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

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.

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Identification info

Metadata Language
English (en)
Dataset Reference Date ()
2020-02-21
Identifier

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

 

University of Newcastle

-

Peter Leary

(

Bioinformatics Support Unit

)

Leech Building, Faculty of Medical Sciences, Framlington Place

,

Newcastle

,

NE2 4HH

,
 

University of Newcastle

-

Peter Leary

(

Bioinformatics Support Unit

)

Leech Building, Faculty of Medical Sciences, Framlington Place

,

Newcastle

,

NE2 4HH

,
Maintenance and update frequency
notApplicable
GEMET - INSPIRE themes
  • Geology
BGS Thesaurus of Geosciences
  • Uranium

  • Bacteria

Keywords
  • NERC_DDC

Limitations on Public Access
otherRestrictions
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 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]"

Topic category
  • Geoscientific information
Extent

Loch Etive [id=1344178]

Dataset Reference Date ()
2002

N
S
E
W


Begin date
2017-06-01
End date
2017-06-14
 

Spatial Reference System

No information provided.

Distribution Information

Data format
  • FASTQ file

    ()

Resource Locator
Data
Resource Locator
Data
 
Quality Scope
dataset
Other

dataset

Report

Dataset Reference Date ()
2011
Explanation

See the referenced specification

Degree

Report

Dataset Reference Date ()
2010-12-08
Explanation

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

Degree
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 XML
Metadata Language
English (en)
Resource type
dataset
Metadata Date
2023-03-23
Metadata standard name
UK GEMINI
Metadata standard version

2.3

 

British Geological Survey


Environmental Science Centre,Keyworth

,

NOTTINGHAM

,

NOTTINGHAMSHIRE

,

NG12 5GG

,

United Kingdom

+44 115 936 3100
 
 

Overviews

N
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