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Single nucleotide polymorphism typing of Bacillus anthracis from Sverdlovsk tissue.

Okinaka RT, Henrie M, Hill KK, Lowery KS, Van Ert M, Pearson T, Schupp J, Kenefic L, Beaudry J, Hofstadler SA, Jackson PJ, Keim P - Emerging Infect. Dis. (2008)

Bottom Line: A small number of conserved canonical single nucleotide polymorphisms (canSNP) that define major phylogenetic branches for Bacillus anthracis were used to place a Sverdlovsk patient's B. anthracis genotype into 1 of 12 subgroups.Reconstruction of the pagA gene also showed a unique SNP that defines a new lineage for B. anthracis.

View Article: PubMed Central - PubMed

Affiliation: Los Alamos National Laboratory, Los Alamos, New Mexico, USA.

ABSTRACT
A small number of conserved canonical single nucleotide polymorphisms (canSNP) that define major phylogenetic branches for Bacillus anthracis were used to place a Sverdlovsk patient's B. anthracis genotype into 1 of 12 subgroups. Reconstruction of the pagA gene also showed a unique SNP that defines a new lineage for B. anthracis.

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Related in: MedlinePlus

Schematic single nucleotide polymorphism (SNP) tree for Bacillus anthracis. This tree illustrates the relative positions of several sequenced strains of B. anthracis that form the specific sublineages in the A group of B. anthracis and in particular the Western North American lineage (A.BR.WNA, represented by a blue star [10]). The canonical SNPs and their positions are depicted in red lettering. A branch point (red circle) or node designated A.Br.008/009 originally represented 154 isolates and canSNP analysis places Sverdlovsk 7.RA93.15.15 in this node. The new pagA SNP981 defines a new branch radiating from this node and contains at least 3 other isolates.
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Related In: Results  -  Collection


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Figure 1: Schematic single nucleotide polymorphism (SNP) tree for Bacillus anthracis. This tree illustrates the relative positions of several sequenced strains of B. anthracis that form the specific sublineages in the A group of B. anthracis and in particular the Western North American lineage (A.BR.WNA, represented by a blue star [10]). The canonical SNPs and their positions are depicted in red lettering. A branch point (red circle) or node designated A.Br.008/009 originally represented 154 isolates and canSNP analysis places Sverdlovsk 7.RA93.15.15 in this node. The new pagA SNP981 defines a new branch radiating from this node and contains at least 3 other isolates.

Mentions: The Figure illustrates the relative positions of 3 canSNPs along the branches of the canSNP-derived phylogenetic tree for the 1,033 B. anthracis isolates (10). The focus of this diagram is the WNA lineage (A.Br.WNA), which forms a branch and a node part way along this branch. CanSNP typing both by traditional sequencing and by the mass spectrometry resequencing technique of the 2 positions (10) that define the WNA lineage (A.Br.WNA) and a branch point designated A.Br.008/009 (canSNPs in red; A.Br.008, and A.Br.009, respectively; Figure) confirms that the Sverdlovsk sample 7.RA93.15.15 (Table) is related to the WNA lineage. However, the canSNP genotype of the Sverdlovsk sample indicates that although it may share a common ancestor with the WNA lineage, it is a member of the A Branch.008/009 subgroup that comprises isolates (n = 154) that were recovered primarily from Europe and portions of Asia (10). The close relationship between the WNA sublineage and this major European/Asian subgroup is consistent with the hypothesis that B. anthracis was introduced into the North American continent by European settlers, possibly from France or Spain (10,12).


Single nucleotide polymorphism typing of Bacillus anthracis from Sverdlovsk tissue.

Okinaka RT, Henrie M, Hill KK, Lowery KS, Van Ert M, Pearson T, Schupp J, Kenefic L, Beaudry J, Hofstadler SA, Jackson PJ, Keim P - Emerging Infect. Dis. (2008)

Schematic single nucleotide polymorphism (SNP) tree for Bacillus anthracis. This tree illustrates the relative positions of several sequenced strains of B. anthracis that form the specific sublineages in the A group of B. anthracis and in particular the Western North American lineage (A.BR.WNA, represented by a blue star [10]). The canonical SNPs and their positions are depicted in red lettering. A branch point (red circle) or node designated A.Br.008/009 originally represented 154 isolates and canSNP analysis places Sverdlovsk 7.RA93.15.15 in this node. The new pagA SNP981 defines a new branch radiating from this node and contains at least 3 other isolates.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2570946&req=5

Figure 1: Schematic single nucleotide polymorphism (SNP) tree for Bacillus anthracis. This tree illustrates the relative positions of several sequenced strains of B. anthracis that form the specific sublineages in the A group of B. anthracis and in particular the Western North American lineage (A.BR.WNA, represented by a blue star [10]). The canonical SNPs and their positions are depicted in red lettering. A branch point (red circle) or node designated A.Br.008/009 originally represented 154 isolates and canSNP analysis places Sverdlovsk 7.RA93.15.15 in this node. The new pagA SNP981 defines a new branch radiating from this node and contains at least 3 other isolates.
Mentions: The Figure illustrates the relative positions of 3 canSNPs along the branches of the canSNP-derived phylogenetic tree for the 1,033 B. anthracis isolates (10). The focus of this diagram is the WNA lineage (A.Br.WNA), which forms a branch and a node part way along this branch. CanSNP typing both by traditional sequencing and by the mass spectrometry resequencing technique of the 2 positions (10) that define the WNA lineage (A.Br.WNA) and a branch point designated A.Br.008/009 (canSNPs in red; A.Br.008, and A.Br.009, respectively; Figure) confirms that the Sverdlovsk sample 7.RA93.15.15 (Table) is related to the WNA lineage. However, the canSNP genotype of the Sverdlovsk sample indicates that although it may share a common ancestor with the WNA lineage, it is a member of the A Branch.008/009 subgroup that comprises isolates (n = 154) that were recovered primarily from Europe and portions of Asia (10). The close relationship between the WNA sublineage and this major European/Asian subgroup is consistent with the hypothesis that B. anthracis was introduced into the North American continent by European settlers, possibly from France or Spain (10,12).

Bottom Line: A small number of conserved canonical single nucleotide polymorphisms (canSNP) that define major phylogenetic branches for Bacillus anthracis were used to place a Sverdlovsk patient's B. anthracis genotype into 1 of 12 subgroups.Reconstruction of the pagA gene also showed a unique SNP that defines a new lineage for B. anthracis.

View Article: PubMed Central - PubMed

Affiliation: Los Alamos National Laboratory, Los Alamos, New Mexico, USA.

ABSTRACT
A small number of conserved canonical single nucleotide polymorphisms (canSNP) that define major phylogenetic branches for Bacillus anthracis were used to place a Sverdlovsk patient's B. anthracis genotype into 1 of 12 subgroups. Reconstruction of the pagA gene also showed a unique SNP that defines a new lineage for B. anthracis.

Show MeSH
Related in: MedlinePlus