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Saccharomycotina

ABSTRACT: Sequencing of 196 yeast species from the subphylum Saccharomycotina Genome sequencing and assembly

PROVIDER: PRJNA429441 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR6475860_1.fastq.gz	Fastqsanger.gz
	SRR6475860_2.fastq.gz	Fastqsanger.gz
	SRR6475870_1.fastq.gz	Fastqsanger.gz
	SRR6475870_2.fastq.gz	Fastqsanger.gz

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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 – the Saccharomycotina, which includes the major pathogen Candida albicans – 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.

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Saccharomycotina sp. YJ-2025b strain:S2A6

Project description:Saccharomycotina sp. YJ-2025b strain:S2A6 Genome sequencing

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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.

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Saccharomycotina sp. YJ-2025a strain:BHBT-Y41

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Metschnikowia spp.

Project description:Metschnikowia yeast species genome sequencing and assembly

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Project description:Unusually among fungi, Saccharomyces cerevisiae is able to grow in environments containing almost no oxygen. A major feature of its response to hypoxia is a transition in expression from aerobic to hypoxic genes, which often code for duplicated isoforms of the same protein. In aerobic conditions, expression of the hypoxic gene set is repressed by the HMG domain protein Rox1. Here, we examined the evolution of ROX1 and related genes in the subphylum Saccharomycotina and find that a substantial reorganization of hypoxic gene regulation occurred during yeast evolution. S. cerevisiae lost ROX2, an ancient paralog of ROX1, which is almost universally present in other yeast species. ROX2 is orthologous to Candida albicans RFG1, a regulator of filamentous growth. Many yeasts, such as Candida glabrata, lack ROX1 and contain only ROX2. Others such as Naumovozyma castellii retain both genes. Although the ancestral function of ROX2 is uncertain, we find that it is not a regulator of hypoxic genes except in C. glabrata where it has taken over this function from the absent ROX1. We also find that N. castellii has a greatly attenuated transcriptional response to hypoxia as compared to other species, but that the ergosterol pathway which is normally induced by hypoxia can be induced by cobalt chloride stress in N. castellii.

2018-07-31 | GSE75235 | GEO

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