Deciphering the draft genome of Toxoplasma gondii RH strain

Yee Ling Lau, Wenn Chyau Lee, Ranganath Gudimella, Gui Ping Zhang, Xiao Teng Ching, Rozaimi Mohamad Razali, Farhanah Aziz, Arif Anwar, Mun Yik Fong

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Toxoplasmosis is a widespread parasitic infection by Toxoplasma gondii, a parasite with at least three distinct clonal lineages. This article reports the whole genome sequencing and de novo assembly of T. gondii RH (type I representative strain), as well as genome-wide comparison across major T. gondii lineages. Genomic DNA was extracted from tachyzoites of T. gondii RH strain and its identity was verified by PCR and LAMP. Subsequently, whole genome sequencing was performed, followed by sequence filtering, genome assembly, gene annotation assignments, clustering of gene orthologs and phylogenetic tree construction. Genome comparison was done with the already archived genomes of T. gondii. From this study, the genome size of T. gondii RH strain was found to be 69.35Mb, with a mean GC content of 52%. The genome shares high similarity to the archived genomes of T. gondii GT1, ME49 and VEG strains. Nevertheless, 111 genes were found to be unique to T. gondii RH strain. Importantly, unique genes annotated to functions that are potentially critical for T. gondii virulence were found, which may explain the unique phenotypes of this particular strain. This report complements the genomic archive of T. gondii. Data obtained from this study contribute to better understanding of T. gondii and serve as a reference for future studies on this parasite.

Original languageEnglish
Article numbere0157901
JournalPLoS One
Volume11
Issue number6
DOIs
Publication statusPublished - 1 Jun 2016
Externally publishedYes

Fingerprint

Toxoplasma
Toxoplasma gondii
Genes
Genome
genome
Parasites
genes
genome assembly
Molecular Sequence Annotation
genomics
Genome Size
parasites
tachyzoites
Parasitic Diseases
toxoplasmosis
Toxoplasmosis
Base Composition
parasitoses
Cluster Analysis
Virulence

ASJC Scopus subject areas

  • Medicine(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Lau, Y. L., Lee, W. C., Gudimella, R., Zhang, G. P., Ching, X. T., Mohamad Razali, R., ... Fong, M. Y. (2016). Deciphering the draft genome of Toxoplasma gondii RH strain. PLoS One, 11(6), [e0157901]. https://doi.org/10.1371/journal.pone.0157901

Deciphering the draft genome of Toxoplasma gondii RH strain. / Lau, Yee Ling; Lee, Wenn Chyau; Gudimella, Ranganath; Zhang, Gui Ping; Ching, Xiao Teng; Mohamad Razali, Rozaimi; Aziz, Farhanah; Anwar, Arif; Fong, Mun Yik.

In: PLoS One, Vol. 11, No. 6, e0157901, 01.06.2016.

Research output: Contribution to journalArticle

Lau, YL, Lee, WC, Gudimella, R, Zhang, GP, Ching, XT, Mohamad Razali, R, Aziz, F, Anwar, A & Fong, MY 2016, 'Deciphering the draft genome of Toxoplasma gondii RH strain', PLoS One, vol. 11, no. 6, e0157901. https://doi.org/10.1371/journal.pone.0157901
Lau YL, Lee WC, Gudimella R, Zhang GP, Ching XT, Mohamad Razali R et al. Deciphering the draft genome of Toxoplasma gondii RH strain. PLoS One. 2016 Jun 1;11(6). e0157901. https://doi.org/10.1371/journal.pone.0157901
Lau, Yee Ling ; Lee, Wenn Chyau ; Gudimella, Ranganath ; Zhang, Gui Ping ; Ching, Xiao Teng ; Mohamad Razali, Rozaimi ; Aziz, Farhanah ; Anwar, Arif ; Fong, Mun Yik. / Deciphering the draft genome of Toxoplasma gondii RH strain. In: PLoS One. 2016 ; Vol. 11, No. 6.
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