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Sterol Regulatory Element-Binding Protein Sre1 regulates carotenogenesis in the red yeast Xanthophyllomyces dendrorhous.

ABSTRACT: Sterol Regulatory Element-Binding Protein Sre1 regulates carotenogenesis in the red yeast Xanthophyllomyces dendrorhous.

PROVIDER: PRJNA640312 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12044253_1.fastq.gz	Fastqsanger.gz
	SRR12044253_2.fastq.gz	Fastqsanger.gz
	SRR12044254_1.fastq.gz	Fastqsanger.gz
	SRR12044254_2.fastq.gz	Fastqsanger.gz
	SRR12044255_1.fastq.gz	Fastqsanger.gz

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Similar Datasets

Sterol Regulatory Element-Binding Protein Sre1 regulates carotenogenesis in the red yeast Xanthophyllomyces dendrorhous.

Project description:Xanthophyllomyces dendrorhous is a basidiomycete yeast that produces carotenoids, mainly astaxanthin. Astaxanthin is an organic pigment of commercial interest due to its antioxidant and coloring properties. X. dendrorhous has a functional Sterol Regulatory Element-Binding Protein (SREBP) pathway, and the Sre1 protein is the SREBP homolog in this yeast. However, how Sre1 is promoting the biosynthesis of sterols and carotenoids in X. dendrorhous is unknown. In this work, comparative RNA-seq analysis between modified X. dendrorhous strains that have an active Sre1 protein and the wild-type was performed to identify Sre1-dependent genes. In addition, Sre1 direct target genes were identified through chromatin immunoprecipitation combined with lambda exonuclease digestion (ChIP-exo) assays. SRE motifs were detected in the promoter regions of several Sre1 direct target genes and were consistent with the SREs described in other yeast species. Sre1 directly regulates genes related to ergosterol biosynthesis as well as genes related to the mevalonate pathway, which synthesizes the building blocks of isoprenoids, including carotenoids. Two carotenogenic genes, crtE and crtR, were also identified as Sre1 direct target genes. Thus, carotenogenesis in X. dendrorhous is regulated by Sre1 through the regulation of the mevalonate pathway and the regulation of the crtE and crtR genes. As the crtR gene encodes a cytochrome P450 reductase, Sre1 regulates pathways that include cytochrome P450 enzymes, such as the biosynthesis of carotenoids and sterols. These results demonstrate that Sre1 is a sterol master regulator that is conserved in X. dendrorhous.

2020-09-29 | GSE152739 | GEO

Genome-wide analysis of a transcriptional network of the Sterol Regulatory Element Binding Protein, Sre1, in the human fungal pathogen Cryptococcus neoformans (RNA-seq)

Project description:Purpose: Understanding the regulatory role of Sre1 in Cryptococcus neoformans. Methods: The transcriptome profiles of the wild-type and sre1 mutant were generated by RNA-seq using Illumina Hiseq. The transcriptome profile of the sre1 mutant was compared with that of the wild-type strain. Results: The Sterol Regulatory Element Binding Protein, Sre1 is a major regulator for the genes involved in ergosterol biosynthetic pathway and iron acquisition in C. neoformans.

2020-09-01 | GSE135039 | GEO

Sterol-response pathways mediate alkaline survival in diverse fungi.

Project description:To determine how the fungal sterol homeostasis pathway contributes to the fungal pH response. To do so, we compared the transcriptomes of the sre1∆ mutant strain to that of the WT H99 strain in acidic (pH 4) and alkaline (pH 8) conditions.

2020-03-18 | GSE147109 | GEO

Genome-wide analysis of a transcriptional network of the Sterol Regulatory Element Binding Protein, Sre1, in the human fungal pathogen Cryptococcus neoformans (ChIP-seq)

Project description:Purpose: Defining the regulatory role of the transcription factor Sre1 in C. neoformans. Methods: Chromatin immunoprecipitation followed by high-throughput sequencing was performed using chromatin immunoprecipitated DNA from the strain Flag-Sre1 grown in low- and high-iron media under normoxia and hypoxia condition. Results: Sre1 directly bind to the promoter region of the genes involved in ergosterol biosynthetic pathway and iron acquisition in C. neoformans.

