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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.

Simple

Date (Creation)
2019-09-26
Identifier
http://data.bgs.ac.uk/id/dataHolding/13607536
Principal investigator
  University of Manchester - Prof Jonathan Lloyd ( School of Earth and Environmental Sciences )
Manchester , M13 9PL ,
Originator
  University of Manchester - Dr Naji Bassil ( School of Earth and Environmental Sciences )
Williamson Building , Manchester , M13 9PL ,
Distributor
  British Geological Survey - Enquiries
Point of contact
  British Geological Survey - Enquiries
Maintenance and update frequency
notApplicable notApplicable
GEMET - INSPIRE themes, version 1.0
  • Geology
BGS Thesaurus of Geosciences
  • Groundwater
  • NGDC Deposited Data
  • Arsenic
dataCentre
  • NGDC Deposited Data
Keywords
  • NERC_DDC
Access constraints
otherRestrictions Other restrictions
Other constraints
licenceOGL
Other constraints
Available under the Open Government Licence subject to the following acknowledgement accompanying the reproduced NERC materials "Contains NERC materials ©NERC [year]"
Use constraints
otherRestrictions Other restrictions
Other constraints
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.
Other constraints
Available under the Open Government Licence subject to the following acknowledgement accompanying the reproduced NERC materials "Contains NERC materials ©NERC [year]"
Metadata language
EnglishEnglish
Topic category
  • Geoscientific information
Geographic identifier
KAMPUCHEA [id=548000]

Date (Creation)
1979

Geographic identifier
KANDAL [id=548780]

Date (Creation)
1979

Begin date
2019-05-06
End date
2019-05-12

Reference System Information

No information provided.
Distribution format
  • .fastq files ()

Distributor
  British Geological Survey - Enquiries
OnLine resource
Data
Hierarchy level
nonGeographicDataset Non geographic dataset
Other
non geographic dataset

Conformance result

Date (Publication)
2011
Explanation
See the referenced specification
Pass
No

Conformance result

Date (Publication)
2010-12-08
Explanation
See http://eur-lex.europa.eu/LexUriServ/LexUriServ.do?uri=OJ:L:2010:323:0011:0102:EN:PDF
Pass
No
Statement
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.
File identifier
95087060-b453-5bf3-e054-002128a47908 XML
Metadata language
EnglishEnglish
Hierarchy level
nonGeographicDataset Non geographic dataset
Hierarchy level name
non geographic dataset
Date stamp
2025-11-13
Metadata standard name
UK GEMINI
Metadata standard version
2.3
Point of contact
  British Geological Survey
Environmental Science Centre,Keyworth , NOTTINGHAM , NOTTINGHAMSHIRE , NG12 5GG , United Kingdom
+44 115 936 3100
Dataset URI
http://data.bgs.ac.uk/id/dataHolding/13607536
 
 

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