Identification

Data Identification:

citation:

Citation:

Title:

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

Date:

CI_Date:

Date Type:

creation

date:

2019-09-26

Identifier:

RS_Identifier:

code:

http://data.bgs.ac.uk/id/dataHolding/13607536

Abstract:

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.

Point of Contact:

Responsible Party:

Individual Name:

Prof Jonathan Lloyd

Organisation Name:

University of Manchester

Position Name:

School of Earth and Environmental Sciences

Contact Info:

CI_Contact:

Address:

city:

Manchester

Postal Code:

M13 9PL

e-mail:

not available

role:

principalInvestigator

Responsible Party:

Individual Name:

Dr Naji Bassil

Organisation Name:

University of Manchester

Position Name:

School of Earth and Environmental Sciences

Contact Info:

CI_Contact:

Address:

Delivery Point:

Williamson Building

city:

Manchester

Postal Code:

M13 9PL

e-mail:

not available

role:

originator

Responsible Party:

Individual Name:

Enquiries

Organisation Name:

British Geological Survey

Contact Info:

CI_Contact:

Address:

e-mail:

not available

role:

distributor

Responsible Party:

Individual Name:

Enquiries

Organisation Name:

British Geological Survey

Contact Info:

CI_Contact:

Address:

e-mail:

not available

role:

pointOfContact

Resource Maintenance:

MD_MaintenanceInformation:

maint. / update frequency:

notApplicable

Graphic overview:

Browse Graphic:

File Name:

https://resources.bgs.ac.uk/images/geonetworkThumbs/95087060-b453-5bf3-e054-002128a47908.png

Descriptive Keywords:

Keywords:

keyword:

Geology

keyword:

http://www.eionet.europa.eu/gemet/concept?cp=13&langcode=en&ns=5

Thesaurus Name:

Citation:

Title:

GEMET - INSPIRE themes, version 1.0

Date:

CI_Date:

date:

2008-06-01

Date Type:

publication

Keywords:

keyword:

Groundwater

keyword:

NGDC Deposited Data

keyword:

Arsenic

Thesaurus Name:

Citation:

Title:

BGS Thesaurus of Geosciences

Date:

CI_Date:

date:

2022

Date Type:

revision

Keywords:

keyword:

NGDC Deposited Data

keyword:

https://webapps.bgs.ac.uk/services/ngdc/accessions/index.html

Type:

dataCentre

Keywords:

keyword:

NERC_DDC

Resource Constraints:

MD_LegalConstraints:

Access Constraints:

otherRestrictions

Other Constraints:

licenceOGL

Other Constraints:

http://inspire.ec.europa.eu/metadata-codelist/LimitationsOnPublicAccess/noLimitations

Other Constraints:

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

MD_LegalConstraints:

Use Constraints:

otherRestrictions

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]"

language:

eng

topicCategory:

geoscientificInformation

Extent:

Geographic Element:

Geographic Description:

Geographic Identifier:

RS_Identifier:

authority:

Citation:

Title:

British Geological Survey Gazetteer: Geographical hierarchy from Geosaurus

Date:

CI_Date:

Date Type:

creation

date:

1979

code:

KAMPUCHEA [id=548000]

Geographic Description:

Geographic Identifier:

RS_Identifier:

authority:

Citation:

Title:

British Geological Survey Gazetteer: Geographical hierarchy from Geosaurus

Date:

CI_Date:

Date Type:

creation

date:

1979

code:

KANDAL [id=548780]

Temporal Element:

TemporalExtent:

extent:

begin / end:

begin:

2019-05-06

end:

2019-05-12

Distribution

Distribution:

Distribution Format:

Format:

Format Name:

.fastq files

Distributor:

Distributor Contact:

Responsible Party:

Individual Name:

Enquiries

Organisation Name:

British Geological Survey

Contact Info:

CI_Contact:

Address:

e-mail:

not available

role:

distributor

Transfer Options:

Digital Transfer Options:

onLine:

CI_OnlineResource:

linkage:

https://www.bgs.ac.uk/services/ngdc/accessions/index.html#item130306

name:

Data

function:

download

Data Quality

Data Quality:

Scope:

DQ_Scope:

level:

nonGeographicDataset

Level Description:

MD_ScopeDescription:

other:

non geographic dataset

Report:

Domain Consistency:

Result:

Conformance Result:

specification:

Citation:

Title:

INSPIRE Implementing rules laying down technical arrangements for the interoperability and harmonisation of Geology

Date:

CI_Date:

Date Type:

publication

date:

2011

explanation:

See the referenced specification

pass:

Domain Consistency:

Result:

Conformance Result:

specification:

Citation:

Title:

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

Date:

CI_Date:

Date Type:

publication

date:

2010-12-08

explanation:

See http://eur-lex.europa.eu/LexUriServ/LexUriServ.do?uri=OJ:L:2010:323:0011:0102:EN:PDF

pass:

Lineage:

LI_Lineage:

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.

Metadata

File Identifier:

95087060-b453-5bf3-e054-002128a47908

language:

eng

Resource type:

nonGeographicDataset

Hierarchy Level Name:

non geographic dataset

Metadata Contact:

Responsible Party:

Organisation Name:

British Geological Survey

Contact Info:

CI_Contact:

phone:

CI_Telephone:

voice:

+44 115 936 3100

Address:

Delivery Point:

Environmental Science Centre,Keyworth

city:

NOTTINGHAM

administrative Area:

NOTTINGHAMSHIRE

Postal Code:

NG12 5GG

country:

United Kingdom

e-mail:

enquiries@bgs.ac.uk

role:

pointOfContact

Date Stamp:

2024-04-24

Metadata Standard Name:

http://vocab.nerc.ac.uk/collection/M25/current/GEMINI/

Metadata Standard Name:

UK GEMINI

Metadata Standard Version:

2.3

Dataset URI:

http://data.bgs.ac.uk/id/dataHolding/13607536