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Abstract:

It is expected that the increasing genetic information on in genome databases will pave the way for investigating its evolution, ecology, and virulence, and, finally, will contribute to the development of new strategies to control and prevent foodborne diseases caused by . This chapter talks about toxins and population structure of the group. Many bacterial genome sequences, including strains, are available in draft versions only and are missing a few percent of the sequence. The chapter deals with only complete genome sequences, and illustrates that species definition in the group remains an open question and it may well be that the discussion will gain momentum with daily growing genome information, especially of "borderline strains". It focuses on pan genome, core genome, accessory genome, and mobilome of the group. geomics suggest that the mobilome of this species group is important not only to model its evolution, but also to differentiate and detect the different pathotypes. It is clearly visible that the high number of and strains already known is improving research tools to study pathogenicity, ecology, and host and environmental adaptation.

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11

Key Concept Ranking

Mobile Genetic Elements
0.597276
Bacterial Virulence Factors
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Group II Introns
0.42294344
Multilocus Sequence Typing
0.42236173
Horizontal Gene Transfer
0.4137089
0.597276
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Figures

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Figure 1

The three major phylogenetic clades of group species. Clade I strains show 60% to 87% homology to while clade II strains show only 50% to 60% homology to and clade III strains show 40% to 50% homology. These three clades are confirmed by FTIR spectroscopy, MLST analysis, and whole genome sequences ( ).

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
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Image of Figure 2
Figure 2

Genetic relationship among emetic strains. This part of cluster 1 (see Fig. 1 ) shows the phylogenetic branch, which includes emetic Strains with confirmed emetic toxin production are indicated by black circles. Strains that are thought to represent the ancestral group of ( ) are indicated by a grey arrow. The tree was inferred from concatenated housekeeping gene sequences extracted from the University of Oslo’s group MultiLocus and MultiData Typing website (http://mlstoslo.uio.no), using the neighbor-joining method (for details, see reference ).

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
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Figure 3

Pan genome, core genome, and accessory genomes. As an example, three strains of the 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 type strain: A- genes are unique for this strain and are not found in the two other strains; genes are the genes shared with the strain; and genes are the genes in common with the emetic 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).

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
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Tables

Generic image for table
Table 1

Types of foodborne disease caused by and symptomatically similar diseases caused by other foodborne pathogens

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
Generic image for table
Table 2

Toxin profiles of food isolates and isolates connected to foodborne outbreaks

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
Generic image for table
Table 3

Toxins of group strains

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
Generic image for table
Table 4

Genomic features of sensu lato in comparison with other completed species genomes

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11
Generic image for table
Table 5

Major genome characteristics of complete sequences of strains within sensu lato

Citation: Ehling-Schulz M, Knutsson R, Scherer S. 2011. , p 147-164. In Fratamico P, Liu Y, Kathariou S (ed), Genomes of Foodborne and Waterborne Pathogens. ASM Press, Washington, DC. doi: 10.1128/9781555816902.ch11

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