Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

MRNA-Seq of Daphnia magna exposed to acesulfame K and its photodegradation products against untreated control groups

ABSTRACT: The experiment investigates how the artificial sweetener acesulfame K and its photodegradation products affect the gene expression in the freshwater invertebrate Daphnia magna. Juvenile D. magna were subjected to an acute immobilization test (OECD Guideline 202) followed by RNA extraction and transcriptomics. The test was conducted with 10 µg/L and 100 mg/L as test concentrations. Pooled animals from each exposure group and corresponding controls were sampled after 48 hours for whole-animal RNA extraction, and poly(A)-enriched RNA was sequenced (paired-end, 150 bp) on an Illumina NovaSeq platform, followed by alignment to the Daphnia magna reference genome and differential expression analysis using a DESeq2-based workflow with independent hypothesis weighting, data-driven log2 fold-change thresholds, and multiple-testing correction to define robust sets of differentially expressed genes per substance and concentration. Overrepresentation analysis and Gene Set Enrichment of Gene Ontology terms was conducted using a common detected-gene background then mapped these gene-level changes to biological processes.

INSTRUMENT(S): see manuscript, NucleoSpin RNA/Protein kit lysis buffer (350 µL per tube; Macherey‑Nagel)., Dell PowerEdge R750; CPU: 2 × Intel Xeon Gold 6346 (32 Cores / 64 Threads); RAM: 188 GB, Illumina NovaSeq 6000, FastPrep‑24 homogenizer (MP Biomedicals)

ORGANISM(S): Daphnia magna

SUBMITTER: Alexandra Loll

PROVIDER: E-MTAB-17689 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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MRNA-Seq of Daphnia magna exposed to acesulfame K and its photodegradation products against untreated control groups

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