Table 1 Description of Yersinia polymorphic markers

From: A tandem repeats database for bacterial genomes: application to the genotyping of Yersinia pestis and Bacillus anthracis

							Expected	Estimated	Number	Total
Marker	U	N	% GC	V	Primer sequences	PCR	product	size range	of Alleles	number
							length (bp)	(bp)	in	of
									Y.pestis	alleles
Markers polymorphic in Yersinia pestis strains
yp0120ms01	18	8	34	86	L: CTAAGCACAATTGTTATGCTGAACC		228	180 - 280	3	4
					R: TACTGAATCTGCTTCATTGTTCAAA
yp1290ms04	17	8	27	96	L: CGCTGTTGAAGTTTTAGTGTAAGAA		230	160 - 240	3	5
					R: AAATGTAACCTGCCAAACGTG
yp1935ms05	17	11	36	87	L: CCTCAGTTCATTGTGTAAAATCTCA		291	190 - 300	2	4
					R: GTATTAGCGAGATCACAGATGAGC
yp2769ms06	60	9	48	64	L: AATTTTGCTCCCCAAATAGCAT	90 s	606	370 - 2500	3	5
					R: TTTTCCCCATTAGCGAAATAAGTA
yp2916ms07	10	9	44	85	L: ATACCGCTACGATCAGCCTCTAT		184	150 - 200	2	4
					R: ATTTAATATTGATTTTGGGACTTGC
yp3057ms09	18	33	65	91	L: CGTTACCCTTGTTGCCAATAGT	90 s	682	500 - 820	3	5
					R: ACGCAGAACATGCTTACCTTTTAT
yp0559ms15	15	10	30	62	L: TTGACCAAGTGTAAAAGGCATAAAT		237	225 - 250	2	2
					R: AAACTATCGCCAGCCATTTTAGTA
yp1814ms20	15	9	47	74	L: ACAACCTCAGTTTGCCCTTG		253	230 - 250	2	2
					R: GTAAAGAGCGCAATGATCGTACT
yp1895ms21	18	9	51	76	L: GCTTAAAGCAGATTGATACTCACG		278	220 - 350	3	5
					R: CTGCATGTTCACCGGTTCAG
yp4042ms35	15	8	41	59	L: CTGTTACCGGTCAAAGTGGATATT		204	195 - 225	2	3
					R: AGGCTCTCCTTATCATTATTTGGTC
yp4425ms38	16	8	41	86	L: GTGAGGTATAGCTAAACGGTGATGT		233	200 - 380	3	5
					R: CGCCGTAGATTATTTGTCACTTTAT
yp0581ms40	17	7	28	76	L: GCAATCATTCACCTAACCATATCTC		214	220 - 240	2	2
					R: GTGCAATAGGCGTTGTTGTGTA
yp0718ms41	17	7	41	75	L: GAAGAAAGCCAGCTAATCTGATG		217	180 - 220	2	2
					R: TAATGAATAGCAACGACAACCAATA
yp1018ms44	17	7	38	61	L: CAATTCCAACAGCTATTAATGCAA		233	220 - 260	2	3
					R: GAATTTTCATAACACGTTCTTCCTG
yp1108ms45	12	7	65	79	L: GCATCGGAGACTGGGTAAAC		161	120 - 170	3	4
					R: TTTCTGAGGATTTATCGGTGTGAT
yp1335ms46	17	7	33	73	L: CAGGTTTTACGTTATTTTCTGAAGG		252	230 - 310	3	4
					R: CAGCATGAAGTATGACGGGTATATTA
yp2058ms51	18	7	37	65	L: GGTTTTTACCGATATAAATCCTGAG		207	190 - 210	2	2
					R: GACCAAGAAGTTAAGTTGCTTATCG
yp2612ms54	22	7	28	82	L: GTCCACCATTTTCATACTGTCACTT		281	250 - 300	2	3
					R: GCTCTTTGTTCGATTTTATTGAATG
yp3060ms56	16	7	21	81	L: AACCGACTGACTCACTTTATATTGG		220	180 - 250	2	4
					R: TTCTTTTCCATTACTCAGCCTGTT
yp4280ms62	9	7	33	60	L: TTTAGTCTTGATTAAGCTGCGTTTT		240	220 - 310	3	5
					R: ACGGAAGACAACCTTATTATTGATG
yp1118ms69	16	6	39	82	L: GACGTTGCAACTGCAAAAATAAG		179	165 - 180	2	2
					R: ACTTGTTGTGAAGACCATCACTCT
yp1580ms70	9	6	32	97	L: AAACCAACGGTTCATATTGAATAAA		146	140 - 170	3	5
					R: CTTCTTCCGCTATTTTCCTACAGA
yp1925ms71	14	6	45	91	L: GCTACTCGAATATGAGTTAGCCAAA		171	145 - 210	2	4
					R: ATTGCCATATTGGATGCTAAAATAA
yp3236ms73	18	6	40	89	L: AATACCCTGTGGGTGATAATGAAC		225	175 - 230	2	3
					R: ATCGATTTAGGTACCACCAATTCA
yp3245ms74	15	6	44	83	L: CCCCGACTTATATCAAGCACTG		195	180 - 225	3	3
					R: AACTGACGATCTTTTTCACTGAGTT
Markers polymorphic in 5 *Yersinia* strains (monomorphic in *pestis* )
