2024-10-25
ENA first public
ERC000011
ENA-CHECKLIST
SAMEA8236730
External Id
Centre for Genome Enabled Biology and Medicine University of Aberdeen
INSDC center name
2021-03-12T13:17:20Z
INSDC last update
public
INSDC status
ERS5923004
SRA accession
E-MTAB-10209:Hayle Exposed 5 Gill
Submitter Id
0+ fry
year
age
ArrayExpress
broker name
river trout
common name
Protocols: Brown trout were sampled from one clean catchment (River Fowey; metal-sensitive fish) and one metal-impacted catchment (River Hayle; metal-tolerant fish) and were transported to the Aquatic Resources Centre (ARC), University of Exeter. Fish were maintained in 39 L tanks for the depuration and exposure phases. The sub-lethal exposure comprised a metal mixture similar to that found in the River Hayle, at values estimated to be 10-15% of the lethal concentration 50 (LC50) for salmonids: Cd 0.4 μg/L; Cu 3 μg/L; Ni 10 μg/L and Zn 75 μg/L. Because water chemistry features are strong determinants of the bioavailability of metals, we created synthetic freshwater in the laboratory mimicking chemistry of the River Hayle, using salts of the following concentrations: NaCl 22.9 mg/L; KHCO3 12.8 mg/L; MgSO4 123.2 mg/L and Ca(NO3)2 100.4 mg.L. Liver and gill tissue were weighed, homogenised in Extraction Buffer, and RNA was extracted using Qiagen RNA-seq extraction kits following the manufacturers’ protocol, including an on-column DNAse digestion step. Libraries were prepared following the TruSeq Stranded mRNA library preparation protocol (Illumina).
description
juvenile stage
developmental stage
metal exposure
environmental stress
wild type genotype
genotype
23
individual
not applicable
isolate
Salmo trutta
organism
Salmo trutta
organism
gill
organism part
Salmo trutta
scientific_name
female
sex
Hayle population
strain
Hayle Exposed 5 Gill
title