The InBIO Barcoding Initiative Database: Diptera 01

Sónia Ferreira1, Rui Andrade2, Ana Rita Gonçalves3, Pedro Sousa1, Pedro Beja1

1 CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7, 4485-661, Vairão, Portugal; 2 Rua Calouste Gulbenkian, 237, 4H3, 4050-145, Porto, Portugal; 3 Computational Biology and Population Genomics Group, cE3c, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal

Corresponding author(s): Sónia Ferreira (hiporame@gmail.com)Rui Andrade (ruiamandrade@yahoo.com)Ana Rita Gonçalves (anagoncalvesm@gmail.com)Pedro Sousa (psousa@cibio.up.pt)Pedro Beja (pbeja@cibio.up.pt)

Received {date}; Revised {date}; Accepted {date}; Published {date}

Citation: Combination of authors, year of data paper publication (in parentheses), Title, Journal Name, Volume, Issue number (in parentheses), and doi of the data paper.

Resource Citation

Ferreira S, Andrade R, Gonçalves A R, Sousa P, Beja P (2019): The InBIO Barcoding Initiative Database: Diptera 01. v1.4. CIBIO-InBIO (Research Center in Biodiversity and Genetic Resources), Portugal. Occurrence dataset. https://doi.org/10.15468/q1bvt3

Abstract

The dataset contains 203 records of Diptera species collected from 2014 to 2018 in continental Portugal. All specimens were identified to species level, belonging to 154 species belonging to 41 different fly families. Specimens were captured during fieldwork directed specifically for the sampling of Diptera using different methodologies and stored in 96% ethanol. A tissue sample, usually a leg, was collected from each individual, from which DNA was extracted. The DNA barcoding of these specimens was conducted within the InBIO Barcoding Initiative (IBI), funded by EnvMetaGen and PORBIOTA projects. DNA barcode sequences were deposited in BOLD (Barcode of Life Data System) online database. Preserved specimens and DNA extracts are deposited in the IBI collection at the CIBIO (Research Center in Biodiversity and Genetic Resources).

Keywords: Diptera, Species, Occurrence, Cytochrome c oxidase I (COI), DNA barcode, Continental Portugal

General description

Purpose: The InBIO Barcoding Initiative (IBI) aims to develop a reference collection of DNA barcoding sequences primarily covering Portuguese invertebrate taxa providing a tool in ecological studies.

Project details

Project title: The InBIO Barcoding Initiative Database: Diptera 01
Personnel: Sónia Ferreira, Rui Andrade, Ana Rita Gonçalves, Pedro Sousa, Pedro Beja
Funding: This project is funded by the European Union’s Horizon 2020 Research and Innovation programme under grant agreement No 668981 and by the project PORBIOTA—Portuguese E-Infrastructure for Information and Research on Biodiversity (POCI-01-0145-FEDER-022127), supported by Operational Thematic Program for Competitiveness and Internationalization (POCI), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (FEDER), by EDP Biodiversity Chair, and is part of research conducted at the Long Term Research Site of Baixo Sabor (LTER_EU_PT_002). P.S. was funded by the project ECOLIVES – Fostering sustainable management in Mediterranean olive farms: pest control services provided by wild species as incentives for biodiversity conservation (PTDC/AAG-REC/6480/2014/) supported by Portuguese national funds by FCT/MCTES and co-financed by Fundo Europeu de Desenvolvimento Regional (FEDER) throughout COMPETE – Programa Operacional Factores de Competitividade (POFC).
Study area descriptions/descriptor: Specimens were collected in eight continental Portugal districts. Fifty-nine different localities were sampled encompassing a great variety of habitats. Sampling was conducted from 2014 to 2018, with more than half of the specimens (62.6%) collected in the year 2017.
Design description: Specimens in this dataset were collected in field work carried out between 2014 and 2018. Specimens resulted from field work directed specifically for the sampling of Diptera using different methodologies.

