Identification

Title

Data describing pollen identified from honey samples originating from the UKCEH National Honey Monitoring Scheme for 2019

Abstract

The following data set describes regional and temporal occurrence of plants foraged upon by managed honey bees (Apis mellifera). This data was derived from DNA meta-barcoding of pollen extracted from honey samples provided by bee keepers archived as part of the UK National Honey Monitoring Scheme (https://honey-monitoring.ac.uk/). All data provided is from the first full year of the scheme in 2019. Working in partnership with UK beekeepers, the National Honey Monitoring Scheme aims to use honeybees to monitor long-term changes in the condition and health of the UK countryside. Data associated with subsequent years will be made available as samples are processed. The Honey Monitoring Scheme is supported by national capability funding from UK Centre for Ecology & Hydrology under the ASSIST programme. Full details about this dataset can be found at https://doi.org/10.5285/e9ec63be-3f2b-4d1b-b9bf-77ca2b96c7f5

Resource type

dataset

Resource locator

https://data-package.ceh.ac.uk/data/e9ec63be-3f2b-4d1b-b9bf-77ca2b96c7f5

name: Download the data

description: Download a copy of this data

function: download

https://data-package.ceh.ac.uk/sd/e9ec63be-3f2b-4d1b-b9bf-77ca2b96c7f5.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/e9ec63be-3f2b-4d1b-b9bf-77ca2b96c7f5

codeSpace

doi:

Dataset language

eng

Spatial reference system

code identifying the spatial reference system

UK regions

Classification of spatial data and services

Topic category

biota

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

originating controlled vocabulary

title

Wikidata

reference date

date type

creation

effective date

2012-10-29

Keyword set

keyword value

Honey

DNA Metabarcoding

Pollen

Forage plants

National Honey Monitoring Scheme

Assist

United Kingdom

Geographic location

West bounding longitude

-8.648

East bounding longitude

1.768

North bounding latitude

60.861

South bounding latitude

49.864

Temporal reference

Temporal extent

Begin position

2019-01-01

End position

2019-12-31

Dataset reference date

date type

publication

effective date

2022-01-18

Frequency of update

asNeeded

Quality and validity

Lineage

All honey samples were submitted following an application though the National Honey Monitoring Scheme online portal which required minimum meta-data on site location and sample date which was verified. This included in some cases additional data on hive health metrics. DNA meta-barcoding to rapidly process samples to identify plant species. Quality assurance of the DNA metabarcoding was delivered through operational deployment of sophisticated protocols for barcoding and interpreting large volumes of honey samples. To do this we developed the HONEYPI pipeline implemented in python 2.7 and is open access (https://github.com/hsgweon/honeypi). The HONEYPI pipeline is divided into several parts as follows: 1) the raw amplicon sequences are quality filtered and adapters removed; 2) DADA2 pipeline is subsequently used to generate an Amplicon Sequence Variant (ASV) abundance table containing chimera-removed, high-quality error-corrected sequences. 3). For each ASV, conserved regions flanking ITS2 are removed; and (4) resulting sequences taxonomically classified using the naive Bayesian classifier against in-house ITS2 database. Since HONEYPI uses ASVs rather than clusters of sequences for classification, it allows combining of ASV tables, i.e. data from two or more separate sequencing runs can be merged without re-clustering sequences. A full open access methodological paper describing this approach is given in Oliver et al (2021) MethodsX, 8, 101303 (https://doi.org/10.1016/j.mex.2021.101303)

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

pointOfContact

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

2022-05-18T12:21:22

Metadata language

eng