Email updates

Keep up to date with the latest news and content from Genome Biology and BioMed Central.

Open Access Highly Accessed Research

Whole genome sequencing of a natural recombinant Toxoplasma gondii strain reveals chromosome sorting and local allelic variants

Irene Lindström Bontell16, Neil Hall2, Kevin E Ashelford2, JP Dubey3, Jon P Boyle4, Johan Lindh5 and Judith E Smith1*

Author Affiliations

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

For all author emails, please log on.

Genome Biology 2009, 10:R53  doi:10.1186/gb-2009-10-5-r53

Published: 20 May 2009

Additional 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

Open Data

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

Open Data

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

Open Data

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

Open Data

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

Open Data