Genotyping of Bacillus anthracis strains based on automated capillary 25-loci Multiple Locus Variable-Number Tandem Repeats Analysis

Lista, Florigio; Faggioni, Giovanni; Valjevac, Samina; Ciammaruconi, Andrea; Vaissaire, Josée; le Doujet, Claudine; Gorgé, Olivier; De Santis, Riccardo; Carattoli, Alessandra; Ciervo, Alessandra; Fasanella, Antonio; Orsini, Francesco; D'Amelio, Raffaele; Pourcel, Christine; Cassone, Antonio; Vergnaud, Gilles

doi:10.1186/1471-2180-6-33

Table 4 Bams30 allele codes

From: Genotyping of Bacillus anthracis strains based on automated capillary 25-loci Multiple Locus Variable-Number Tandem Repeats Analysis

Table 4A
Genotype	cluster	Bams30 allele	PCR fragment size^a	observed size^a	allele coding^bc
1	A1a	75	889	906 (+17)	ABCD EEFGGHGGG IG GJ abcdefcdghdghdefciefjkgk
42	A3a	75	889	906 (+17)	ABCD EEFGGHGGG IG GJ abcdefcdghdghdefciefjkgk
41	A3a	75	889	906 (+17)	ABCD EEFGGHGGG IG GJ abcdefcdghdghdefciefjkgk
33	A1a	75	889	906 (+17)	ABCD EEFGGHGGG IG GJ abcdefcdghdghdefciefjkgk
55	D	75	889	906 (+17)	ABCD EEFGGHGGG IGLGJ abcdefcdghd efciefjkgk
34	A1a	72	862	874 (+12)	ABCD EEFGGHGGG IG J abcdefcdghdghdefciefjkgk
37	A1a	72	862	874 (+12)	ABCD EEFGGHGGG IG J abcdefcdghdghdefciefjkgk
4	A1a	72	862	874 (+12)	ABCD EEFGGHGGG IG J abcdefcdghdghdefciefjkgk
54	A4	71	853	865 (+12)	ABCD EEFGMHGGG I LGJ ab cdghdghdefciefjkgk
67	C	71	853	ND	ABCD EEFGGHGGGGGI LGJ abcdef ciefjkgk
5	A1a	69	835	848 (+13)	ABC EFGGHGGG IG GJ abcdefcdghdghdefciefjkgk
58	E	60	754	763 (+9)	ABCD EEFGG IG IJ abcdefcdghd efciefjkgk
57	E	60	754	763 (+9)	ABCD EEFGG IG IJ abcdefcdghd efciefjkgk
51	A3b	57	727	735 (+8)	ABCD EEFGGHG J abcdefcdghd efciefjkgk
53	A3b	57	727	ND	ABCD EEFGGHG J abcdefcdghd efciefjkgk
52	A3b	53	691	698 (+7)	ABCD EEFGGHG J abcdefcdghd efjkgk
46	A3b	51	673	680 (+7)	ABCDEEEFG J abcdefcdghd efciefjkgk
48	A3b	51	673	681 (+7)	ABCDEEEFG J abcdefcdghd efciefjkgk
49	A3b	31	493	496 (+3)	ABCD EFGGH lj gk
63	B2	17	367	369 (+2)	AB cdghd efjkgk
64	B2	17	367	369 (+2)	AB cdghd efjkgk
66	B2	17	367	369 (+2)	AB cdghd efjkgk
62	B2	17	367	369 (+2)	AB cdghd efjkgk
59	B1	6	268	270 (+2)	AK
CEB9727	thuring.				ABCDEBGIIIGGGIBJ and fffffgdgfcafghabcdfabciefcfgfjka
Table 4b
27 bp repeat unit code		9 bp repeat unit code
A	CAACAGGAATAACGGGAGCAACCGGTG	a	CAACGGGAG
B	CAACAGGAATAACGGGAGCAACAGGTC	b	ACACAGGTC
C	CGACGGGAACAACAGGAGCGACCGGTG	c	TAGCAGGAG
D	CGACAGGAATAACGGGAGTGACCGGTG	d	CAACGGGCC
E	CAACAGGAATAACGGGAGTGACCGGTG	e	CGACAGGAG
F	CAACAGGAATAACGGGAGTGACAGGTC	f	CAACAGGTC
G	CGACGGGAATAACGGGAGCAACAGGTC	g	CAACAGGAG
H	CGGCGGGAATAACGGGAGTGACAGGTC	h	ATACTGGAG
I	CGGCGGGAATAACGGGAGCAACAGGTC	i	CAACAGGCC
J	CGACGGGAACAACAGGAGTAACCGGTC	j	TAACGGGAG
K	CAACAGGAATAACGGGAGCAACAGGTG	k	CAACTGGTG
L	CGACGGGAATAACGGGAGTAACCGGTC	l	CGACGGGAA
M	CGACGGGAATAACGGGAGTAACAGGTC

^a the PCR fragm ent size is the exact size, as deduced from sequence data.
The observed size is as m easured by capillary electrophoresis (the offset is indicated, and is proportional to allele size)
^b Upercase letters: 27 bp repeat units; Lowercase letters: 9 bp repeat units
^c "*" represent 9 base-pairs repeat units with a sequence m otif not observed in the B. anthracis alleles

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ISSN: 1471-2180

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