{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Lars Grønvold"],"instrument_platform":["Illumina HiSeq 2500"],"study_type":["RNA-seq of coding RNA"],"organism":["Mucor circinelloides"],"species":["Mucor circinelloides"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15566"],"description":["The filamentous fungus Mucor circinelloides VI04473 (Cir2 in sample name) was grown to investigate the transcriptomic response to calcium availability under reference phosphate conditions. Cultures were grown in nitrogen-limited medium containing inorganic phosphate at the reference concentration P1 (7 g/L KH₂PO₄ and 2 g/L Na₂HPO₄), with two calcium treatments: calcium present at 0.1 g/L CaCl₂·2H₂O (Ca1) and calcium missing (Ca0). Biomass was harvested after 5 days of cultivation (4 biological replicates per treatment), RNA was extracted, and transcriptomes were sequenced for differential expression analysis between the calcium treatments."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Library preparation consisted of rRNA removal (polyA capture), followed by enrichment of single-stranded messenger RNAs (mRNAs) and reverse transcription to obtain complementary DNA (cDNA).","Sample Collection - Fungal mass was cultivated and collected according to Dzurendova et al. (2021), section 2.2: Dzurendova, S., Zimmermann, B., Kohler, A., Reitzel, K., Nielsen, U. G., Dupuy--Galet, B. X., . . . Shapaval, V. (2021). Calcium Affects Polyphosphate and Lipid Accumulation in Mucoromycota Fungi. Journal of Fungi, 7(4), 300. https://doi.org/10.3390/jof7040300","Sequencing - Illumina PE150 technology (paired-end 150 basepair sequencing strategy, short read), was utilized for sequencing the cDNA.","Nucleic Acid Extraction - RNA extraction was carried out using the RNeasy Plus Mini kit (Qiagen, Venlo, The Netherlands)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Lars Grønvold","Helle Tessand Baalsrud"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of Mucor circinelloides strain VI04473 grown with and without calcium","description":"The filamentous fungus Mucor circinelloides VI04473 (Cir2 in sample name) was grown to investigate the transcriptomic response to calcium availability under reference phosphate conditions. Cultures were grown in nitrogen-limited medium containing inorganic phosphate at the reference concentration P1 (7 g/L KH₂PO₄ and 2 g/L Na₂HPO₄), with two calcium treatments: calcium present at 0.1 g/L CaCl₂·2H₂O (Ca1) and calcium missing (Ca0). Biomass was harvested after 5 days of cultivation (4 biological replicates per treatment), RNA was extracted, and transcriptomes were sequenced for differential expression analysis between the calcium treatments.","dates":{"release":"2025-08-26T00:00:00Z","modification":"2025-09-12T08:25:33.444Z","creation":"2025-09-08T23:50:23.41Z"},"accession":"E-MTAB-15566","cross_references":{"ENA":["ERP179789"],"Biostudies":["E-MTAB-13309"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003738","EFO_0004184"]}}