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ChIP-seq of Ndt80 in a C. albicans, C. dubliniensis and C. tropicalis during biofilm formation in different media

ABSTRACT: ChIP-seq of Ndt80 in a C. albicans, C. dubliniensis and C. tropicalis during biofilm formation in different media

PROVIDER: PRJNA675636 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13012300.fastq.gz	Fastqsanger.gz
	SRR13012301.fastq.gz	Fastqsanger.gz
	SRR13012302.fastq.gz	Fastqsanger.gz
	SRR13012303.fastq.gz	Fastqsanger.gz
	SRR13012304.fastq.gz	Fastqsanger.gz

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ChIP-seq of Ndt80 in a C. albicans, C. dubliniensis and C. tropicalis during biofilm formation in different media

Project description:The purpose of this experiment was to identify the genes bound by the regulator Ndt80 in C. albicans, C. dubliniensis and C. tropicalis during biofilm formation in different growth media. Ndt80 was tagged with a c-myc epitope in the three species and the immunoprecipitation of the tagged strain was compared to that of an untagged control strain in two different media for each species.

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Project description:The purpose of this experiment was to identify the genes bound by the regulator Ndt80 in a C. albicans x C. dubliniensis hybrid during biofilm formation. C. albicans or C. dubliniensis Ndt80 was tagged with a c-myc epitope in a C. albicans x C. dubliniensis hybrid and the immunoprecipitation of the tagged strain was compared to that of an untagged control hybrid strain.

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Candida tropicalis and Candida dubliniensis

Project description:Candida tropicalis and Candida dubliniensis Genome sequencing

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Species- and condition-specific adaptation of the transcriptional landscapes in Candida albicans and Candida dubliniensis

Project description:Although Candida albicans and Candida dubliniensis are most closely related, both species significantly behave differently with respect to morphogenesis and virulence. In order to gain further insight into the divergent routes for morphogenetic adaptation in both species, we investigated qualitative along with quantitative differences in the transcriptomes of both organisms by cDNA deep sequencing. Following genome-associated assembly of sequence reads we were able to generate experimentally verified databases containing 6016 and 5972 genes for C. albicans and C. dubliniensis, respectively. About 95% of the transcriptionally active regions (TARs) contain open reading frames while the remaining TARs most likely represent non-coding RNAs. Comparison of our annotations with publically available gene models for C. albicans and C. dubliniensis confirmed approximately 95% of already predicted genes, but also revealed so far unknown novel TARs in both species. Qualitative cross-species analysis of these databases revealed in addition to 5802 orthologs also 399 and 49 species-specific protein coding genes for C. albicans and C. dubliniensis, respectively. Furthermore, quantitative transcriptional profiling using RNA-Seq revealed significant differences in the expression of orthologs across both species. We defined a core subset of 84 hyphal-specific genes required for both species, as well as a set of 42 genes that seem to be specifically induced during hyphal morphogenesis in C. albicans. Species specific adaptation in C. albicans and C. dubliniensis is governed by individual genetic repertoires but also by altered regulation of conserved orthologs on the transcriptional level.

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