Core-genome phylogenic analysis of 154 Bc/Bt isolated from FBOs and commercial products.
| Title: | Core-genome phylogenic analysis of 154 Bc/Bt isolated from FBOs and commercial products. |
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| Authors: | Mathilde Bonis (400102); Arnaud Felten (4281799); Sylvie Pairaud (10170906); Angélie Dijoux (10170909); Véronique Maladen (10170912); Ludovic Mallet (4599400); Nicolas Radomski (475617); Arnaud Duboisset (10170915); Chantal Arar (10170918); Xavier Sarda (10170921); Gaelle Vial (4512421); Michel-Yves Mistou (158946); Olivier Firmesse (6597059); Jacques-Antoine Hennekinne (6597056); Sabine Herbin (5266154) |
| Publication Year: | 2021 |
| Collection: | Smithsonian Institution: Digital Repository |
| Subject Terms: | Biochemistry; Medicine; Ecology; Cancer; Science Policy; Environmental Sciences not elsewhere classified; Biological Sciences not elsewhere classified; Chemical Sciences not elsewhere classified; Bt; foodborne outbreaks; FBO |
| Description: | The analysis was performed using the pipeline iVARCall2 [ 41 ], and HD73 as a reference Bt strain. For better visualization, the tree (B) was built from the main one (A), excluding the cluster e, composed of 17 distant isolates. Phylogenetic reconstructions were performed by maximum likelihood with K3P model of substitution based on IQtree [ 43 ] and visualization of trees was performed with iTOL v5 [ 46 ]. (B) The trees were re-rooted on a branch of cluster e (A) and on a branch of cluster d (B). Bootstraps from 80 to 100 were represented by proportionately sized circles. Based on their cluster distribution (a to e), isolates were associated with red, orange, yellow, green and blue color, respectively. (C) Distribution of intra- (i.e. a, b, c, d or e) and inter-cluster cluster (i.e. a/b, a/c, a/d, b/a, b/c, b/d, c/a, c/b, c/d, d/a, d/b, d/c, e/a, e/b, e/c, e/d) pairwise SNP distances. Distances were compared with Wilcoxon rank-sum test implemented in R. *** = p -value |
| Document Type: | still image |
| Language: | unknown |
| Relation: | https://figshare.com/articles/figure/Core-genome_phylogenic_analysis_of_154_Bc_Bt_isolated_from_FBOs_and_commercial_products_/14067336 |
| DOI: | 10.1371/journal.pone.0246885.g005 |
| Availability: | https://doi.org/10.1371/journal.pone.0246885.g005 |
| Rights: | CC BY 4.0 |
| Accession Number: | edsbas.8AC023E3 |
| Database: | BASE |