Metadata Catalogue
The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae
The dataset contains 412 records of Diptera species from the families Limoniidae, Pediciidae and Tipulidae, collected between 2003 to 2019 in Portugal, including the Azores and Madeira archipelagos (Ferreira et al., 2021; Oosterbroek et al., 2020; Starý, 2014). Specimens have been identified to species or subspecies level, in a total of 83 species representing 58% of the Craneflies known for Portugal. Specimens were captured during fieldwork directed specifically for the sampling of Diptera using different methodologies and the majority was 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 the EnvMetaGen and PORBIOTA projects. The dataset “DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae” is part of a group of Diptera datasets published by IBI, the first of which, “The InBIO Barcoding Initiative Database: Diptera 01” ( https://doi.org/10.15468/q1bvt3) has already been made available through GBIF. DNA barcode sequences were deposited in BOLD (Barcode of Life Data System) and GenBank databases. All DNA extracts are deposited in the IBI collection at the CIBIO (Research Center in Biodiversity and Genetic Resources).
Default
Identification
- Alternate Identifier
-
66a5be5f-2471-4c38-b966-c3f9a8794832
- Publication Date
- 2021-09-27
- Title
-
The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae
- Abstract
-
The dataset contains 412 records of Diptera species from the families Limoniidae, Pediciidae and Tipulidae, collected between 2003 to 2019 in Portugal, including the Azores and Madeira archipelagos (Ferreira et al., 2021; Oosterbroek et al., 2020; Starý, 2014). Specimens have been identified to species or subspecies level, in a total of 83 species representing 58% of the Craneflies known for Portugal. Specimens were captured during fieldwork directed specifically for the sampling of Diptera using different methodologies and the majority was 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 the EnvMetaGen and PORBIOTA projects. The dataset “DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae” is part of a group of Diptera datasets published by IBI, the first of which, “The InBIO Barcoding Initiative Database: Diptera 01” ( https://doi.org/10.15468/q1bvt3) has already been made available through GBIF. DNA barcode sequences were deposited in BOLD (Barcode of Life Data System) and GenBank databases. All DNA extracts are deposited in the IBI collection at the CIBIO (Research Center in Biodiversity and Genetic Resources).
- purpose
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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
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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
-
Naturalis Biodiversity Center - Pjotr Oosterbroek (Associate staffmember)
Naturalis Biodiversity Center, Darwinweg 2
,Leiden
,South Holland
,2333 CR
,NETHERLANDS
- Dataset Creator
- Dataset Creator
-
CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Vanessa Alves Mata (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 - Luís P. da Silva (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 Sousa (Pos-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
-
Naturalis Biodiversity Center - Pjotr Oosterbroek (Research Associate)
aturalis Biodiversity Center, Darwinweg 2. Leiden, The Netherlands
,Leiden
,South Holland
,2333 CR
,NETHERLANDS
- Metadata Provider
- Metadata Provider
-
CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Vanessa Alves Mata (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 - Luís P. da Silva (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 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)
-
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Diptera
-
- Keywords (GBIF Dataset Subtype Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_subtype.xml)
-
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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)
-
-
Portugal
-
- Keywords (n/a)
-
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Azores
-
- Keywords (n/a)
-
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Madeira
-
- Keywords (n/a)
-
-
Craneflies
-
- Keywords (GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type_2015-07-10.xml)
-
-
Occurrence
-
Geographic Coverage
- Geographic Description
-
Continental Portugal, Autonomous Regions of the Azores and of Madeira.
