2025-11-02
ENA first public
ERC000011
ENA-CHECKLIST
1. Institute of Marine Sciences, ICM-CSIC, Pg. Marítim de la Barceloneta 37-49, 08003, Barcelona, Spain 2. Facultat de Biologia, Universitat de Barcelona, Av. Diagonal 643, 08028, Barcelona, Spain.
INSDC center name
public
INSDC status
ERS24604442
SRA accession
E-MTAB-15157:LOP3_T1
Submitter Id
ArrayExpress
broker name
not collected
collection date
Protocols: Six adult colonies were randomly collected from two populations at different depths with contrasting thermal regimes along the Catalonian coast (Spain; Figure 1a). The first population was sampled (N=3 colonies) at 15 m depth at Cap Castell (3°13'10.233\" N, 42°4'56.276\" E), while the second population was sampled (N=3 colonies) at 48 m depth at Pota del Llop (3°13'33.787\" N, 42°2'52.736\" E). The six experimental replicates from each individual were divided into two treatments (3 replicates each): a control (18°C) and a stress (25°C), following a common garden experimental set-up for ten days. For the stress treatment, the temperature was increased stepwise from 18°C to 25°C over three days and maintained at 25°C until the end of the experiment. Fragments of C. rubrum were sampled threefold for RNA sequencing during the initial day of the experiment (T0), day 5th (T5), and day 10th (T10) in the two treatments (control and stress) and stored in RNAlater at -20°C. RNA extractions were conducted using the RNAeasy Mini Kit protocol (Qiagen) with a modification of the lysis step that involved smashing the tissue with a sterile cane in TRIzol™ (Thermo-Scientific). The resulting RNA was quantified using the Qubit® RNA BR Assay Kit (Thermo Fisher Scientific), while quality was assessed using the RNA Integrity Number (RIN), obtained on a Fragment Analyzer system, using the DNF-471 RNA kit (Agilent). Samples with a RIN > 6 were retained. mRNA-focused sequencing libraries were prepared using the KAPA Stranded mRNA-Seq Kit for Illumina Platforms (Roche), following manufacturer’s recommendations, starting with 500 ng of total RNA. Illumina-compatible adapters with unique dual indexes and unique molecular identifiers (Integrated DNA Technologies) were ligated to the RNA fragments. The ligation products were enriched via 15 cycles of PCR. The final libraries were validated using the DNA 7500 Assay on an Agilent Bioanalyzer 2100 system.
description
Corallium rubrum adult colonies
developmental stage
stress 25°C
environmental stress
Pota del LLop
geographic location
not collected
geographic location (country and/or sea)
colony 6
individual
not applicable
isolate
mixed sample
organism
mixed sample
organism
skin epidermis
organism part
mesophotic
population
mixed sample
scientific_name
LOP3_T1
title