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A complete view of the genetic diversity of the Escherichia coli O-antigen biosynthesis gene cluster.

Iguchi A, Iyoda S, Kikuchi T, Ogura Y, Katsura K, Ohnishi M, Hayashi T, Thomson NR - DNA Res. (2014)

Bottom Line: Furthermore, phylogenetic analysis of all the E. coli O-serogroup reference strains revealed that the nearly one-quarter of the 184 serogroups were found in the ST10 lineage, which may have a unique genetic background allowing a more successful exchange of O-AGCs.Our data provide a complete view of the genetic diversity of O-AGCs in E. coli showing a stronger association between host phylogenetic lineage and O-serogroup diversification than previously recognized.These data will be a valuable basis for developing a systematic molecular O-typing scheme that will allow traditional typing approaches to be linked to genomic exploration of E. coli diversity.

View Article: PubMed Central - PubMed

Affiliation: Department of Animal and Grassland Sciences, Faculty of Agriculture, University of Miyazaki, Miyazaki 889-2192, Japan iguchi@med.miyazaki-u.ac.jp.

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Correlation between the Escherichia coli evolutionary lineages and the distribution of O-AGCs. The phylogenetic tree was constructed based on the concatenated sequences of seven housekeeping genes from all 184 E. coli O-serogroup reference strains. The group names of O-AGCs (Gp1–Gp16) are indicated in the outermost region. Members in groups indicated in green were found to belong to the same or very closely related lineage, whereas members of the groups indicated in blue were found in distinct lineages. The outer circle next to the O serogroup names indicates the distribution of sugar synthesis gene sets identified in each O-AGC. The inner circle indicates the type of O-antigen processing system (wzx/wzy or wzm/wzt). Phylogenetic groups (A, B1, B2, D, and E) were determined by comparing the sequences of the strains tested with the known sequences from the ECOR collection (http://mlst.warwick.ac.uk/mlst/dbs/Ecoli).
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DSU043F3: Correlation between the Escherichia coli evolutionary lineages and the distribution of O-AGCs. The phylogenetic tree was constructed based on the concatenated sequences of seven housekeeping genes from all 184 E. coli O-serogroup reference strains. The group names of O-AGCs (Gp1–Gp16) are indicated in the outermost region. Members in groups indicated in green were found to belong to the same or very closely related lineage, whereas members of the groups indicated in blue were found in distinct lineages. The outer circle next to the O serogroup names indicates the distribution of sugar synthesis gene sets identified in each O-AGC. The inner circle indicates the type of O-antigen processing system (wzx/wzy or wzm/wzt). Phylogenetic groups (A, B1, B2, D, and E) were determined by comparing the sequences of the strains tested with the known sequences from the ECOR collection (http://mlst.warwick.ac.uk/mlst/dbs/Ecoli).

Mentions: Based on the concatenated nucleotide sequences of seven housekeeping genes used for MLST, we determined the evolutionary relationships of all E. coli O-serogroup reference strains (Fig. 3). This analysis revealed that the members of five groups sharing the common O-AGCs (Gp8, Gp10, Gp11, Gp14, and Gp15) and two members (O17 and O77) of Gp9 were found in closely related lineages. However, the members of other groups (and three members of Gp9) were found in distinct evolutionary lineages. For example, O20 and O137, both carrying the Gp1 O-AGC, were found in two distinct lineages, each belonging to phylogroups A and E/D, respectively, and five serogroups (O17/O77, O44, O73, and O106) belonging to Gp9 were found in multiple lineages (A, E/D, and B1).Figure 3.


A complete view of the genetic diversity of the Escherichia coli O-antigen biosynthesis gene cluster.

Iguchi A, Iyoda S, Kikuchi T, Ogura Y, Katsura K, Ohnishi M, Hayashi T, Thomson NR - DNA Res. (2014)

Correlation between the Escherichia coli evolutionary lineages and the distribution of O-AGCs. The phylogenetic tree was constructed based on the concatenated sequences of seven housekeeping genes from all 184 E. coli O-serogroup reference strains. The group names of O-AGCs (Gp1–Gp16) are indicated in the outermost region. Members in groups indicated in green were found to belong to the same or very closely related lineage, whereas members of the groups indicated in blue were found in distinct lineages. The outer circle next to the O serogroup names indicates the distribution of sugar synthesis gene sets identified in each O-AGC. The inner circle indicates the type of O-antigen processing system (wzx/wzy or wzm/wzt). Phylogenetic groups (A, B1, B2, D, and E) were determined by comparing the sequences of the strains tested with the known sequences from the ECOR collection (http://mlst.warwick.ac.uk/mlst/dbs/Ecoli).
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4379981&req=5

DSU043F3: Correlation between the Escherichia coli evolutionary lineages and the distribution of O-AGCs. The phylogenetic tree was constructed based on the concatenated sequences of seven housekeeping genes from all 184 E. coli O-serogroup reference strains. The group names of O-AGCs (Gp1–Gp16) are indicated in the outermost region. Members in groups indicated in green were found to belong to the same or very closely related lineage, whereas members of the groups indicated in blue were found in distinct lineages. The outer circle next to the O serogroup names indicates the distribution of sugar synthesis gene sets identified in each O-AGC. The inner circle indicates the type of O-antigen processing system (wzx/wzy or wzm/wzt). Phylogenetic groups (A, B1, B2, D, and E) were determined by comparing the sequences of the strains tested with the known sequences from the ECOR collection (http://mlst.warwick.ac.uk/mlst/dbs/Ecoli).
Mentions: Based on the concatenated nucleotide sequences of seven housekeeping genes used for MLST, we determined the evolutionary relationships of all E. coli O-serogroup reference strains (Fig. 3). This analysis revealed that the members of five groups sharing the common O-AGCs (Gp8, Gp10, Gp11, Gp14, and Gp15) and two members (O17 and O77) of Gp9 were found in closely related lineages. However, the members of other groups (and three members of Gp9) were found in distinct evolutionary lineages. For example, O20 and O137, both carrying the Gp1 O-AGC, were found in two distinct lineages, each belonging to phylogroups A and E/D, respectively, and five serogroups (O17/O77, O44, O73, and O106) belonging to Gp9 were found in multiple lineages (A, E/D, and B1).Figure 3.

Bottom Line: Furthermore, phylogenetic analysis of all the E. coli O-serogroup reference strains revealed that the nearly one-quarter of the 184 serogroups were found in the ST10 lineage, which may have a unique genetic background allowing a more successful exchange of O-AGCs.Our data provide a complete view of the genetic diversity of O-AGCs in E. coli showing a stronger association between host phylogenetic lineage and O-serogroup diversification than previously recognized.These data will be a valuable basis for developing a systematic molecular O-typing scheme that will allow traditional typing approaches to be linked to genomic exploration of E. coli diversity.

View Article: PubMed Central - PubMed

Affiliation: Department of Animal and Grassland Sciences, Faculty of Agriculture, University of Miyazaki, Miyazaki 889-2192, Japan iguchi@med.miyazaki-u.ac.jp.

Show MeSH
Related in: MedlinePlus