E.huxleyi sulfate deficiency transcriptome
Ontology highlight
ABSTRACT:
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR753046_1.fastq.gz | Fastqsanger.gz | |||
| ERR753046_2.fastq.gz | Fastqsanger.gz | |||
| ERR753047_1.fastq.gz | Fastqsanger.gz | |||
| ERR753047_2.fastq.gz | Fastqsanger.gz | |||
| ERR753048_1.fastq.gz | Fastqsanger.gz |
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Project description:An essential interaction between sunlight and eukaryotes involves the production of vitamin D through exposure to ultraviolet (UV) radiation. While extensively studied in vertebrates, the role of vitamin D in non-animal eukaryotes like microalgae remains unclear. To investigate the potential involvement of vitamin D in the response of microalgae to UV, we focus on Emiliania huxleyi, a microalga found in shallow ocean depths that are exposed to UV radiation. Our results show that E. huxleyi algae produce vitamin D2 and D3 in response to UV irradiation. We further demonstrate that E. huxleyi algae respond to external administration of vitamin D at the transcriptional level, regulating the expression of protective mechanisms that are also regulated in response to UV. Our data reveal that addition of vitamin D enhances the algal photosynthetic performance while reducing harmful reactive oxygen species buildup. This study contributes to understanding the function of vitamin D in E. huxleyi and sheds light on its role in non-animal eukaryotes, as well as its potential importance in marine ecosystems.
2023-09-25 | GSE243677 | GEO
Project description:The abundant and widespread coccolithophore Emiliania huxleyi plays an important role in mediating CO2 exchange between the ocean and the atmosphere through its impact on marine photosynthesis and calcification. Here, we use long serial analysis of gene expression (SAGE) to identify E. huxleyi genes responsive to nitrogen (N) or phosphorus (P) starvation. Long SAGE is an elegant approach for examining quantitative and comprehensive gene expression patterns without a priori knowledge of gene sequences via the detection of 21-bp nucleotide sequence tags. E. huxleyi appears to have a robust transcriptional-level response to macronutrient deficiency, with 42 tags uniquely present or up-regulated twofold or greater in the N-starved library and 128 tags uniquely present or up-regulated twofold or greater in the P-starved library. The expression patterns of several tags were validated with reverse transcriptase PCR. Roughly 48% of these differentially expressed tags could be mapped to publicly available genomic or expressed sequence tag (EST) sequence data. For example, in the P-starved library a number of the tags mapped to genes with a role in P scavenging, including a putative phosphate-repressible permease and a putative polyphosphate synthetase. In short, the long SAGE analyses have (i) identified many new differentially regulated gene sequences, (ii) assigned regulation data to EST sequences with no database homology and unknown function, and (iii) highlighted previously uncharacterized aspects of E. huxleyi N and P physiology. To this end, our long SAGE libraries provide a new public resource for gene discovery and transcriptional analysis in this biogeochemically important marine organism. Keywords: Emiliania, gene expression, nutrients, SAGE, phosphate, nitrogen
2007-07-07 | GSE8376 | GEO
Project description:We performed single-cell transcriptome analysis (using MARS-seq) for the worldwide-distributed microalga Emiliania huxleyi during infection by its specific coccolithovirus. Our results provide insights into the expression programs and infection strategies of the large virus, and highlight the potential of single-cell RNA-sequencing for microbial eukaryotes in the lab and in the field.
2020-05-22 | GSE135429 | GEO
Project description:The abundant and widespread coccolithophore Emiliania huxleyi plays an important role in mediating CO2 exchange between the ocean and the atmosphere through its impact on marine photosynthesis and calcification. Here, we use long serial analysis of gene expression (SAGE) to identify E. huxleyi genes responsive to nitrogen (N) or phosphorus (P) starvation. Long SAGE is an elegant approach for examining quantitative and comprehensive gene expression patterns without a priori knowledge of gene sequences via the detection of 21-bp nucleotide sequence tags. E. huxleyi appears to have a robust transcriptional-level response to macronutrient deficiency, with 42 tags uniquely present or up-regulated twofold or greater in the N-starved library and 128 tags uniquely present or up-regulated twofold or greater in the P-starved library. The expression patterns of several tags were validated with reverse transcriptase PCR. Roughly 48% of these differentially expressed tags could be mapped to publicly available genomic or expressed sequence tag (EST) sequence data. For example, in the P-starved library a number of the tags mapped to genes with a role in P scavenging, including a putative phosphate-repressible permease and a putative polyphosphate synthetase. In short, the long SAGE analyses have (i) identified many new differentially regulated gene sequences, (ii) assigned regulation data to EST sequences with no database homology and unknown function, and (iii) highlighted previously uncharacterized aspects of E. huxleyi N and P physiology. To this end, our long SAGE libraries provide a new public resource for gene discovery and transcriptional analysis in this biogeochemically important marine organism. Keywords: Emiliania, gene expression, nutrients, SAGE, phosphate, nitrogen Emiliania huxleyi CCMP 1516 was obtained from the Provasoli-Guillard Center for the Culture of Marine Phytoplankton, Bigelow Laboratories. Cultures were grown at 18°C on a 14 h:10 h light:dark cycle (140 µmol quanta m-2 s-1). Nitrogen and phosphate replete (Replete: 35 µM NO3- and 1.5 µM PO43-), low nitrogen (-N: 10 µM NO3-) and low phosphate (-P: 0 µM PO43-) cells were grown in f/50 medium without Si. Locally collected seawater was filtered (pore size, 0.2 µm) and autoclaved. Filter-sterilized inorganic nutrients, trace metals and vitamins (thiamin, biotin and B12) were added after autoclaving. The cells were grown in 8 L batch cultures. The growth of cultures was monitored daily by cell number counted on a hemacytometer, and by relative fluorescence using a Turner Designs AU Fluorometer. Replete cells were harvested in mid-log phase while –N and –P cells were harvested at the onset of stationary phase for SAGE analysis.
2007-07-07 | E-GEOD-8376 | biostudies-arrayexpress
Project description:In order to determine how the bacterial quorum-sensing precursor molecule 2-heptyl-4-quinolone (HHQ) induces cellular senescence in populations of some eukaryotic marine phytoplankton, we examined the transcriptional response of Emiliania huxleyi CCMP2090 to HHQ exposure. Quadruplicate batch cultures were treated with HHQ at three concentrations (1, 10 and 100 ng/ml) and compared to a vehicle control after 24 and 72 hours of exposure. The majority of gene expression changes occurred after 24 hr of exposure in the 10 and 100 ng/ml treatments and many of these changes persisted for 72 hr in the 100 ng/ml treatment. RNAseq analysis revealed that HHQ exposure impacts many aspects of Emiliania huxleyi metabolism including: chlorophyll biosynthesis and light harvesting, vitamin biosynthesis, vesicle trafficking, and general signals related to energy production. Changes in genes involved in intraphase cell cycle check points implicate DNA damage as the primary driver of HHQ-induced cellular senescence.
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Project description:Transcription profiling of haploid and diploid Emiliania huxleyi growing into N limitation
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Project description:Investigation of the genetic diversity of Emiliania huxleyi, genomic DNA from 15 different strains were compared with the genomic DNA of the sequenced E. huxleyi strain CCMP1516. Gephyrocapsa oceanica and Isochrysis galbana as phylogenetic closely related taxa were used as out-groups.
2010-03-01 | E-MEXP-2388 | biostudies-arrayexpress
Project description:Emiliania huxleyi BOF92 and Emiliania huxleyi virus99B1 Epigenomics
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