2020-09-01 | GSE135038 | GEO

Bhattacharya2014 - A mathematical model of the sterol regulatory element binding protein 2 cholesterol biosynthesis pathway

Project description:This is a deterministic nonlinear ordinary differential equation mathematical model of the sterol regulatory element binding protein 2 (SREBP-2) cholesterol genetic regulatory pathway in a hepatocyte.

2024-09-02 | BIOMD0000000890 | BioModels

Xanthophyllomyces dendrorhous whole genome and transcriptome analyses

Project description:Xanthophyllomyces dendrorhous

| PRJEB6925 | ENA

Genome-wide analysis of a transcriptional network of the Sterol Regulatory Element Binding Protein, Sre1, in the human fungal pathogen Cryptococcus neoformans

Project description:Genome-wide analysis of a transcriptional network of the Sterol Regulatory Element Binding Protein, Sre1, in the human fungal pathogen Cryptococcus neoformans

| PRJNA557208 | ENA

Zinc finger transcription factors displaced SREBP proteins as the major sterol regulators during Saccharomycotina evolution

Project description:All but a few eukaryotes die without oxygen and respond dynamically to changes in the level of oxygen available to them. One ancient oxygen-requiring biochemical pathway in eukaryotes is the pathway for the biosynthesis of sterols, leading to cholesterol in animals and ergosterol in fungi. Mutations in this pathway are a frequent cause of azole drug resistance in pathogenic fungi. The regulatory mechanism for the sterol pathway is also widely conserved between animals and fungi and is centred on a transcription activator, SREBP, that forms part of a sterol-sensing complex. However, in one group of yeasts M-bM-^@M-^S the Saccharomycotina, which includes the major pathogen Candida albicans M-bM-^@M-^S control of the sterol pathway has been taken over by an unrelated regulatory protein, Upc2. We show here by analysis of the yeast Yarrowia lipolytica that the evolutionary switch from SREBP to Upc2 was a two-step process in which Upc2 appeared in an ancestor of Saccharomycotina, and SREBP subsequently degenerated and lost its sterol-regulatory function while retaining an ancient role in filamentation. RNA was isolated from Y. lipolytica wildtype (JMY2900) in normoxia (21% oxygen, 4 biological replicates), wildtype (JMY2900) in hypoxia (1% oxygen, 5 biological replicates), upc2 deletion (SMY2) in hypoxia (1% oxygen, 3 biological replicates), and from sre1 (SMY5, SMY8) deletion in hypoxia (1% oxygen, 2 biological replicates). Gene expression was determined using strand-specific RNA-seq.

2013-11-19 | E-GEOD-47433 | biostudies-arrayexpress

Phaffia rhodozyma

Project description:Xanthophyllomyces dendrorhous overview

| PRJNA283429 | ENA

Sterol regulatory element-binding protein Sre1 regulates carotenogenesis in the red yeast <i>Xanthophyllomyces dendrorhous</i>.

Project description:Xanthophyllomyces dendrorhous is a basidiomycete yeast that produces carotenoids, mainly astaxanthin. Astaxanthin is an organic pigment of commercial interest due to its antioxidant and coloring properties. X. dendrorhous has a functional SREBP pathway, and the Sre1 protein is the SREBP homolog in this yeast. However, how sterol regulatory element (Sre)1 promotes the biosynthesis of sterols and carotenoids in X. dendrorhous is unknown. In this work, comparative RNA-sequencing analysis between modified X. dendrorhous strains that have an active Sre1 protein and the WT was performed to identify Sre1-dependent genes. In addition, Sre1 direct target genes were identified through ChIP combined with lambda exonuclease digestion (ChIP-exo) assays. SRE motifs were detected in the promoter regions of several Sre1 direct target genes and were consistent with the SREs described in other yeast species. Sre1 directly regulates genes related to ergosterol biosynthesis as well as genes related to the mevalonate (MVA) pathway, which synthesizes the building blocks of isoprenoids, including carotenoids. Two carotenogenic genes, crtE and crtR, were also identified as Sre1 direct target genes. Thus, carotenogenesis in X. dendrorhous is regulated by Sre1 through the regulation of the MVA pathway and the regulation of the crtE and crtR genes. As the crtR gene encodes a cytochrome P450 reductase, Sre1 regulates pathways that include cytochrome P450 enzymes, such as the biosynthesis of carotenoids and sterols. These results demonstrate that Sre1 is a sterol master regulator that is conserved in X. dendrorhous.

| S-EPMC7707178 | biostudies-literature

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