16S rRNA Gene Sequencing of Filtered Groundwater from 8 Boreholes in Cambodia (NERC grant NE/P01304X/1)

This dataset represents the raw reads from sequencing the V4 hyper-variable region of the 16S rRNA gene on an Illumina MiSeq platform. The samples are filtered groundwater samples from 8 boreholes from a sandy-dominated site and a clay-dominated site in Cambodia that show arsenic concentrations above the WHO recommended limit, and were collected in May 2019.
non geographic dataset
: http://data.bgs.ac.uk/id/dataHolding/13607536
Geoscientific information
GEMET - INSPIRE themes: BGS Thesaurus of Geosciences:
KAMPUCHEA [id=548000]KANDAL [id=548780]
creation: 2019-09-26
2019-05-06 - 2019-05-12
University of Manchester
Prof Jonathan Lloyd
Manchester, M13 9PL
email: not available
Role: principal investigator
University of Manchester
Dr Naji Bassil
Williamson Building, Manchester, M13 9PL
email: not available
Role: originator
British Geological Survey
email: not available
Role: distributor
British Geological Survey
email: not available
Role: point of contact

Data Quality

Groundwater (500 mL) was collected in sterile plastic bottles (Corning), and filtered through a sterile 0.2 um nitrocellulose filter (Whatman). The filters were placed in DNA/RNA Shield Collection and Lysis Tubes (ZymoResearch) and homogenised using a Terralyzer (ZymoResearch) and transported to the UK. DNA was extracted from the samples, along with 3 negative controls, using the ZymoBIOMICS DNA Kit (ZymoResearch), according to the manufacturer's recommendations. A small volume (2 uL) from the extracted DNA was used to amplify the V4 hyper-variable region of the 16S rRNA gene by PCR, using a barcoded 515F and 806R primers, and the FastStart High Fidelity PCR System (Roche Diagnostics). The barcoded PCR products were purified and normalised to ~20 ng each, using the SequalPrep Normalization Kit (Fisher Scientific), pooled and sequenced on an Illumina MiSeq platform using V2 chemistry.
INSPIRE Implementing rules laying down technical arrangements for the interoperability and harmonisation of Geology
Commission Regulation (EU) No 1089/2010 of 23 November 2010 implementing Directive 2007/2/EC of the European Parliament and of the Council as regards interoperability of spatial data sets and services


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Available under the Open Government Licence subject to the following acknowledgement accompanying the reproduced NERC materials "Contains NERC materials ©NERC [year]"

Metadata about metadata

British Geological Survey
Environmental Science Centre,Keyworth, NOTTINGHAM, NG12 5GG, United Kingdom
tel: +44 115 936 3100
email: enquiries@bgs.ac.uk
Role: point of contact

Coupled Resource