Published July 18, 2023
| Version v1
Dataset
Open
Impressive pan-genomic diversity of E. coli from a wild animal community near urban development reflects human impacts
Description
Data provided here support the findings of this study and code will allow the replication of analyses therein. To do so, first download and unzip the associated data files.
For each analysis, the following files are required:
PCAs: PCA.R, prokka_annotations.zip (and VirulenceFinder_results.csv for virulence factor PCA)
Sankey diagram: Plasmid_AMR_Sankey.R, mlplasmids_results.zip, MOBsuite_results.zip, ResFinder_results.csv
Pathotype assignment: VF_data_analysis.R, VirulenceFinder_results.csv
TableS1_Ecoli_metadata.csv contains the isolate metadata (n=143) for all above analyses.
Files
mlplasmids_results.zip
Files
(55.3 MB)
| Name | Size | Download all |
|---|---|---|
|
md5:8f6b3cfe4924631812b5ac2d9e817f31
|
22.0 kB | Download |
|
md5:c288ba2100e47a02c0b4db29c2200ea0
|
557.8 kB | Preview Download |
|
md5:da50441c1d3e7b83c5bc9c6a3b3e6c48
|
1.8 MB | Preview Download |
|
md5:c84ee57b3f4c59da6249868e8266eb40
|
6.9 kB | Download |
|
md5:eebae203009e47558f84ddd0db8c5e18
|
5.2 kB | Download |
|
md5:3fbaa76b0d8f25a1716448e09a046fa5
|
52.3 MB | Preview Download |
|
md5:f27c7e2a98d7999546eba671715dfc92
|
9.7 kB | Preview Download |
|
md5:b02677f793aa2eb66b848d11c43fc2e8
|
70.5 kB | Preview Download |
|
md5:afd0eb1192a5331f25a89458560fd644
|
5.0 kB | Download |
|
md5:70d6e7195406499c8f939e7d1833e512
|
530.0 kB | Preview Download |
Additional details
Related works
- Is published in
- Publication: 10.1016/j.isci.2024.109072 (DOI)