Data from: When outgroups fail; phylogenomics of rooting the emerging pathogen, Coxiella burnetii

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title Supplementary Information S1
Downloaded 52 times
Description S1. SNP matrix of 11,286 orthologous SNPs discovered among ten C. burnetii genomes.
Download Supplementary Information S1.xlsx (871.9 Kb)
Details View File Details
Title SupportinglnformationS2
Downloaded 64 times
Description S2. Maximum parsimony tree using seven parsimony informative (synapomorphic) SNPs with loci shared with closest outgroup species. Only one SNP locus (out of 11,386 total SNPs among C. burnetii genomes) was present in all genomes. The remaining six loci were found by relaxing the requirement that all loci are shared among all C. burnetii genomes as they were not present in the Q177 genome. All seven SNP loci were present in Pseudomonas syringae and Legionella pneumophila. Four of the seven loci were present in Ricketsiella grylli. Consistency index = 1.0. Numbers on branches indicate bootstrap support percentages from 1000 bootstrap replicates.
Download SupportinglnformationS2.pdf (85.02 Kb)
Details View File Details
Title SupportingInformationS3
Downloaded 54 times
Description S3. Rooted maximum parsimony tree of C. burnetii MST genotypes (1-34 and Dugway) after Hornstra et al. (Hornstra, Priestley, et al. 2011). Whole genome sequences are mapped onto the tree and the major genomic groups of C. burnetii are identified.
Download SupportingInformationS3.pdf (284.7 Kb)
Details View File Details

When using this data, please cite the original publication:

Pearson T, Hornstra HM, Sahl JW, Schaack S, Schupp JM, Beckstrom-Sternberg SM, O'Neill MW, Priestley RA, Champion MD, Beckstrom-Sternberg JS, Kersh GJ, Samuel JE, Massung RF, Keim P (2013) When outgroups fail; phylogenomics of rooting the emerging pathogen, Coxiella burnetii. Systematic Biology 62(5): 752-762. http://dx.doi.org/10.1093/sysbio/syt038

Additionally, please cite the Dryad data package:

Pearson T, Hornstra HM, Sahl JW, Schaack S, Schupp JM, Beckstrom-Sternberg SM, O'Neill MW, Priestley RA, Champion MD, Beckstrom-Sternberg JS, Kersh GJ, Samuel JE, Massung RF, Keim P (2013) Data from: When outgroups fail; phylogenomics of rooting the emerging pathogen, Coxiella burnetii. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.3g615
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: