Insektmobilen - National citizen science and DNA metabarcoding survey of flying insects in June 2018 and 2019

Данные в формате DwC-A	Скачать 181 023 Записи в English (40 MB) - Частота обновления: не планируется
Метаданные в формате EML	Скачать в English (39 KB)
Метаданные в формате RTF	Скачать в English (16 KB)

Описание

The Insectmobile (Insektmobilen) is a research project at the National History Museum of Denmark, University of Copenhagen, with the goal to investigate the diversity of flying insects in Denmark. In the summer of 2018, 2019 and 2020 almost 400 volunteers collected flying insects using large custom made insect nets mounted on the roof of their cars. The bulk insect samples were processed with a non-destructive DNA extraction DNA metabarcoding protocol (dx.doi.org/10.17504/protocols.io.bmunk6ve) and sequences were assigned taxonomy by importing the fasta file into GBIF's sequence ID tool (https://www.gbif.org/tools/sequence-id). The sequences were queried against a 99% clustered version of the BOLD Public Database v2024-01-06 public data (COI-5P sequences). The dataset contains unidentified sequences and potential errors and contaminants. For example, even though the primers used were developed as universal primers targeting freshwater insects, you will find other phyla, classes etc. We share these sequences and associated data for the data to be as open as possible, but please do reannotate sequences and filter the data for your specific needs prior to using the data for analysis. Please be aware that the samples may contain gut content of sampled insects and eDNA. Sequence identification certainty is captured in the identificationRemarks field. The bit score is the required size of a sequence database in which the current match could be found just by chance. The bit score is a log2 scaled and normalized raw score. Each increase by one doubles the required database size (2bit-score). The expect value is a parameter that describes the number of hits one can "expect" to see by chance when searching a database of a particular size. It decreases exponentially as the score of the match increases. Hence, a low expect value is better. How much of the query(input) sequence aligns with the match in the the reference database, in percent. Badges representing different identity thresholds (match types); Blast exact match = identity >= 99% and queryCoverage >= 80%. This is within the threshold of the OTU, Blast ambiguous match = identity >= 99% and queryCoverage >= 80%, but there is at least one more match with similar identity, Blast close match = identity < 99% but > 90% and queryCoverage >= 80%. It is something close to the OTU, maybe the same genus, Blast weak match = there is a match, but with identity < 90% or/and queryCoverage < 80%. Depending on the quality of the sequence, bit score, identity and expect value, a higher taxon could be inferred from this, Blast no match = no match to the reference database.

Записи данных

Данные этого находка ресурса были опубликованы в виде Darwin Core Archive (DwC-A), который является стандартным форматом для обмена данными о биоразнообразии в виде набора из одной или нескольких таблиц. Основная таблица данных содержит 181 023 записей.

Также в наличии 3 таблиц с данными расширений. Записи расширений содержат дополнительную информацию об основной записи. Число записей в каждой таблице данных расширения показано ниже.

181023

181117

181023

Данный экземпляр IPT архивирует данные и таким образом служит хранилищем данных. Данные и метаданные ресурсов доступны для скачивания в разделе Загрузки. В таблице версий перечислены другие версии ресурса, которые были доступны публично, что позволяет отслеживать изменения, внесенные в ресурс с течением времени.

Версии

В таблице ниже указаны только опубликованные версии ресурса, которые доступны для свободного скачивания.

Как оформить ссылку

Исследователи должны дать ссылку на эту работу следующим образом:

Svenningsen C, P. Tøttrup A (2025). Insektmobilen - National citizen science and DNA metabarcoding survey of flying insects in June 2018 and 2019. Version 1.11. GBIF Secretariat. Occurrence dataset. https://ipt.gbif.org/resource?r=insektmobilen_citation_test_noresourcedoi&v=1.11

Права

Исследователи должны соблюдать следующие права:

Публикующей организацией и владельцем прав на данную работу является GBIF Secretariat. Эта работа находится под лицензией Creative Commons Attribution (CC-BY 4.0).

Регистрация в GBIF

Этот ресурс был зарегистрирован в GBIF, ему был присвоен следующий UUID: 966797a7-18f3-40a5-948b-2cedf183d2b8. GBIF Secretariat отвечает за публикацию этого ресурса, и зарегистрирован в GBIF как издатель данных при оподдержке GBIF Secretariat.

Ключевые слова

Occurrence; SamplingEvent; NaturalHistoryCollection; EnvironmentalDnaAndMetagenomics; CitizenScience; Occurrence

Контакты

Cecilie Svenningsen

Metadata Provider ●
Originator ●
Point Of Contact

Data administrator

Global Biodiversity Information Facility

csvenningsen@gbif.org

https://orcid.org/0000-0002-9216-2917

Anders P. Tøttrup

Originator ●
Point Of Contact

Associate Professor

Natural History Museum of Denmark

aptottrup@snm.ku.dk

https://orcid.org/0000-0001-8776-9629

Isabel Calabuig

Distributor

Node Manager & Data curator

DanBIF, Danish Biodiversity Information Facility

icalabuig@snm.ku.dk

http://snm.ku.dk/english/staffsnm/staff/?pure=en/persons/88409

https://orcid.org/0000-0001-5515-7900

Географический охват

Data was collected in Denmark.