Data published through GBIF: http://ipt.gbif.pt/ipt/resource?r=ibi_diptera_i

Taxonomic coverage

General taxonomic coverage description: This dataset is composed of data relating to 203 Diptera specimens. All specimens were determined to species level. Overall, 154 species are represented in the dataset. These species belong to 41 families. Five families account for 56% of the total collected specimens, Syrphidae, Muscidae, Tachinidae, Calliphoridae and Chloropidae. These five families account for 54% of the total species represented. Nineteen families are represented by a single species.
Taxonomic ranks
Kingdom: Animalia
Phylum: Arthropoda
Class: Insecta
Order: Diptera
Family: Anisopodidae, Anthomyiidae, Asilidae, Bibionidae, Bombyliidae, Calliphoridae, Canacidae, Chloropidae, Conopidae, Diastatidae, Dolichopodidae, Drosophilidae, Ephydridae, Fanniidae, Heleomyzidae, Hippoboscidae, Hybotidae, Lauxaniidae, Lonchaeidae, Micropezidae, Muscidae, Nemestrinidae, Opetiidae, Opomyzidae, Pallopteridae, Periscelididae, Platystomatidae, Psychodidae, Ptychopteridae, Rhiniidae, Rhinophoridae, Sarcophagidae, Scathophagidae, Sciomyzidae, Stratiomyidae, Syrphidae, Tabanidae, Tachinidae, Tephritidae, Trichoceridae, Ulidiidae

Spatial coverage

General spatial coverage: Continental Portugal
Coordinates: 42°0'7.2''N and 40°3'14.4''N Latitude; 8°46'26.4''W and 6°16'26.4''W Longitude 

Temporal coverage: May 27, 2014 - July 7, 2018

Natural collections description

Collection name: InBIO Barcoding Initiative
Collection identifier: 4ec2b246-f5fa-4b90-9a8d-ddafc2a3f970
Specimen preservation method: Alcohol
Curatorial unit: Between 1 and 203 (Voucher tube)
Curatorial unit: Between 1 and 203 (DNA extractions)

Methods

Method step description: Specimens were collected in 59 different localities of continental Portugal. Sampling was conducted from 2014 to 2018, and consisted of direct search of specimens, the use of entomological nets to intercept specimens flight or to sweep the vegetation. Specimens collected were stored in 96% ethanol. A tissue sample was removed from which DNA was extracted and COI DNA barcode fragment was sequenced. Prior submission to GBIF, data was checked for errors and inconsistencies with OpenRefine 3.2 (http://openrefine.org/).
Study extent description: Specimens were collected in 59 different localities of continental Portugal. Sampling was conducted from 2014 to 2018, in several field work expeditions. More than half of the specimens (62.6%) were collected in the year 2017.
Sampling description: The studied material was collected in 59 different localities from the northern half of continental Portugal (Fig. 1, Table 1). Sampling was conducted between 2014 and 2018 on a wide range of habitats, using mainly hand-held sweep nets or direct search of specimens. Collected specimens were examined both dry and in alcohol using a binocular stereoscopic microscope (Optika ST-30-2LR, 20x-40x) and stored in 96% ethanol for downstream molecular analysis. Morphological identification was performed based on keys and descriptions from literature (Suppl. material 1)
Quality control description: To each specimen the morphological identification was contrasted with the results of the Blast of the newly generated DNA barcodes in BOLD Identification Engine.

Datasets

Dataset description
Object name: Darwin Core Archive The InBIO Barcoding Initiative Database: Diptera 01
Character encoding: UTF-8
Format name: Darwin Core Archive format
Format version: 1.0
Distribution: http://ipt.gbif.pt/ipt/archive.do?r=ibi_diptera_i
Publication date of data: 2020-06-25
Language: English
Licences of use: Creative Commons Attribution (CC-BY) 4.0 License

Metadata language: English
Date of metadata creation: 2019-12-13
Hierarchy level: Dataset