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1.
Figure 2

Figure 2. Gene content and sequence relatedness between the Escherichia strains and the reference strain.. From: Genomic Diversity of Escherichia Isolates from Diverse Habitats.

Each data point represents the gANI value (evolutionary relatedness) and the gene content conservation (functional relatedness) between a tester and the reference (Sakai) strains. The shared gene content (%) was normalized by the total number of the reference (Sakai) genes represented on the microarray.

Seungdae Oh, et al. PLoS One. 2012;7(10):e47005.
2.
Figure 3

Figure 3. Gene signatures of human strains.. From: Genomic Diversity of Escherichia Isolates from Diverse Habitats.

The 98 genes differentially shared between G-II and G-III (p-values lower than 10−4 by Fisher’s exact test) are shown. Genes in blue boxes indicate hypothetical proteins and genes in red boxes are discussed in the text (associated with stress defense and adhesion). The color denotes gene presence (yellow) and absence (black).

Seungdae Oh, et al. PLoS One. 2012;7(10):e47005.
3.
Figure 1

Figure 1. Phylogenetic (A) and gene-content (B) diversity among the Escherichia strains.. From: Genomic Diversity of Escherichia Isolates from Diverse Habitats.

(A) The phylogenetic analysis was carried out based on the concatenated sequence alignment of five gene sequences using the neighbor-joining algorithm in MEGA 4.0 with default settings. (B) Escherichia strains were clustered based on the conservation pattern of 5,978 genes by a binary system (1 = presence and 0 = absence), using the CLUSTER 3.0 software [38] with Euclidean distance. Clustering was visualized in Treeview [39]. The values on the nodes of the trees represent bootstrap support from 100 replicates in both (A) and (B).

Seungdae Oh, et al. PLoS One. 2012;7(10):e47005.

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