Identification

Title

Porewater and microbial community properties of permeable riverbed sediments across the south of England, 2018

Abstract

This dataset contains in-stream measurements of sediment porewater nutrients, nitrification rates (and the fraction which is either fully oxidised to nitrate or reduced to N2 gas), and the abundance of microbial 16S rRNA and specific N-cycling genes and transcripts. Sediments were sampled in winter (February 2018) and summer (July 2018), from 12 UK rivers with permeable beds (sand or chalk geology) and a gradient of P concentrations, in the Hampshire Avon catchment, Kent, and Essex. Methods included measurements of porewater nutrients using Skalar SAN++AutoAnalyser, nitrification rates from in-situ ‘push-pull’ injections of 15N-labelled ammonia and -nitrite, and sediment microbial gene and transcript abundance by DNA extraction and qPCR. The work was supported by the Natural Environment Research Council (Grants NE/P01142X/1, NE/P011624/1; A new dynamic for Phosphorus in RIverbed Nitrogen Cycling - PRINCe Full details about this dataset can be found at https://doi.org/10.5285/d432d96c-7aff-45a5-9d4b-37e4065afdd7

Resource type

dataset

Resource locator

https://data-package.ceh.ac.uk/data/d432d96c-7aff-45a5-9d4b-37e4065afdd7

name: Download the data

description: Download a copy of this data

function: download

https://data-package.ceh.ac.uk/sd/d432d96c-7aff-45a5-9d4b-37e4065afdd7.zip

name: Supporting information

description: Supporting information available to assist in re-use of this dataset

function: information

Unique resource identifier

code

https://catalogue.ceh.ac.uk/id/d432d96c-7aff-45a5-9d4b-37e4065afdd7

codeSpace

doi:

Dataset language

eng

Spatial reference system

code identifying the spatial reference system

Classification of spatial data and services

Topic category

inlandWaters

Keywords

Keyword set

keyword value

Environmental Monitoring Facilities

originating controlled vocabulary

title

GEMET - INSPIRE themes, version 1.0

reference date

date type

publication

effective date

2008-06-01

Keyword set

keyword value

Rivers

Chalk

Nitrogen cycle

ammonium

nitrite

nitrate

phosphate

nitrogen

15N

nitrification

Comammox

Anammox

NirS

nosZ

amoA

hzo

hzs

nirK

nirS

nrxB

ureC

ammonia oxidising

AOA

AOB

Lambourn

Cray

Ash

Darent

Wylye

Rib

Plant

Stour

Ebble

Marden

Medway

Broadstone

Nadder

Bacteria

Greensand

Archaea

16S rRNA

Geographic location

West bounding longitude

-2.2

East bounding longitude

0.96

North bounding latitude

South bounding latitude

51.02

Temporal reference

Temporal extent

Begin position

2018-02-01

End position

2018-07-31

Dataset reference date

date type

publication

effective date

2022-02-08

Frequency of update

Quality and validity

Lineage

Two field campaigns were conducted in 2018 in winter [February] and summer [2018] seasons) to measure in situ rates of nitrogen transformations, porewater chemistry and microbial gene abundance and transcripts in 12 rivers with permeable beds and varying concentrations of phosphorous in the Hampshire Avon catchment, Kent, and Essex. Nitrogen transformations were measured and porewater samples collected with a “push-pull” technique. Briefly, 15 bespoke stainless steel probes were installed in the riverbed at two depths (7 at 5cm and 8 at 10cm) to cover three unvegetated sediment patches. Porewater samples were obtained by a syringe connected to the porewater probe and applying a slight vacuum (by hand). From each probe, the O2 and pH content of the porewater was first determined and a newly collected porewater sample was preserved for gas analysis. Porewater Temperature and pH were measured with a Hach multi-meter and O2 concentrations were measured with a fast response microelectrode. Finally, another freshly collected porewater sample was passed through a 0.45 micron polypropylene filter and frozen for later nutrient (ammonium, nitrite, nitrate phosphate) analysis on a Skalar SAN++ auto analyser. To measure rates of nitrogen transformations, 15N-labelled ammonium or nitrate was injected into riverbed and porewater samples for gas and nutrient/chloride analysis were recovered from the same probe over time. The tracer was 300 microM, 98 atom % 15N-ammonium or nitrate in a synthetic river water matrix with additional KCl (approx. 150 mg per L). Each experiment used 25mL of tracer, consisted of 4-time points (immediately following the injection plus 3 others) and lasted for no more than 60 minutes in total. For each sediment patch, a single 2cm sediment core was taken (before push-pull analyses) and subsampled at 5 and 10cm depths for molecular analyses. The core was positioned no less than 20cm from a push-pull probe to avoid surface water intrusion into the porespace. Subsamples were then cryopreserved in liquid N2. 16S rRNA and N-cycle functional genes and transcripts were quantified by qPCR and RT-qPCR on a on a BioRad CFX384 following extraction of RNA and DNA with PowerSoil DNA or RNA Isolation kits (Qiagen). Genes were also amplified via PCR, indexed using Nextera XT indices (Illumina) and sequenced using MiSeq Reagent Kits v3 (600-cycle)on an Illumina MiSeq sequencer in 4 sequencing runs.

Conformity

Conformity report

specification

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

owner

Metadata on metadata

Metadata point of contact

organisation name

Environmental Information Data Centre

full postal address

Lancaster Environment Centre, Library Avenue, Bailrigg

Lancaster

LA1 4AP

email address

info@eidc.ac.uk

responsible party role

pointOfContact

Metadata date

2023-01-05T16:43:23

Metadata language

eng