Ravenglass Depth Cores Ion Torrent FASTQ Data (NERC Grant NE/L000326/1)
Two sediment depth cores were collected from the River Esk estuary during low tide near the town of Ravenglass, UK. Cores were collected by the University of Manchester. Cores were sliced at 1 cm intervals from 0 - 10 cm, and at 2 cm intervals thereafter. Slicing was performed in an anaerobic bag. Samples were transferred to Newcastle University for DNA extraction. A total of 19 samples were extracted for core 1, and 18 samples extracted for core 2.
dataset
:
http://data.bgs.ac.uk/id/dataHolding/13607591
English
Geoscientific information
GEMET - INSPIRE themes, version 1.0:
BGS Thesaurus of Geosciences:
Bacteria
Uranium
NGDC Deposited Data
Core samples
Free:
Free:
NERC_DDC
-3.4000,
54.3300,
-3.4000,
54.3300
Ravenglass [id=1458961]
creation: 2020-02-21
2014-07-01
-
2014-07-08
text table
University of Newcastle
Peter Leary
Leech Building, Faculty of Medical Sciences, Framlington Place,
Newcastle,
NE2 4HH
email:
not available
Role: originator
University of Newcastle
Dr Neil Gray
Agriculture Building,
Newcastle,
NE1 7RU
email:
not available
Role: principal investigator
British Geological Survey
Enquiries
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Role: distributor
British Geological Survey
Enquiries
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Role: point of contact
Data Quality
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.
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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
Constraints
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Available under the Open Government Licence subject to the following acknowledgement accompanying the reproduced NERC materials "Contains NERC materials ©NERC [year]"
licenceOGL
Metadata about metadata
9f8e367b-d26f-3fa5-e054-002128a47908
British Geological Survey
Environmental Science Centre,Keyworth,
NOTTINGHAM,
NG12 5GG,
United Kingdom
tel: +44 115 936 3100
email:
enquiries@bgs.ac.uk
Role: point of contact
2024-04-24