characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2018-03-29T17:03:52Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2017-09-20T16:11:15Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA104312519
characteristics.characteristic: External Id
characteristics.text: Stazione Zoologica Anton Dohrn
characteristics.characteristic: INSDC center name
characteristics.text: 2018-03-29T17:03:52Z
characteristics.characteristic: INSDC first public
characteristics.text: 2017-09-20T16:11:15Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS1937497
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-6076:Sample 9
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: Protocols: Females of Calanus finmarchicus were picked from plankton samples collected near Tjärnö Island in the North Sea (Sweden; 58°N51’ - 11°E7’). Skeletonema marinoi strain V32 was cultivated in F2 medium (Guillard, 1975). Photoperiod and irradiance were 12L:12D (16L:8D) and ~80 μmol photos·m-2s-1. At time 0, 10 copepods were added to each of ten 2-litre bottles, leaving another 10 bottles as un-grazed controls. Three grazed and ungrazed bottles were harvested at two time points, after 65 and 89 hours from introducing animals into the bottles (T1 and T2, respectively). 1 l was filtered to isolate RNA. Copepods were excluded from these samples by prefiltering through a sieve (64 μm mesh size). For RNA-seq, three controls and three treated samples were collected. S. marinoi cells for RNA extraction were filtered onto RAWP Millipore cellulose membrane filters (Mf-3Millipore RAWP04700, 1.2 µm porosity) and washed with MilliQ water. Filters were put into 2ml Eppendorf tubes filled with Roche TriPure® isolation reagent (Sigma - Aldrich s.r.l.), snap frozen in liquid nitrogen, and stored at -80°C until use. TriPure®-soaked filters were thawed at room temperature and RNA extraction was conducted as described in Basu et al. (Basu et al., 2017). RNA samples were DNAse-treated (TURBO DNAfree™Kit, Ambion by Life Technologies, cat. n. AM1907) to get rid of genomic DNA contamination and purified with Qiagen RNeasy Mini Kit (Qiagen, Hilden, Germany). Samples were stored at -80°C until use. RNA samples were analysed at an Agilent 2100 Bioanalyzer platform (Agilent Technologies5301 Stevens Creek Blvd. Santa Clara, California 95051 USA) to assess integrity, at a NanoDrop2000 Spectrophotometer (Thermo Fisher Scientific Inc., Waltham, Massachusetts, USA) to assess purity, and quantified at a Qubit fluorometer (Thermo Fisher Scientific Inc.). 500 ng RNA from three controls and three copepod-treated samples per time point were used to produce libraries with the Illumina TruSeq protocol.
characteristics.characteristic: description
characteristics.text: wild type genotype
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0005168
characteristics.characteristic: genotype
characteristics.text: Skeletonema marinoi
characteristics.characteristic: organism
characteristics.text: Skeletonema marinoi
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_267567
characteristics.characteristic: organism
characteristics.text: Skeletonema marinoi
characteristics.characteristic: scientific_name
characteristics.text: V32
characteristics.characteristic: strain
characteristics.text: Sample 9
characteristics.characteristic: title