Source: http://www.asmscience.org/content/book/10.1128/9781555816902.ch11
Timestamp: 2019-04-24 12:37:26+00:00

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The three major phylogenetic clades of B. cereus group species. Clade I strains show 60% to 87% homology to B. anthracis, while clade II strains show only 50% to 60% homology to B. anthracis, and clade III strains show 40% to 50% homology. These three clades are confirmed by FTIR spectroscopy, MLST analysis, and whole genome sequences ( 33 , 56 , 60 , 99 , 116 ).
Genetic relationship among emetic B. cereus strains. This part of cluster 1 (see Fig. 1 ) shows the phylogenetic branch, which includes emetic B. cereus. Strains with confirmed emetic toxin production are indicated by black circles. Strains that are thought to represent the ancestral group of B. anthracis ( 104 ) are indicated by a grey arrow. The tree was inferred from concatenated housekeeping gene sequences extracted from the University of Oslo’s B. cereus group MultiLocus and MultiData Typing website (http://mlstoslo.uio.no), using the neighbor-joining method (for details, see reference 33 ).
Pan genome, core genome, and accessory genomes. As an example, three strains of the B. cereus group are shown, one of each major cluster (compare to Fig. 1 ). All three share a core genome. The rest of the genome of a strain is called the accessory genome, which is composed of three parts which are named for the B. cereus type strain: A-c genes are unique for this strain and are not found in the two other strains; A-cw genes are the genes shared with the B. weihenstephanensis strain; and A-ce genes are the genes in common with the emetic B. cereus strain. Plasmid-borne genes were not considered. Allocation of a chromosomal gene to the core or accessory genome is not an easy task and depends critically on the cut-off settings used for gene comparison. Therefore, only approximate numbers can be given. The total gene numbers for each strain are those that were used for comparison. All numbers in this figure were calculated by the Multi Genome Homology Comparison tool of the Pathema-Bacillus website, using the standard cut-off settings (http://pathema.jcvi.org/cgi-bin/Bacillus/PathemaHomePage.cgi).
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