Identification

Data Identification:

citation:

Citation:

Title:

Loch Etive Depth Cores Ion Torrent FASTQ Data (NERC Grant NE/L000326/1)

Date:

CI_Date:

Date Type:

creation

date:

2020-02-21

Identifier:

RS_Identifier:

code:

http://data.bgs.ac.uk/id/dataHolding/13607594

Abstract:

Two sediment depth cores were collected from the floor of Loch Etive, near Oban, Scotland. Slicing was performed in an anaerobic bag. Samples were taken at 0.5 cm increment between 0 - 2 cm, 1 cm increments between 2 - 10 cm, and at either 2 or 5 cm increments thereafter. Samples were transferred to Newcastle University for DNA extraction. A total of 21 samples were extracted for core 1, and 23 samples extracted for core 2.

Point of Contact:

Responsible Party:

Individual Name:

Peter Leary

Organisation Name:

University of Newcastle

Position Name:

Bioinformatics Support Unit

Contact Info:

CI_Contact:

Address:

Delivery Point:

Leech Building, Faculty of Medical Sciences, Framlington Place

city:

Newcastle

Postal Code:

NE2 4HH

e-mail:

not available

role:

pointOfContact

Responsible Party:

Individual Name:

Peter Leary

Organisation Name:

University of Newcastle

Position Name:

Bioinformatics Support Unit

Contact Info:

CI_Contact:

Address:

Delivery Point:

Leech Building, Faculty of Medical Sciences, Framlington Place

city:

Newcastle

Postal Code:

NE2 4HH

e-mail:

not available

role:

principalInvestigator

Resource Maintenance:

MD_MaintenanceInformation:

maint. / update frequency:

notApplicable

Graphic overview:

Browse Graphic:

File Name:

https://resources.bgs.ac.uk/images/geonetworkThumbs/a0046fac-9c62-30ee-e054-002128a47908.png

Descriptive Keywords:

Keywords:

keyword:

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

keyword:

Geology

Thesaurus Name:

Citation:

Title:

GEMET - INSPIRE themes, version 1.0

Date:

CI_Date:

date:

2008-06-01

Date Type:

publication

Keywords:

keyword:

Uranium

keyword:

NGDC Deposited Data

keyword:

Bacteria

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 Bounding Box:

westBoundLongitude:

-5.2400

eastBoundLongitude:

-5.2400

southBoundLatitude:

56.4400

northBoundLatitude:

56.4400

Geographic Description:

Geographic Identifier:

RS_Identifier:

authority:

Citation:

Title:

British Geological Survey Gazetteer: OS gazetteer

Date:

CI_Date:

Date Type:

revision

date:

2002

code:

Loch Etive [id=1344178]

Temporal Element:

TemporalExtent:

extent:

begin / end:

begin:

2017-06-01

end:

2017-06-14

Distribution

Distribution:

Distribution Format:

Format:

Format Name:

FASTQ file

Transfer Options:

Digital Transfer Options:

onLine:

CI_OnlineResource:

linkage:

https://www.bgs.ac.uk/services/ngdc/accessions/index.html#item133105

name:

Data

function:

download

Data Quality

Data Quality:

Scope:

DQ_Scope:

level:

dataset

Level Description:

MD_ScopeDescription:

other:

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:

DNA was extracted using FastDNA SPIN Kit for Soil. PCR using the 515F and 926R primers targeting the V4-V5 region of the 16S rRNA gene. Amplicon length was 481 bp. PCRs were 25 uL reactions with 22 uL of MegaMix Blue, 1uL of forward and 1 uL of reverse primer at 100 pM concentration, and 1 uL of 1:10 diluted template DNA. Initial denaturation was 95C for 5 minutes, followed by 30 cycles of 95C for 1 minute, 55C for 1 minutes, 72C for 1 minute, and a final elongation step of 72C for 10 minutes. Each depth sample was run in triplicate and pooled. Pooled amplicons were cleaned using Agencourt AMPure XP. PCR amplicons were quantified via Qubit 3.0 fluorometer and a total dilution factor was calculated for each sample, diluting each sample to 1000. Equimolar samples were pooled into a final library. Sequencing was performed on the Ion Torrent PGM on a 316 chip.

Metadata

File Identifier:

a0046fac-9c62-30ee-e054-002128a47908

language:

eng

Resource type:

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/13607594