Date (Publication)

2024-11-11

Date (Creation)

2024-10-17

Identifier

https://catalogue.ceh.ac.uk/id/27e7df36-d689-4803-93b4-c15935693b83

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

GEMET - INSPIRE themes, version 1.0

• Habitats and Biotopes

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Other constraints

no limitations

Use constraints

otherRestrictions Other restrictions

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

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otherRestrictions Other restrictions

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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

Unique resource identifier

OSGB 1936 / British National Grid

Distribution format

• Comma-separated values (CSV) ()

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Supporting information

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

Hierarchy level

dataset Dataset

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dataset

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