Common juniper single nucleotide polymorphism (SNP) and microsatellite (SSR) genotype data from individuals sampled from 18 natural UK populations in 2019
This dataset contains genotype data of Single Nucleotide Polymorphisms (SNPs) and Simple Sequence Repeats (SSRs) from 18 populations of UK juniper, including the two subspecies hemisphaerica and nana. Plant material was collected in 2019. These data were gathered as part of a project on juniper conservation genetics that also includes an analysis of the quantitative genetics of UK junipers. The main goal of the project is to evaluate the standing genetic variation of populations using both quantitative and population genetic analyses. Full details about this dataset can be found at
https://doi.org/10.5285/27e7df36-d689-4803-93b4-c15935693b83
Simple
- Date (Publication)
- 2024-11-11
- Date (Creation)
- 2024-10-17
- Identifier
- doi: / 10.5285/27e7df36-d689-4803-93b4-c15935693b83
- Other citation details
- Baker, J., A’Hara, S., Perry, A., Cottrell, J., Ennos, R., Green, S., Cavers, S. (2024). Common juniper single nucleotide polymorphism (SNP) and microsatellite (SSR) genotype data from individuals sampled from 18 natural UK populations in 2019. NERC EDS Environmental Information Data Centre 10.5285/27e7df36-d689-4803-93b4-c15935693b83
Point of contact
UK Centre for Ecology & Hydrology
-
Baker, J.
https://orcid.org/0009-0003-0514-4644
- GEMET - INSPIRE themes, version 1.0
-
- Habitats and Biotopes
- Access constraints
- otherRestrictions Other restrictions
- Other constraints
- no limitations
- Use constraints
- otherRestrictions Other restrictions
- Use constraints
- otherRestrictions Other restrictions
- Other constraints
- If you reuse this data, you should cite: Baker, J., A’Hara, S., Perry, A., Cottrell, J., Ennos, R., Green, S., Cavers, S. (2024). Common juniper single nucleotide polymorphism (SNP) and microsatellite (SSR) genotype data from individuals sampled from 18 natural UK populations in 2019. NERC EDS Environmental Information Data Centre https://doi.org/10.5285/27e7df36-d689-4803-93b4-c15935693b83
- Spatial representation type
- textTable Text, table
- Distance
- 10 urn:ogc:def:uom:EPSG::9001
- Metadata language
- EnglishEnglish
- Character set
- utf8 UTF8
- Topic category
-
- Biota
- Begin date
- 2019-01-01
- End date
- 2019-12-31
N
S
E
W
- Unique resource identifier
- OSGB 1936 / British National Grid
- Distribution format
-
-
Comma-separated values (CSV)
()
-
Comma-separated values (CSV)
()
- 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
Conformance result
- Date (Publication)
- 2010-12-08
- Statement
- For the SNP genotyping plant material was collected in 2019. Needles were freeze-dried and finely chopped using a razor blade, and then using a Retsch MM 300 mixer mill at a frequency of 30/s for a total of 2 minutes with metal beads in each Eppendorff tube to grind samples. Razor blades, scissors and lab surfaces were cleaned with 2% ethanol between processing samples. DNA was extracted for each sample using a Qiagen DNeasy Plant Pro kit following the manufacturer’s instructions. SNPs were identified and sequenced for this study by the Plant Genomic Resources Centre (CNRGV, INRAE, France; https://cnrgv.toulouse.inrae.fr/ ). A sub-sample of these were used to develop two Sequenom SNP chips which provided data on 74 SNP loci in the samples analysed in this study For the SSR genotyping a new set of microsatellite markers was developed for this study. Juniper DNA samples were sent to Microsynth Ecogenics (https://www.ecogenics.ch/home.html) to identify nuclear microsatellite (SSR) polymorphisms. Of the 285 identified microsatellites 48 were tested using multiplex PCR and gel electrophoresis which returned 6 polymorphic markers which were consistently amplified by PCR. PCR products were run on a Licor 4300 DNA sequencer and the allele sizes scored by eye using a size marker as reference.
- File identifier
- 27e7df36-d689-4803-93b4-c15935693b83 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
- 2025-03-23T12:56:16
- Metadata standard name
- UK GEMINI
- Metadata standard version
- 2.3
Point of contact
NERC EDS Environmental Information Data Centre
Lancaster Environment Centre, Library Avenue, Bailrigg
,
Lancaster
,
LA1 4AP
,
UK
https://eidc.ac.uk/
Overviews
Spatial extent
N
S
E
W
Provided by
Associated resources
Not available
NERC Data Catalogue Service