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Needle's Eye Depth Core (Control) Ion Torrent FASTQ Data (NERC Grant NE/L000326/1)

Soil depth core collected from the Needle’s Eye site in Dumfries, Scotland. Clear plastic depth core was lowered into a bog within the site, excised, and capped at the top and bottom. Core was sliced at 1 cm intervals at the University of Manchester in an anaerobic bag. A total of 42 samples were generated. Soil samples were returned to Newcastle University.

Simple

Date (Creation)
2020-02-21
Identifier
http://data.bgs.ac.uk/id/dataHolding/13607590
Originator
  University of Newcastle - Peter Leary ( Bioinformatics Support Unit )
Leech Building, Faculty of Medical Sciences, Framlington Place , Newcastle , NE2 4HH ,
Principal investigator
  University of Newcastle - Dr Neil Gray ( Sch of Natural & Environmental Sciences )
Agriculture Building , Newcastle , NE1 7RU ,
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
  • Uranium
  • Bacteria
  • NGDC Deposited Data
  • Core samples
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
Dumfries [id=1279734]

Date (Revision)
2002

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Begin date
2014-12-02
End date
2014-12-02

Reference System Information

No information provided.
Distribution format
  • fastq ()

Distributor
  British Geological Survey - Enquiries
OnLine resource
Data
Hierarchy level
dataset Dataset
Other
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
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.
File identifier
9f8d7782-daf2-2a82-e054-002128a47908 XML
Metadata language
EnglishEnglish
Hierarchy level
dataset Dataset
Date stamp
2025-05-07
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/13607590
 
 

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