yp0802ms02	18	12	49	86	L: CTGACACAAAACGAGAGCCTATTT	53°C	314	240 - 315	1	2
					R: AGCGTGAGTGGGCTATCAATAC	1 min
yp2925ms08	15	12	39	63	L: AGCCTTTTTGTTGATTATCAGTCAT		270	270 - 290	1	2
					R: CGATAATAATACTGAATTACCGGATG
yp4411ms10	14	8	32	69	L: ATCATGCTTTTGCCTCAATATAATC		191	190 - 210	1	2
					R: GAAACGCAGTCCCTGTTGTAG
yp0813ms16	17	8	39	64	L: GTTGGTTATCCGACAGTCTTCAATA		235	230 - 270	1	2
					R: GCAATTCGTTATGGCTTAGTAAAAA
yp1269ms18	27	9	54	55	L: GCAAAAGCTGAAGCAGATAAAATAG		303	220 - 250	1	2
					R: AAACCACCAAACAAATCATCAAC
yp2196ms22	20	8	12	55	L: AAACCAACAAGAAAACTGTAACCAC	90 s	265	270 - 1500	1	2
					R: CATTCACCATTGATGTCCTTAGAC
yp2324ms24	19	8	34	65	L: TTCACCGGGTTACCTTAATTACATA		255	215 - 255	1	2
					R: CTACCTTGCTGTCAACACTCGAC
yp2331ms25	17	9	36	76	L: AACGCGTTAATAAAACAATAAAGTG		181	190 - 230	1	3
					R: CAATATCCTTTTACTCAGCCGATG
yp2679ms27	16	8	20	76	L: ATGATTACTGGCAAGAGCACTATGT		217	200 - 220	1	2
					R: AACAAGATCACCTGGTCGTTAAA
yp2908ms28	18	8	40	69	L: GCAGAAATAATCTTCAGGAGAAACA		242	190 - 290	1	2
					R: AGATCGTCGTTAGTCCATGTCAG
yp2958ms29	16	8	23	61	L: AAAATAGTCTGTGTTTCAGCAAAGC		215	215 - 245	1	2
					R: CCTTAAAAACCCTAAGTGGGTAAAA
yp3225ms30	54	11	51	52	L: CAATAATACCATCGTGCGTGATAC		683	680 - 900	1	2
					R: TATTAATGGTGGTGTTAGTCGCTGT
yp3532ms31	14	8	30	67	L: GTTATTTATTTTTGCCCCAACTTGT		217	215- 245	1	2
					R: TTAGCCTGTTTGTTCTTCAAATAGC
yp3787ms32	18	8	49	65	L: CGATAACGTTAATGCCATCAGTAG		218	190 - 240	1	3
					R: GCGCCGGTAAGTTTTGTTTATTA
yp3795ms33	15	8	43	67	L: CCCTTCTTTTTATGCTTGAAGATACT		210	210 - 225	1	2
					R: GTTGAACCACAGGCTGTTGAG
yp4371ms37	18	8	35	82	L: TACTTAGGCATTGTCTCTTCACTCC		235	235 - 255	1	2
					R: CTGAAATTATCAGTAGGTGGTTCGT
yp0999ms43	17	7	38	80	L: ATTCCACCACCAACAATTATCAC		211	220 - 300	1	3
					R: GGTATTCGTATTGAAGATGACATTG
yp1962ms50	18	7	34	71	L: TACCGAGGTATTCCCTGGTCTAAT		225	225 - 240	1	2
					R: AGTTGACTCCCAGTCACTTTTCC
yp3734ms59	16	7	36	69	L: ATTATCATGACCCTTCCAGTGCTAT		218	200 - 220	1	2
					R: CATCAAAATGCCAGGAGAGTAAC
yp4338ms63	17	7	38	72	L: ATTAACGATTTCTTGTCGCTCAGT		194	190 - 275	1	3
					R: AATCAGTAACGGCATGTGTCAGTA
yp0549ms66	18	6	41	83	L: TAAAAGCGTCAACAAAGTAGGTCAT		212	200 - 220	1	2
					R: GTTCCTGTTGTTGAAAATGCTG
yp0782ms67	18	6	40	90	L: TTCCAGGCTAAAGATATTGACTTTG		248	250 - 270	1	2
					R: CTCGGCTTGTTCTACGTTTAATG
yp1053ms68	18	6	32	82	L: CCGTTATCTGGTGAAAGTGAACAG		182	175 - 205	1	3
					R: GTCCGGTAGCCTGATTGTTTATT
yp3634ms75	15	6	36	80	L: ATGTGAGCTTGATTGCTGAGTAGT		210	180 - 210	1	3
					R: TCATATTTTAGGTGTTTTGCCTTTG

Some structural characteristics of the tandem repeats are presented : U (unit length), N (number of repeats), %GC, V (% of conservation). PCR and electrophoresis conditions are as described in the material and methods section : annealing temperature is 60°C, elongation time is 60 seconds and gels are 2% agarose except when indicated otherwise. Total number of alleles means number of alleles in 3 Y. pestis and 2 Y. pseudotuberculosis strains.

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ISSN: 1471-2180

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