Research
Whole genome sequencing of a natural recombinant Toxoplasma gondii strain reveals chromosome sorting and local allelic variants
1 Institute of Integrative and Comparative Biology, Clarendon Way, University of Leeds, Leeds, LS2 9JT, UK
2 School of Biological Sciences, University of Liverpool, Crown Street, Liverpool, L69 7ZB, UK
3 United States Department of Agriculture, Agricultural Research Service, Animal and Natural Resources Institute, Animal Parasitic Diseases Laboratory, Baltimore Avenue, Beltsville, MD 20705, USA
4 Department of Biological Sciences, University of Pittsburgh, Fifth Avenue, Pittsburgh, PA 15260, USA
5 Department of Parasitology, Mycology and Environmental Microbiology, Swedish Institute for Infectious Disease Control (SMI), Nobels väg, 171 82 Solna, Sweden
6 Current address: Division of Clinical Microbiology, Department of Medicine, Karolinska Institutet, Alfred Nobels Allé, 141 86 Stockholm, Sweden
Genome Biology 2009, 10:R53 doi:10.1186/gb-2009-10-5-r53
Published: 20 May 2009Additional files
Additional data file 1:
A PDF file showing distribution of SNPs called from the 454 whole genome sequencing of the recombinant Ugandan T. gondii strain TgCkUg2.
Format: PDF Size: 2.2MB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional data file 2:
A PDF file showing comparison of the distribution of SNPs in TgCkUg2 to the dominant SNP types for the three Toxoplasma reference strains for all 14 chromosomes.
Format: PDF Size: 117KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional data file 3:
A PDF file showing maximum likelihood analysis of SNPs, listing loci where omega (dN/dS) is significantly greater than 1.
Format: PDF Size: 19KB Download file
This file can be viewed with: Adobe Acrobat Reader
Additional data file 4:
An Excel file showing original data and calculations for divergence time, using either the intron mutation rate of 1.94 × 10-8 or the MRCA estimate of 150,000 years for calibration of the molecular clock.
Format: XLS Size: 28KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional data file 5:
An Excel file showing primers used for sequence-based genotyping of Toxoplasma isolates.
Format: XLS Size: 21KB Download file
This file can be viewed with: Microsoft Excel Viewer