Ограничивающие координаты	Юг Запад [54,648, 8,146], Север Восток [57,584, 15,124]

Таксономический охват

The project targeted flying insects specifically, but a universal primer was used. We have included all sequences and associated taxonomic assignments although some may appear odd, it is our hope that updated reference database may improve the taxonomy of the sequences in the long run and hence their re-usability.

Kingdom	Chromista, NA, Plantae, Animalia
Phylum	Arthropoda, Rotifera, Nemertea, Annelida, Chordata, Rhodophyta, Oomycota, Echinodermata, Mollusca, Porifera, Tardigrada, Nematoda, Ochrophyta, NA, Cnidaria
Class	Protura, Hydrozoa, Haptoglossa, Palaeonemertea, Clitellata, Polychaeta, Florideophyceae, Hoplonemertea, Arachnida, Diplopoda, Mammalia, Pycnogonida, Collembola, Dorylaimida, Gastropoda, Demospongiae, Peronosporea, Chromadorea, Bangiophyceae, Eurotatoria, Insecta, Cypriniformes, NA, Scyphozoa, Malacostraca, Eutardigrada, Crinoidea
Order	Symphypleona, Clionaida, Peyssonneliales, Amphipoda, Hildenbrandiales, Hemiptera, Sarcoptiformes, Opiliones, Artiodactyla, Coronatae, Phasmida, Monostilifera, Enchytraeida, Bubarida, Cyprinidae, Bangiales, Gigartinales, Ceramiales, Julida, Ixodida, Crassiclitellata, Thysanoptera, Neuroptera, Longidoridae, Dermaptera, Haplosclerida, Bdelloidea, Anthoathecata, Ephemeroptera, Araneae, Scopalinida, Mesostigmata, Plecoptera, Rhipidiales, Lepidoptera, Leptomitales, Diptera, Cumacea, Entomobryomorpha, Polyxenida, Trichoptera, Polymastiida, Ploima, Pantopoda, Pseudoscorpiones, Phyllodocida, Parachela, Desmacellida, Archinemertea, Littorinimorpha, Poecilosclerida, Orthoptera, Zygentoma, Rhabditida, NA, Coleoptera, Rhodymeniales, Odonata, Mecoptera, Hymenoptera, Comatulida, Saprolegniales, Peronosporales, Psocodea, Trombidiformes, Leptothecata, Albuginales, Stylommatophora, Poduromorpha, Bathynellacea, Isopoda, Protura

Временной охват

Дата начала / Дата окончания	2018-06-01 / 2018-06-30

Дата начала / Дата окончания	2019-06-01 / 2019-06-30

Данные проекта

Описание отсутсвует

Название	Insektmobilen
Идентификатор	insektmobilen_DNA
Финансирование	The research project was funded by Aage V. Jensen Naturfond and The Danish Ministry of Higher Education and Science, Grant/Award Number: 7072- 00014B

Исполнители проекта:

Cecilie Svenningsen

https://orcid.org/0000-0002-9216-2917

Методы сбора

We recruited citizen scientists to drive with car nets in close proximity to their home address in June and July 2018. The car net was funnel- shaped with a detachable sampling bag at the far end for sample collection. Metal guy- line adjusters enabled adjustment to car length and allowed the net to be used on most car types (Figure 1). The measurements of the net were as follows: front height: 75 cm; front width: 100 cm; length: 140 cm; width of sampling bag: 29 cm; mesh size at the bottom (grey fabric): 2 × 1 mm; and mesh size for the rest of the net (white fabric): ~0.3 mm. Custom tent poles (L: 209 cm, D: 8 mm) supported the opening of the net Citizen scientists were recruited by the Natural History Museum of Denmark (NHMD). The citizen scientists received a simple sampling protocol, and video tutorials and FAQ sheets along with the sampling equipment. Sampling of each route was carried out once during two time intervals on the same day: between 12 and 15 h (midday) and again between 17 and 20 h (evening) with a maximum speed of 50 km/h and weather conditions of at least 15°C, an average wind speed of maximum 6 m/s and no rain. Insects were collected in individual sampling bags that were placed in 96% pure ethanol and stored in double-sealed plastic bags before the citizen scientists sent the samples back to the research institution.

Охват исследования	Sampling was carried out in Denmark in the month of June of 2018 and 2019.

Описание этапа методики:

Please consult the following publications and their supplementary material for more information: https://onlinelibrary.wiley.com/doi/pdf/10.1111/ddi.13532 https://resjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/icad.12694 https://royalsocietypublishing.org/doi/full/10.1098/rsbl.2020.0833 https://www.protocols.io/view/insects-and-dna-metabarcoding-insectmobile-laborat-261ge46qdv47/v1

Данные коллекции

Название коллекции	Natural History Museum of Denmark
Идентификатор коллекции	ACC.NO. 2018-EN-001DK

Методы сохранения образцов	Alcohol

Библиографические ссылки

Svenningsen, C. S., Peters, B., Bowler, D. E., Dunn, R. R., Bonn, A., & Tøttrup, A. P. (2024). Insect biomass shows a stronger decrease than species richness along urban gradients. Insect Conservation and Diversity, 17(2), 182-188. https://doi.org/10.1111/icad.12694

Дополнительные метаданные

Альтернативные идентификаторы	https://ipt.gbif.org/resource?r=insektmobilen_citation_test_noresourcedoi