Distinct strains of Toxoplasma gondii feature divergent transcriptomes regardless of developmental stage

Matthew McKnight Croken, Yan Fen Ma, Lye Meng Markillie, Ronald C. Taylor, Galya Orr, Louis M. Weiss, Kami Kim

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

Using high through-put RNA sequencing, we assayed the transcriptomes of three different strains of Toxoplasma gondii representing three common genotypes under both in vitro tachyzoite and in vitro bradyzoite-inducing alkaline stress culture conditions. Strikingly, the differences in transcriptional profiles between the strains, RH, PLK, and CTG, is much greater than differences between tachyzoites and alkaline stressed in vitro bradyzoites. With an FDR of 10%, we identified 241 genes differentially expressed between CTG tachyzoites and in vitro bradyzoites, including 5 putative AP2 transcription factors. We also observed a close association between cell cycle regulated genes and differentiation. By Gene Set Enrichment Analysis (GSEA), there are a number of KEGG pathways associated with the in vitro bradyzoite transcriptomes of PLK and CTG, including pyrimidine metabolism and DNA replication. These functions are likely associated with cell-cycle arrest. When comparing mRNA levels between strains, we identified 1,526 genes that were differentially expressed regardless of culturecondition as well as 846 differentially expressed only in bradyzoites and 542 differentially expressed only in tachyzoites between at least two strains. Using GSEA, we identified that ribosomal proteins were expressed at significantly higher levels in the CTG strain than in either the RH or PLK strains. This association holds true regardless of life cycle stage.

Original languageEnglish (US)
Article number0111297
JournalPLoS One
Volume9
Issue number11
DOIs
StatePublished - Nov 13 2014

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Toxoplasma
Toxoplasma gondii
Transcriptome
transcriptome
tachyzoites
Genes
developmental stages
bradyzoites
genes
Transcription Factor AP-2
Cells
RNA Sequence Analysis
cdc Genes
Ribosomal Proteins
Cell Cycle Checkpoints
Life Cycle Stages
DNA Replication
Metabolism
pyrimidines
ribosomal proteins

ASJC Scopus subject areas

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

Cite this

Distinct strains of Toxoplasma gondii feature divergent transcriptomes regardless of developmental stage. / Croken, Matthew McKnight; Ma, Yan Fen; Markillie, Lye Meng; Taylor, Ronald C.; Orr, Galya; Weiss, Louis M.; Kim, Kami.

In: PLoS One, Vol. 9, No. 11, 0111297, 13.11.2014.

Research output: Contribution to journalArticle

Croken, Matthew McKnight ; Ma, Yan Fen ; Markillie, Lye Meng ; Taylor, Ronald C. ; Orr, Galya ; Weiss, Louis M. ; Kim, Kami. / Distinct strains of Toxoplasma gondii feature divergent transcriptomes regardless of developmental stage. In: PLoS One. 2014 ; Vol. 9, No. 11.
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