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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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RNA Seq in wild type and zfs1 deficient C. albicans

ABSTRACT: Members of the tristetraprolin (TTP) family of CCCH tandem zinc finger proteins bind to AU-rich regions in the 3'-untranslated regions (UTR) of target mRNAs, leading to their deadenylation and accelerated decay. Family members in S. cerevisiae influence iron metabolism, whereas the family member in S. pombe leads to defects in cell-cell interactions. In the important human fungal pathogen Candida albicans, deep sequencing of transcripts in mutants deficient in the analogous protein, Zfs1p, revealed 156 transcripts whose levels were significantly increased by at least 1.5-fold. Of these, 113 (72%) contained at least a single predicted TTP family member binding site in their 3âUTR. In contrast, 102 transcripts were significantly down-regulated by 1.5-fold or more, and only 5 (5%) of these contained potential binding sites. Sequences of the proteins encoded by the putative Zfs1p targets were highly conserved among other Candida species, while the predicted Zfs1p binding sites in these mRNAs progressively âdisappearedâ with increasing evolutionary distance from the parental species. The C. albicans results support the concept that the biochemical functions of the TTP family members in fungal organisms are highly conserved, yet each species appears to have evolved its own set of transcripts that are regulated by this mechanism. Strains were grown in YPD media to approximately OD600=0.75 and total RNA was harvested from four biological replicates each of WT and 2 independent isolates of the zfs1 deletion.

ORGANISM(S): Candida albicans

SUBMITTER: Melissa Wells

PROVIDER: E-GEOD-53073 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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RNA Seq in wild type and zfs1 deficient C. albicans

Project description:Members of the tristetraprolin (TTP) family of CCCH tandem zinc finger proteins bind to AU-rich regions in the 3'-untranslated regions (UTR) of target mRNAs, leading to their deadenylation and accelerated decay. Family members in S. cerevisiae influence iron metabolism, whereas the family member in S. pombe leads to defects in cell-cell interactions. In the important human fungal pathogen Candida albicans, deep sequencing of transcripts in mutants deficient in the analogous protein, Zfs1p, revealed 156 transcripts whose levels were significantly increased by at least 1.5-fold. Of these, 113 (72%) contained at least a single predicted TTP family member binding site in their 3’UTR. In contrast, 102 transcripts were significantly down-regulated by 1.5-fold or more, and only 5 (5%) of these contained potential binding sites. Sequences of the proteins encoded by the putative Zfs1p targets were highly conserved among other Candida species, while the predicted Zfs1p binding sites in these mRNAs progressively “disappeared” with increasing evolutionary distance from the parental species. The C. albicans results support the concept that the biochemical functions of the TTP family members in fungal organisms are highly conserved, yet each species appears to have evolved its own set of transcripts that are regulated by this mechanism.

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Differential Gene Expression and mRNA decay in Wild-Type and Myeloid-specific TTP Knock-out macrophages using RNA-Seq

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Functions of the Mediator subunit Med31 in Candida albicans support a role in shaping species-specific gene expression.

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