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Comparative genomic and transcriptomic analyses of the Fuzhuan brick tea-fermentation fungus Aspergillus cristatus

ABSTRACT: The purpose of this study is to find the differently expressed genes in Aspergillus cristatus at different osmotic pressure.

ORGANISM(S): Aspergillus cristatus

PROVIDER: GSE65662 | GEO | 2016/09/01

SECONDARY ACCESSION(S): PRJNA274642

REPOSITORIES: GEO

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Comparative genomic and transcriptomic analyses of the Fuzhuan brick tea-fermentation fungus Aspergillus cristatus

Project description:The purpose of this study is to find the differently expressed genes in Aspergillus cristatus at different osmotic pressure. Examination of 3 transcriptomes in different osmotic pressure to find their different gene expression style.

2016-09-01 | E-GEOD-65662 | biostudies-arrayexpress

Comparative genomic and transcriptomic analyses of the Fuzhuan brick tea-fermentation fungus Aspergillus cristatus.

Project description:Aspergillus cristatus is the dominant fungus involved in the fermentation of Chinese Fuzhuan brick tea. Aspergillus cristatus is a homothallic fungus that undergoes a sexual stage without asexual conidiation when cultured in hypotonic medium. The asexual stage is induced by a high salt concentration, which completely inhibits sexual development. The taxon is therefore appropriate for investigating the mechanisms of asexual and sexual reproduction in fungi. In this study, de novo genome sequencing and analysis of transcriptomes during culture under high- and low-osmolarity conditions were performed. These analyses facilitated investigation of the evolution of mating-type genes, which determine the mode of sexual reproduction, in A. cristatus, the response of the high-osmolarity glycerol (HOG) pathway to osmotic stimulation, and the detection of mycotoxins and evaluation of the relationship with the location of the encoding genes.The A. cristatus genome comprised 27.9 Mb and included 68 scaffolds, from which 10,136 protein-coding gene models were predicted. A phylogenetic analysis suggested a considerable phylogenetic distance between A. cristatus and A. nidulans. Comparison of the mating-type gene loci among Aspergillus species indicated that the mode in A. cristatus differs from those in other Aspergillus species. The components of the HOG pathway were conserved in the genome of A. cristatus. Differential gene expression analysis in A. cristatus using RNA-Seq demonstrated that the expression of most genes in the HOG pathway was unaffected by osmotic pressure. No gene clusters associated with the production of carcinogens were detected.A model of the mating-type locus in A. cristatus is reported for the first time. Aspergillus cristatus has evolved various mechanisms to cope with high osmotic stress. As a fungus associated with Fuzhuan tea, it is considered to be safe under low- and high-osmolarity conditions.

| S-EPMC4895823 | biostudies-literature

Identification of osmotic stress-responsive genes dependent on HogA and AtfA in Aspergillus nidulans

Project description:Microarray analysis was used to identify the osmotic stress-responsive genes dependent on HogA and AtfA in the filamentous fungus Aspergillus nidulans. In order to identify such genes, we conducted the several types of experiment. One was a comparison between wild type with and without osmotic shock (Exp.6). Others were comparison between wild type with osmotic shock and each mutant (hogA, Exp.7; atfA, Exp.8) with osmotic shock. Compared the result of Exp.6 with other experiments, we could identify the genes whose expression was induced or repressed in response to osmotic stress in a manner dependent on HogA and AtfA. KEY WORD; Aspergillus nidulans, osmotic stress, HogA, AtfA

2009-06-16 | GSE16566 | GEO

Structure characteristics of <i>Aspergillus egyptiacus</i> mitochondrial genome, an important fungus during the fermentation of dark tea.

