Date (Publication)

2014-10-10

Identifier

CEH:EIDC: / 1412239567948

Identifier

https://catalogue.ceh.ac.uk/id/b6900166-ded6-4f7a-8734-484b6f77b2f1

Identifier

doi: / 10.5285/b6900166-ded6-4f7a-8734-484b6f77b2f1

Other citation details

Wachowiak, W., Trivedi, U., Telford, A., Cavers, S. (2014). Comparative transcriptomics of a complex of four European pine species. NERC Environmental Information Data Centre 10.5285/b6900166-ded6-4f7a-8734-484b6f77b2f1

Maintenance and update frequency

notPlanned Not planned

GEMET - INSPIRE themes, version 1.0

• Environmental Monitoring Facilities

Wikidata

• Pinus sylvestris
• Pinus mugo
• Pinus uliginosa
• Pinus uncinata

Keywords

• Evolutionary ecology
• Europe

Access constraints

otherRestrictions Other restrictions

Other constraints

no limitations

Use constraints

otherRestrictions Other restrictions

Other constraints

This resource is made available under the terms of the Open Government Licence

Use constraints

otherRestrictions Other restrictions

Other constraints

© UK Centre for Ecology & Hydrology

Use constraints

otherRestrictions Other restrictions

Other constraints

If you reuse this data, you should cite: Wachowiak, W., Trivedi, U., Telford, A., Cavers, S. (2014). Comparative transcriptomics of a complex of four European pine species. NERC Environmental Information Data Centre https://doi.org/10.5285/b6900166-ded6-4f7a-8734-484b6f77b2f1

Spatial representation type

textTable Text, table

Metadata language

EnglishEnglish

Character set

utf8 UTF8

Topic category

• Biota

Begin date

2006-01-01

End date

2008-12-31

Unique resource identifier

WGS 84

Distribution format

• Variant Call Format (VCF) ()

OnLine resource

Download the data

Download a copy of this data

OnLine resource

Supporting Information

Supporting information available to assist in re-use of this dataset

Hierarchy level

dataset Dataset

Other

dataset

Statement

1. Lineage of the reference transcriptome sequence of Scots pine samples from Glen Tanar (Scotland). Total Ribonucleic acid (RNA) was extracted from needles using Spectrum (TM) Plant Total RNA Kit (Sigma). A template complementary DNA (cDNA) library was prepared using ®TruSeq RNA Sample Preparation Kit (Illumina). The cDNA library was sequenced using Illumina HiSeq 2000 platform at Edinburgh Genomics, the University of Edinburgh, Scotland (Illumina, San Diego, California). 100 base, paired-end reads were generated and assembled de novo into contigs using Trinity (version r2012-06-08). The reference transcript sequence contains 40798 contigs in total. 2. The single nucleotide polymorphism (SNP) data file was prepared by aligning sixteen samples to the reference, a sample set that included P. sylvestris (four samples), P. mugo (five samples), P. uncinata (four samples) and P. uliginosa (three samples). Samples collected between 2006 and 2010.

File identifier

b6900166-ded6-4f7a-8734-484b6f77b2f1 XML

Metadata language

EnglishEnglish

Character set

ISO/IEC 8859-1 (also known as Latin 1) 8859 Part 1

Hierarchy level

dataset Dataset

Hierarchy level name

dataset

Date stamp

2025-11-13T16:21:04

Metadata standard name

UK GEMINI

Metadata standard version

2.3