97309
pTi-SAKURA	NC_002147	Agrobacterium tumefaciens	206479	56	HU	44	94	95763	95509
pUT1	NC_014005	Sphingobium japonicum UT26S	31776	64
pUT2	NC_014009	Sphingobium japonicum UT26S	5398	61
pXAUT01	NC_009717	Xanthobacter autotrophicus Py2	316164	65
pXCV19	NC_007505	Xanthomonas campestris pv. vesicatoria str. 85-10	19146	60
pXF51	NC_002490	Xylella fastidiosa 9a5c	51158	50
pYAN-1	NC_008246	Sphingobium yanoikuyae	5182	62
pYAN-2	NC_008247	Sphingobium yanoikuyae	4924	64
RSF1010	NC_001740	Escherichia coli	8684	61
Symbiotic plasmid p42d	NC_004041	Rhizobium etli CFN 42	371254	58
Ti	NC_002377	Agrobacterium tumefaciens	194140	55	IHF	43	97	180164	180436
Ti	NC_003065	Agrobacterium tumefaciens str. C58	214233	57	HU	44	94	139735	139481
Ti plasmid pTiBo542	NC_010929	Agrobacterium tumefaciens	244978	55	IHF	36	86	209743	209489
					IHF	45	98	187204	187479
Unnamed	NC_011143	Phenylobacterium zucineum HLK1	382976	69

^aThis list is the result of a TBLASTN analysis using the 300 N-terminal amino acid sequence of protein MobA_RSF1010 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 each NAP.