a0046fac-9c62-30ee-e054-002128a47908
English
dataset
British Geological Survey
+44 115 936 3100
Environmental Science Centre,Keyworth
NOTTINGHAM
NOTTINGHAMSHIRE
NG12 5GG
United Kingdom
enquiries@bgs.ac.uk
pointOfContact
2021-04-13
UK GEMINI
2.3
http://data.bgs.ac.uk/id/dataHolding/13607594
Loch Etive Depth Cores Ion Torrent FASTQ Data (NERC Grant NE/L000326/1)
2020-02-21
creation
http://data.bgs.ac.uk/id/dataHolding/13607594
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.
Peter Leary
University of Newcastle
Bioinformatics Support Unit
Leech Building, Faculty of Medical Sciences, Framlington Place
Newcastle
NE2 4HH
not available
pointOfContact
Peter Leary
University of Newcastle
Bioinformatics Support Unit
Leech Building, Faculty of Medical Sciences, Framlington Place
Newcastle
NE2 4HH
not available
principalInvestigator
notApplicable
https://resources.bgs.ac.uk/images/geonetworkThumbs/a0046fac-9c62-30ee-e054-002128a47908.png
Geology
GEMET - INSPIRE themes
2008-06-01
publication
Uranium
Bacteria
BGS Thesaurus of Geosciences
2011
revision
NERC_DDC
otherRestrictions
restricted
The dataset has been formally approved by BGS for access by external clients under a BGS Digital Data Licence, issued via BGS's IPR Section. The dataset must not be provided to, or be accessible by, an external client until the IPR Section confirms that signed licence documentation is in place. Refer to the IPR Section (DigitalLE@bgs.ac.) if further advice is required.. Constraint applies until 2022-02-21
otherRestrictions
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.
Either: (i) the dataset is made freely available, e.g. via the Internet, for a restricted category of use (e.g. educational use only); or (ii) the dataset has not been formally approved by BGS for access and use by external clients under licence, but its use may be permitted under alternative formal arrangements; or (iii) the dataset contains 3rd party data or information obtained by BGS under terms and conditions that must be consulted in order to determine the permitted usage of the dataset. Refer to the BGS staff member responsible for the creation of the dataset if further advice is required. He / she should be familiar with the composition of the dataset, particularly with regard to 3rd party IPR contained in it, and any resultant use restrictions. This staff member should revert to the IPR Section (ipr@bgs.ac.uk) for advice, should the position not be clear.
English
geoscientificInformation
British Geological Survey Gazetteer: OS gazetteer
2002
revision
Loch Etive [id=1344178]
-5.2400
-5.2400
56.4400
56.4400
2017-06-01
2017-06-14
FASTQ file
https://www.bgs.ac.uk/services/ngdc/accessions/index.html#item133105
download
dataset
dataset
INSPIRE Implementing rules laying down technical arrangements for the interoperability and harmonisation of Geology
2011
publication
See the referenced specification
false
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
2010-12-08
publication
See http://eur-lex.europa.eu/LexUriServ/LexUriServ.do?uri=OJ:L:2010:323:0011:0102:EN:PDF
false
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.