Whole genome bisulfide sequencing of Daphnia magna clones

This data is NERC-funded but not held by the EIDC. This data is archived in the European Nucleotide Archive.

The data consist of short-read sequencing data (Illumina HiSeq 4000 or Novaseq 6000) from several genetic clones and represents either whole genome sequencing data (from which single nucleotide polymorphisms can be derived) or whole genome methylation libraries (NEB Methyl-seq) from which cytosine methylation levels can be derived. Additional long read data (PacBio Sequel II) was used to create genome assemblies for two of the clones.

Identification info

Metadata Language: English (en)

Character set: utf8

Dataset Reference Date (): 2022-02-23

Identifier: https://catalogue.ceh.ac.uk/id/7ae42d16-4c45-45bc-95c0-67fd162f9b4b

Identifier: PRJEB50055

University of Liverpool - Stewart Plaistow

EIDC

European Nucleotide Archive

Keywords

Climate change
Heatwaves
Epigenetics
Ecology
Genomics

Limitations on Public Access: otherRestrictions

Other constraints: no limitations

Topic category

Biota

Distribution Information

Data format

Fastq ()

Resource Locator: Accession details for ENA

Resource Locator: Accession details for ENA

Quality Scope: dataset

Other: dataset

Report

Dataset Reference Date (): 2010-12-08

Statement: DNA was extracted using Qiagen columns, and quantity and integrity assessed using Qubit and Agilent fragment analyser. NEB Ultra-I and Methyl-seq libraries were prepared according to manufacturers instructions. Short read data was trimmed for Illumina adaptors and for poor quality 3' data. Pacbio HiFi libraries were prepared from high molecular weight DNA and sequenced on a PacBio Sequel II. Fastq files were uploaded to ENA.

Metadata

File identifier: 7ae42d16-4c45-45bc-95c0-67fd162f9b4b XML

Metadata Language: English (en)

Character set: ISO/IEC 8859-1 (also known as Latin 1)

Resource type: dataset

Hierarchy level name: dataset

Metadata Date: 2022-02-24T15:30:44

Metadata standard name: UK GEMINI

Metadata standard version: 2.3

Environmental Information Data Centre

Lancaster Environment Centre, Library Avenue, Bailrigg , Lancaster , LA1 4AP , UK

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