Phylogenetic and comparative genomics of the family Leptotrichiaceae and introduction of a novel fingerprinting MLVA for Streptobacillus moniliformis

Eisenberg, Tobias; Fawzy, Ahmad; Nicklas, Werner; Semmler, Torsten; Ewers, Christa

doi:10.1186/s12864-016-3206-0

Table 2 Analysis of genome data as well as predictions of coding regions of the Leptotrichiaceae members used in this study

From: Phylogenetic and comparative genomics of the family Leptotrichiaceae and introduction of a novel fingerprinting MLVA for Streptobacillus moniliformis

Strain no.	Organism	Approx. genome size (nt)	CDS^a	rRNA	tRNA^b	% GC^c	Total DNA coding regions (nt)	Total non-coding regions (nt)	Coding genome space (%)	Average gene density (genes/Mbp)	Average inter-genic region (nt)
1	S. moniliformis	1673280	1568	16	39	26.3	1556870	116410	93	937	74
2	S. moniliformis	1678906	1658	12	37	26.1	1508835	170071	89	988	103
3	S. moniliformis	1684459	1591	14	35	26.1	1486041	198418	87	945	125
4	S. moniliformis	1897024	2244	9	43	28.9	1651665	245359	85	1183	109
5	S. moniliformis	1712153	1764	3	38	26.1	1542831	169322	89	1030	96
6	S. moniliformis	1668382	1615	13	36	26.1	1484745	183637	88	968	114
7	S. moniliformis	1686977	1543	12	35	26.4	1449924	237053	84	915	154
8	S. moniliformis	1598404	1608	14	38	25.9	1470174	128230	91	1006	80
9	S. moniliformis	1689124	1675	4	36	26.1	1399686	289438	79	992	173
10	S. moniliformis	1756513	1765	14	37	26.1	1559103	197410	87	1005	112
11	S. moniliformis	1763717	1621	9	35	26.1	1488168	275549	81	919	170
12	S. moniliformis	1518628	1540	12	33	25.9	1442043	76585	95	1014	50
13	S. moniliformis	1689360	1765	5	36	26.1	1526748	162612	89	1045	92
14	S. moniliformis	1674237	1597	13	37	26.2	1477515	196722	87	954	123
15	S. moniliformis	1667701	1692	14	36	26.0	1518810	148891	90	1015	88
16	S. moniliformis	1690579	1538	16	37	26.1	1468143	222436	85	910	145
17	S. moniliformis	1608659	1507	22	34	26.2	1433763	174896	88	937	116
18	S. moniliformis	1497161	1644	8	36	25.8	1322022	175139	87	1098	107
19	S. moniliformis	1696954	1774	5	38	26.1	1521612	175342	88	1045	99
20	S. moniliformis	1696554	1688	17	37	26.0	1509528	187026	88	995	111
21	S. moniliformis	1792325	1664	16	42	26.2	1550631	241694	84	928	145
22	S. moniliformis	1759287	1737	13	43	25.9	1566621	192666	88	987	111
23	S. moniliformis	1608076	1559	10	35	26.0	1445580	162496	89	969	104
24	S. felis	1610666	1754	3	37	26.4	1450014	160652	89	1089	92
25	S. hongkongensis	1543001	1485	14	35	26.1	1324059	218942	83	962	147
26	S. notomytis	1762984	1773	9	43	28.1	1511157	251827	83	1006	142
27	S. notomytis	1426245	1349	8	40	26.4	1257996	168249	87	946	125
28	S. notomytis	1384502	1341	19	39	26.3	1256817	127685	90	969	95
29	S. ratti	1499353	1411	11	39	25.9	1318767	180586	86	941	128
30	Sneathia sanguinegens	1300753	1329	2	34	26.7	1214541	86212	93	1022	65
31	“Sn. amnii”	1339284	1282		34	28.3	1207722	131562	89	957	103
32	Sebaldella termitidis	4418842	4135	13	40	33.5	3802074	616768	84	936	149
33	Leptotrichia buccalis	2465610	2299	15	46	29.6	2062809	402801	80	932	175
34	L. goodfellowii	2281162	2241	7	39	31.6	2045213	235949	88	982	105
35	L. goodfellowii	2287284	2373	3	39	31.5	2055020	232264	89	1037	98
36	L. hofstadii	2453253	2720	13	47	30.8	2059248	394005	81	1109	145
37	L. shahii	2144606	1969	10	41	29.5	1812950	331656	82	918	168
38	L. wadei	2316529	2139	11	42	29.3	1973929	342600	83	923	160
39	L. wadei	2353455	2212	3	27	29.2	2008568	344887	83	940	156
40	Leptotrichia sp. oral taxon 212	2444904	2231	14	43	31.4	2146482	298422	86	936	130
41	Leptotrichia sp. oral taxon 215	2308492	2195	3	34	31.4	2039067	269425	87	951	123
42	Leptotrichia sp. oral taxon 225	2400083	2306	3	24	29.6	2061283	338800	84	961	147
43	Leptotrichia sp. oral taxon 879	2415750	2361	4	25	29.6	2026284	389466	81	977	165
44	C. abscessus	1219935	1198			26.5	1131456	88479	92	982	74
45	C. abscessus	1304155	1316	4	35	26.4	1201320	102835	91	1009	78
46	O. salmonicida	1769081	1869	2	38	25.4	1621182	147899	91	1056	79
47	Fusobacterium nucleatum (outgroup)	2174500	2022	15	47	27.2	1937724	236776	88	930	117

^aCDS: DNA coding sequences; ^btRNA: transfer ribonucleic acid; ^cGC: guanine-cytosine content

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