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ABSTRACT: mRNA sequencing of the green microalga Raphidocelis subcapitata

PROVIDER: PRJNA908764 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22527185_1.fastq.gz	Fastqsanger.gz
	SRR22527185_2.fastq.gz	Fastqsanger.gz
	SRR22527186_1.fastq.gz	Fastqsanger.gz
	SRR22527186_2.fastq.gz	Fastqsanger.gz
	SRR22527187_1.fastq.gz	Fastqsanger.gz

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Raphidocelis subcapitata

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Transcriptomic analysis and cellular responses to nanoscale zero-valent iron in green microalga Raphidocelis subcapitata

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Transcriptomic analysis and cellular responses to nanoscale zero-valent iron in green microalga Raphidocelis subcapitata

Project description:Nanoscale zero valent iron (nZVI) is used to remediate aquifers polluted by organochlorines or heavy metals and was also suggested to eliminate harmful algal blooms. nZVI can therefore affect microorganisms in the vicinity of the application area, including microalgae. However, studies on early transcriptomic effects of microalgae after exposure to nZVI are rare. Here, we described the early physiological and transcriptomic response of the freshwater ecological indicator green microalga, Raphidocelis subcapitata ATCC 22662, to 100 mg/L of reactive nZVI and non-reactive nano-magnetite (nFe3O4). The combined effect of shading and the release of total iron from nZVI posed a short-term inhibition effect leading to 15 % of deformed cells and cytosol leakage, while cells viability increased after 24 h. nZVI triggered a more pronounced transcriptomic response with (7380 differentially expressed genes [DEGs]) compared to nFe3O4 (4601 DEGs) after 1 h. nZVI, but not nFe3O4 increased the expression of genes function in DNA repair and replication, while deactivated carbohydrate-energy metabolisms, mitochondria signaling, and transmembrane ion transport. This study highlights an early fate assessment of algal cells under nZVI and nFe3O4 exposure using next-generation risk assessment methods and will serve as valuable information for safe and sustainable application of nZVI in water remediation.

2023-06-06 | GSE234088 | GEO

Raphidocelis subcapitata strain:NIES-35

Project description:Genome sequencing of Raphidocelis subcapitata NIES-35

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Raphidocelis subcapitata strain:ATCC22662

Project description:Analysis of single nucleotide polymorphisms (SNPs) in Raphidocelis subcapitata

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Chlamy_ATPase_2023

Project description:Whole genome sequencing of novel ATP synthase mutants in the green microalga Chlamydomonas reinhardtii

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Transcriptomic changes induced by salinity stress in the green microalga Chromochloris zofingiensis

Project description:Transcriptomic changes induced by salinity stress in the green microalga Chromochloris zofingiensis

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Identification of the molecular basis of anti-cancer effect of Huaier.

Project description:Intervention type:DRUG. Intervention1:Huaier, Dose form:GRANULES, Route of administration:ORAL, intended dose regimen:20 to 60/day by either bulk or split for 3 months to extended term if necessary. Control intervention1:None. Primary outcome(s): For mRNA libraries, focus on mRNA studies. Data analysis includes sequencing data processing and basic sequencing data quality control, prediction of new transcripts, differential expression analysis of genes. Gene Ontology (GO) and the KEGG pathway database are used for annotation and enrichment analysis of up-regulated genes and down-regulated genes. For small RNA libraries, data analysis includes sequencing data process and sequencing data process QC, small RNA distribution across the genome, rRNA, tRNA, alignment with snRNA and snoRNA, construction of known miRNA expression pattern, prediction New miRNA and Study of their secondary structure Based on the expression pattern of miRNA, we perform not only GO / KEGG annotation and enrichment, but also different expression analysis.. Timepoint:RNA sequencing of 240 blood samples of 80 cases and its analysis, scheduled from June 30, 2022..

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Transcriptome response of Chlamydomonas reinhardtii exposed to methylmercury (MeHg)

Project description:This study aims at investigating the effects of methylmercury on a microalga using a transcriptomic approach. Algal cells were exposed two hours in a simplified artificial medium spiked with 0.05 or 0.5 nM MeHg. Total RNA was extracted using TRI Reagent®. Libraries were prepared with the Illumina TruSeq Stranded mRNA kit and sequenced on an Illumina HiSeq 2500 System.

2016-06-20 | GSE70066 | GEO

Transcriptome Analysis of Differential Genes Related to Anthocyanin Synthesis in Red and Green Walnut

Project description:We report the application of high-throughput analysis of genes related to anthocyanin synthesis in red and green walnuts based on transcriptome sequencing technology. By obtaining a sequence of more than 3 billion bases from mRNA, we found genes that are differentially expressed with anthocyanin synthesis in 4 leaf growth stages and 3 peel growth stages of red and green walnuts.

2021-01-05 | GSE162007 | GEO

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