The InBIO Barcoding Initiative Database: Diptera 01

The dataset contains 203 records of Diptera species collected from 2014 to 2018 in continental Portugal (Ferreira et al., 2020). The species represented in the dataset, 154 in total, correspond to about 10% of the known fly diversity of continental Portugal, and contribute to the knowledge on the DNA barcodes and distribution of Portuguese Diptera. Specimens were captured during fieldwork directed specifically for the sampling of Diptera using different methodologies and stored in 96% ethanol. All specimens were morphologically identified to species level. 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).

Default

Identification

Alternate Identifier

21feb87f-62f2-4765-8aa6-6953ee5e09d6

Publication Date
2021-02-09
Title

The InBIO Barcoding Initiative Database: Diptera 01

Abstract

The dataset contains 203 records of Diptera species collected from 2014 to 2018 in continental Portugal (Ferreira et al., 2020). The species represented in the dataset, 154 in total, correspond to about 10% of the known fly diversity of continental Portugal, and contribute to the knowledge on the DNA barcodes and distribution of Portuguese Diptera. Specimens were captured during fieldwork directed specifically for the sampling of Diptera using different methodologies and stored in 96% ethanol. All specimens were morphologically identified to species level. 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).

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.

Dataset Language

ENGLISH

 
Dataset Creator
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Sónia Ferreira (Post-Doc Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Dataset Creator
  Rui Andrade (Researcher)

Rua Calouste Gulbenkian, 237, 4H3

,

Porto

,

Porto

,

4050-145

,

PORTUGAL

Dataset Creator
Dataset Creator
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Pedro Sousa (Post-Doc Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Dataset Creator
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Pedro Beja (Coordinating Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Metadata Provider
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Sónia Ferreira (Post-Doc Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Metadata Provider
  Rui Andrade (Researcher)

Rua Calouste Gulbenkian, 237, 4H3

,

Porto

,

Porto

,

4050-145

,

PORTUGAL

Metadata Provider
Metadata Provider
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Pedro Sousa (Post-Doc Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Metadata Provider
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Pedro Beja (Coordinating Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Dataset Contact
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Pedro Beja (Coordinating Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Dataset Contact
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Sónia Ferreira (Post-Doc Researcher)

Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7

,

Vairão

,

Porto

,

4485-661

,

PORTUGAL

Keywords (GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type.xml)

  • Diptera

Keywords (GBIF Dataset Subtype Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_subtype.xml)

  • Species

Keywords (GBIF Dataset Subtype Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_subtype.xml)

  • Occurrence

Keywords (n/a)

  • Cytochrome c oxidase I (COI)

Keywords (n/a)

  • DNA barcode

Keywords (n/a)

  • Continental Portugal

Keywords (GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type_2015-07-10.xml)

  • Occurrence

Geographic Coverage

Geographic Description

Continental Portugal

Bounding Box

West Bounding Coordinate

-8.774

East Bounding Coordinate

-6.274

North Bounding Coordinate

42.002

South Bounding Coordinate

40.054

Temporal Coverage

Range of Dates

Begin Date

2014-05-27

End Date

2018-07-07

Taxonomic Coverage

General Taxonomic Coverage

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 Classification

Taxonomic Rank Name

Kingdom

Taxonomic Rank Value

Animalia

Taxonomic Classification

Taxonomic Rank Name

Phylum

Taxonomic Rank Value

Arthropoda

Taxonomic Classification

Taxonomic Rank Name

Class

Taxonomic Rank Value

Insecta

Taxonomic Classification

Taxonomic Rank Name

Order

Taxonomic Rank Value

Diptera

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Anisopodidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Anthomyiidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Asilidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Bibionidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Bombyliidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Calliphoridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Canacidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Chloropidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Conopidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Diastatidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Dolichopodidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Drosophilidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Ephydridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Fanniidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Heleomyzidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Hippoboscidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Hybotidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Lauxaniidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Lonchaeidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Micropezidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Muscidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Nemestrinidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Opetiidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Opomyzidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Pallopteridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Periscelididae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Platystomatidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Psychodidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Ptychopteridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Rhiniidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Rhinophoridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Sarcophagidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Scathophagidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Sciomyzidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Stratiomyidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Syrphidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Tabanidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Tachinidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Tephritidae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Trichoceridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Ulidiidae

License Information

Intellectual Rights

This work is licensed under a

Creative Commons Attribution (CC-BY) 4.0 License

.