Project description:Aspergillus egyptiacus is an important fungus during the fermentation process of dark tea. However, there is little study on genetic information about A. egyptiacus. In this study, A. egyptiacus was is isolated from dark tea and first sequenced. The annotation and analysis also have been done for the mitochondrial genome. The length of A. egyptiacus mitochondrial genome is 66,564 bp and include 41 genes. Similar to most fungus, 15 protein-coding genes (PCGs), 24 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes, and one non-coding control region (D-loop) were identified in the strand of mitochondrial genome. The GC content is 26.55% and the reconstructed phylogenetic supported the placement of A. egyptiacus in Eurotiomycetes clade. The mitochondrial genome information also may supply references for utilization of A. egyptiacus.

| S-EPMC7800275 | biostudies-literature

Comparative genomic hybridization of Aspergillus fumigatus Af71, Aspergillus fumigatus Af294, Aspergillus clavatus, Neosartorya fenneliae and Neosartorya fischeri with Aspergillus fumigatus Af293

Project description:Genomic DNA from five strains, Aspergillus fumigatus Af71, Aspergillus fumigatus Af294, Aspergillus clavatus, Neosartorya fenneliae, and Neosartorya fischeri, were co-hybridized with that of Aspergillus fumigatus Af293 and compared.

2005-05-15 | E-MEXP-333 | biostudies-arrayexpress

Transcriptome study on Aspergillus niger during citrate fermentation.

Project description:We report the genes regulated during citrate fermentation. Examination of 5 different time points during fermentation in Aspergillus niger H915-1.

2016-06-30 | E-GEOD-74544 | biostudies-arrayexpress

Comparative proteomic analysis of Bacillus subtilis and Aspergillus niger in Black Soldier Fly co-fermentation

Project description:the original data of black soldier fly larva mass fermentation with Bacillus subtilis and Aspergillus niger, analyzed by Chinese biotechnology company, published by Chinese Academy of Tropical Agricultural Sciences Environment and Plant Protection Institute for research only.

2023-10-25 | PXD037713 | JPOST Repository

Phosphoproteome of filamentous fungus Aspergillus nidulans

Project description:We describe thephosphoproteome of filamentous fungus Aspergillus nidulans. Phosphopeptides were enriched using affinity enrichment using titanium dioxide and separated using a convenient ultralong gradient separations on c18 reverse phase columns. Over 1637 phosphopeptides corresponding to 647 phosphoproteins were identified using using a “high-high” strategy using HCD on the novel Q-exactive platform

2014-11-18 | PXD000715 | Pride

Identification of the calcium-responsive genes dependent on CrzA in the filamentous fungus Aspergillus nidulans

Project description:Microarray analysis was used to identify the calcium-responsive genes dependent on CrzA in the filamentous fungus Aspergillus nidulans. In order to identify such genes, we conducted the two types of experiment. One was a comparison between wild type with calcium treatment and wild type without calcium treatment. Another was a comparison between wild type with calcium treatment and crzA mutant with calcium treatment. From a comparison between the results of these experiments, we could identify the genes whose expression was induced or repressed in response to calcium in a manner dependent on CrzA. KEY WORD; Aspergillus nidulans, calcium response, crzA

2008-10-03 | GSE12953 | GEO

Aspergillus nidulans gfdB, encoding the hyperosmotic stress protein glycerol-3-phosphate dehydrogenase, disturbs osmoadaptation in Aspergillus wentii

Project description:The genome of the osmophilic Aspergillus wentii, unlike that of the osmotolerant Aspergillus nidulans, contains only the gfdA but not the gfdB glycerol 3-phosphate dehydrogenase gene. Here, we studied transcriptomic changes of A. nidulans (reference strain and DgfdB gene deletion mutant) and A. wentii (reference strain and An-gfdB expressing mutant) elicited by high osmolarity. A. nidulans showed canonic hyperosmotic stress response characterized by upregulation of trehalose and glycerol metabolism genes (including gfdB) as well as genes of the high-osmolarity glycerol (HOG) map kinase pathway. Deletion of gfdB caused only negligible alterations in the transcriptome suggesting that the glycerol metabolism was flexible enough to compensate for the missing GfdB activity in this species. A. wentii responded differently to increased osmolarity than A. nidulans: E.g.; bulk upregulation of glycerol and trehalose metabolism genes as well as HOG pathway genes were not detected. Expression of An-gfdB in A. wentii did not abolish osmophilia, but it reduced growth and caused much bigger alterations in the transcriptome than the missing gfdB gene did in A. nidulans. Flexible glycerol metabolism and hence two differently regulated gfd genes may be more beneficial for osmotolerant (living under changing osmolarity) than for osmophilic (living under constantly high osmolarity) species.

2024-02-28 | GSE255841 | GEO

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