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.
INSPIRE
Identification
- File identifier
- 95087060-b453-5bf3-e054-002128a47908 XML
- Resource type
- nonGeographicDataset
Online resource
Resource identifier
- Metadata Language
- English (en)
Encoding
- Format
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.fastq files
Projection
Classification of data and services
- Topic category
-
- Geoscientific information
Classification of data and services
Coupled resource
Coupled resource
Classification of data and services
Coupled resource
Coupled resource
Keywords
- GEMET - INSPIRE themes, version 1.0
- BGS Thesaurus of Geosciences
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Groundwater
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NGDC Deposited Data
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Arsenic
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Temporal reference
Temporal extent
Temporal extent
- Dataset Reference Date ()
- 2019-09-26
Quality and validity
- Lineage
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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.
Conformity
Conformity
Conformity
Conformity
Conformity
Conformity
- Explanation
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See the referenced specification
Restrictions on access and use
- Access constraints
- licenceOGL
- Access constraints
- Available under the Open Government Licence subject to the following acknowledgement accompanying the reproduced NERC materials "Contains NERC materials ©NERC [year]"
- Access constraints
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The copyright of materials derived from the British Geological Survey's work is vested in the Natural Environment Research Council [NERC]. No part of this work may be reproduced or transmitted in any form or by any means, or stored in a retrieval system of any nature, without the prior permission of the copyright holder, via the BGS Intellectual Property Rights Manager. Use by customers of information provided by the BGS, is at the customer's own risk. In view of the disparate sources of information at BGS's disposal, including such material donated to BGS, that BGS accepts in good faith as being accurate, the Natural Environment Research Council (NERC) gives no warranty, expressed or implied, as to the quality or accuracy of the information supplied, or to the information's suitability for any use. NERC/BGS accepts no liability whatever in respect of loss, damage, injury or other occurence however caused.
- Access constraints
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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]"
Responsible organization (s)
Contact for the resource
- Organisation name
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University of Manchester
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not available
- Organisation name
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University of Manchester
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not available
- Organisation name
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British Geological Survey
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not available
- Organisation name
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British Geological Survey
-
not available
Responsible organization (s)
Contact for the resource
- Organisation name
-
University of Manchester
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not available
- Organisation name
-
University of Manchester
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not available
- Organisation name
-
British Geological Survey
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not available
- Organisation name
-
British Geological Survey
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not available
Metadata information
Contact for the metadata
- Organisation name
-
British Geological Survey
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enquiries@bgs.ac enquiries@bgs.ac.uk
- Metadata Date
- 2024-04-25
- Metadata Language
- English (en)