 

Distribution

Online

URL
http://www.boldsystems.org/index.php/Public_SearchTerms?query=DS-IBIDP01
 

Additional Metadata

Metadata

GBIF Metadata Block

Date Stamp

2021-11-29T09:07:59Z

Citation

Ferreira S, Andrade R, Gonçalves A R, Sousa P, Beja P (2021). The InBIO Barcoding Initiative Database: Diptera 01. Version 1.6. CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal. Occurrence dataset https://doi.org/10.15468/q1bvt3 accessed via GBIF.org on 2021-11-29.

Bibliography

Ferreira, S.A., Andrade, R., Gonçalves, A.R., Sousa, P., Paupério, J., Fonseca, N.A. Beja, P. (2020). The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 01. Biodiversity Data Journal, 8: e49985. https://doi.org/10.3897/BDJ.8.e49985

Logo URL
https://cibio.up.pt/upload/image/logotipos/2-logo.png
Collection

4ec2b246-f5fa-4b90-9a8d-ddafc2a3f970

InBIO Barcoding Initiative

Speciment Preservation Method

ALCOHOL

JGTI Curatorial Unit

Voucher tube

1

203

JGTI Curatorial Unit

DNA extractions

1

203

 

Project

• Project

Title

The InBIO Barcoding Initiative Database: Diptera 01

Personnel

Individual Name

Given Name

Sónia

Surname

Ferreira

User ID

0000-0002-6884-3966

Role

AUTHOR

Personnel

Individual Name

Given Name

Rui

Surname

Andrade

Role

AUTHOR

Personnel

Individual Name

Given Name

Ana Rita

Surname

Gonçalves

Role

AUTHOR

Personnel

Individual Name

Given Name

Pedro

Surname

Sousa

User ID

0000-0002-5859-9656

Role

ORIGINATOR

Personnel

Individual Name

Given Name

Pedro

Surname

Beja

User ID

0000-0001-8164-0760

Role

AUTHOR

Abstract

The InBIO Barcoding Initiative aims to develop a reference collection of DNA barcoding sequences covering Portuguese invertebrate taxa. Within the project, a special focus is afforded to insects, given their relevance to food webs, ecosystems functioning, high diversity and limited number of DNA barcoding sequences of interest.

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 Description

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

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.

 
 

Methods

• Method

Method Step

Description

Specimens were collected in 59 different localities of continental Portugal. Fieldwork was carried out between 2014 and 2018.

Method Step

Description

Specimens were collected during fieldwork by direct search of specimens or by the use of entomological nets to intercept specimens flight or to sweep the vegetation. Captured specimens were preserved in 96% alcohol.

Method Step

Description

Specimens were morphologically identified with the assistance of a stereoscopic microscope (Optika ST-30-2LR, 20x-40x) and using available literature.

Method Step

Description

DNA barcodes were sequenced from all specimens. For this, one leg was removed from each individual, DNA was then extracted, and a 658 bp COI DNA barcode fragment was amplified and sequenced. Specimens and DNA extracts were deposited in the IBI reference collection at CIBIO (Research Center in Biodiversity and Genetic Resources).

Method Step

Description

All obtained sequences were submitted to BOLD and GenBank databases. The morphological identification of each sequenced specimen, when available, was contrasted with the results of the BLAST of the newly generated DNA barcodes in the BOLD Identification Engine.

Method Step

Description

Prior submission to GBIF, data was checked for errors and inconsistencies with OpenRefine 3.2 ( http://openrefine.org/).

Sampling

Study Extent

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 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)

qualityControl

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.