Identification

Title

Microbial genomic DNA data for participant collected household vacuum dust from homes across two bioclimatic regions (UK and Greece) (NERC Grant NE/T004401/1)

Abstract

The <250um fraction of 19 household vacuum dust samples (collected by citizen participants during 2019-2021) were extracted using high throughput isolation of microbial genomic DNA and sequenced using Illumina NextSeq (12 samples from a national campaign within the UK, 7 samples from Greece and a negative reagent control included to ensure sterility throughout the processing and sequencing steps). These data are available (following period of embargo) from the European Nucleotide Archive via the individual sample accession numbers ERS9609044 to ERS9609063, submitted under the study ID PRJEB49546. Sample location data are provided at town/city, country level. Given the amount of time people spend indoors, residential environments are perhaps the most important, but understudied environments with respect to human exposure to microbes and other contaminants. Across our urban environments, anthropogenic activities (both current and legacy) provide for multiple sources and pathways for the generation and distribution of microbes, inorganic and organic contaminants within the home environment, yet we know relatively little about the potential for dissemination of antibiotic resistance in microbial communities within indoor dust.

Resource type

nonGeographicDataset

Resource locator

https://webapps.bgs.ac.uk/services/ngdc/accessions/index.html#item171209

name: Data

function: download

Unique resource identifier

code

http://data.bgs.ac.uk/id/dataHolding/13607876

codeSpace

Dataset language

eng

Spatial reference system

code identifying the spatial reference system

Classification of spatial data and services

Topic category

geoscientificInformation

Keywords

Keyword set

keyword value

originating controlled vocabulary

title

GEMET - INSPIRE themes

reference date

date type

publication

effective date

2008-06-01

Keyword set

keyword value

Dust

originating controlled vocabulary

title

BGS Thesaurus of Geosciences

reference date

date type

revision

effective date

2011

Keyword set

keyword value

NERC_DDC

Geographic location

West bounding longitude

East bounding longitude

North bounding latitude

South bounding latitude

Temporal reference

Temporal extent

Begin position

2020-10-05

End position

2020-10-30

Dataset reference date

date type

creation

effective date

2022-01-04

Frequency of update

notApplicable

Quality and validity

Lineage

High throughput isolation of microbial genomic DNA from each <250 um citizen-collected vacuum dust sample was performed using a DNeasy 96 PowerSoil Pro Kit (384) (QIAGEN). Metagenomic library preparation was performed using Nextera XT DNA Library Preparation Kit. Sequencing was performed in-house (Northumbria University) using an Illumina NextSeq with a Mid-Output 300 cycle kit (150 base paired end reads), to facilitate a sequencing depth of 10M reads per sample. A negative reagent controls were included to ensure sterility throughout the processing and sequencing steps. Adaptor sequence trimming and quality filtering was performed with TrimGalore. Reads shorter than 100bp were removed in addition to sequences aligning to the human genome (removed using BBMap). After sequence filtering and quality control, a median/mean 4419820/4784250 sequence reads per sample remained.

Conformity

Conformity report

specification

title

INSPIRE Implementing rules laying down technical arrangements for the interoperability and harmonisation of Geology

reference date

date type

publication

effective date

2011

degree

false

explanation

See the referenced specification

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

reference date

date type

publication

effective date

2010-12-08

degree

false

explanation

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

Data format

name of format

MS Excel

version of format

Constraints related to access and use

Constraint set

Limitations on public access

Constraint set

Limitations on public access

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.

Responsible organisations

Responsible party

organisation name

Northumbria University

full postal address

Department of Geography and Environmental Sciences, Ellison Building

Newcastle upon Tyne

NE1 8ST

email address

not available

responsible party role

originator

Responsible party

organisation name

Northumbria University

full postal address

Department of Geography and Environmental Sciences, Ellison Building

Newcastle upon Tyne

NE1 8ST

email address

not available

responsible party role

principalInvestigator

Responsible party

organisation name

British Geological Survey

email address

not available

responsible party role

distributor

Responsible party

organisation name

British Geological Survey

email address

not available

responsible party role

pointOfContact

Metadata on metadata

Metadata point of contact

organisation name

British Geological Survey

full postal address

Environmental Science Centre,Keyworth

NOTTINGHAM

NG12 5GG

United Kingdom

telephone number

+44 115 936 3100

email address

enquiries@bgs.ac.uk

responsible party role

pointOfContact

Metadata date

2022-06-28

Metadata language

eng