Bounding Box
- West Bounding Coordinate
-
-25.51
- East Bounding Coordinate
-
-6.34
- North Bounding Coordinate
-
41.97
- South Bounding Coordinate
-
32.65
Temporal Coverage
Range of Dates
- Begin Date
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2003-09-08
- End Date
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2019-10-14
Taxonomic Coverage
- General Taxonomic Coverage
-
This dataset is composed of data relating to 412 Diptera specimens. All specimens were determined to species level except for seven specimens. Overall, 83 species are represented in the dataset. Two species have been further identified to subspecies level, Nephrotoma suturalis wulpiana (Bergroth, 1888) and Nephrotoma appendiculata pertenua Oosterbroek, 1978. These species belong to 31 genera unevenly distributed among three Craneflies families, Limoniidae (21 genera), Tipulidae (4 genera) and Pediciidae (2 genera). The families Limoniidae and Tipulidae account for a similar number of collected specimens, 197 and 211, respectively. However, Limoniidae has a higher proportion of recorded species, 45, when compared with Tipulidae, with 36 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
-
Superfamily
- Taxonomic Rank Value
-
Tipuloidea
Taxonomic Classification
- Taxonomic Rank Name
-
Family
- Taxonomic Rank Value
-
Limoniidae
Taxonomic Classification
- Taxonomic Rank Name
-
Family
- Taxonomic Rank Value
-
Pediciidae
Taxonomic Classification
- Taxonomic Rank Name
-
Family
- Taxonomic Rank Value
-
Tipulidae
License Information
- Intellectual Rights
-
This work is licensed under a
Creative Commons Attribution (CC-BY) 4.0 License
.
Distribution
Additional Metadata
Metadata
GBIF Metadata Block
- Date Stamp
-
2021-11-29T09:03:22Z
- Citation
-
Ferreira S, Oosterbroek P, Starý J, Alves Mata V, da Silva L P, Sousa P, Beja P (2021). The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae. CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal. Occurrence dataset https://doi.org/10.15468/f6256w accessed via GBIF.org on 2021-11-29.
- Bibliography
-
Ferreira, S., Oosterbroek, P., Starý, J., Sousa, P., Mata, V.A., da Silva, L.P., Paupério, J., Beja, P. (2021). The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae. Biodiversity Data Journal 9: e69841. https://doi.org/10.3897/BDJ.9.e69841
Oosterbroek, P., Starý, J., Andrade, R., Hancock, E.G. Ferreira, S. (2020). The Craneflies of continental Portugal (Diptera, Limoniidae, Pediciidae, Tipulidae) including 28 species new for Portugal. Boletín de la Asociación española de Entomología 44 (3-4): 317-358.
Starý, J. (2014). Some records of Limoniidae and Pediciidae (Diptera) from Portugal and Spain. Acta Musei Silesiae, Scientiae Naturales, 63(1): 83-95. https://doi.org/10.2478/cszma-2014-0010
- Collection
-
4ec2b246-f5fa-4b90-9a8d-ddafc2a3f970
InBIO Barcoding Initiative
- Speciment Preservation Method
-
ALCOHOL
- JGTI Curatorial Unit
-
Voucher tube
1
381
- JGTI Curatorial Unit
-
DNA extractions
1
412
Project
• Project
- Title
-
The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae
Personnel
Individual Name
- Given Name
-
Sónia
- Surname
-
Ferreira
- User ID
-
0000-0002-6884-3966
- Role
-
AUTHOR
Personnel
Individual Name
- Given Name
-
Pjotr
- Surname
-
Oosterbroek
- Role
-
AUTHOR
Personnel
Individual Name
- Given Name
-
Jaroslav
- Surname
-
Starý
- Role
-
AUTHOR
Personnel
Individual Name
- Given Name
-
Vanessa
- Surname
-
Alves Mata
- User ID
-
0000-0003-3005-9030
- Role
-
AUTHOR
Personnel
Individual Name
- Given Name
-
Luis
- Surname
-
Pascoal da Silva
- User ID
-
0000-0003-2358-1277
- 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
-
The InBIO Barcoding Initiative was 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). The fieldwork benefited from EDP Biodiversity Chair, the project “Promoção dos serviços de ecossistemas no Parque Natural Regional do Vale do Tua: Controlo de Pragas Agrícolas e Florestais por Morcegos” funded by the Agência de Desenvolvimento Regional do Vale do Tua, and includes research conducted at the Long Term Research Site of Baixo Sabor (LTER_EU_PT_002). LPdS and SF were supported by individual research contracts (CEECIND/02064/2017, 2020.03526.CEECIND) funded by FCT. JS was funded by the Ministry of Culture of the Czech Republic through institutional financing of long-term conceptual development of the Silesian Museum research institution (MK000100595).
Study Area Description
- Descriptor
-
Specimens were collected in 14 continental Portugal administrative districts and in the Azores and Madeira archipelagos. Eighty-three different localities were sampled. Collection occurred between 2003 and 2019, although most specimens were collected in 2018 (32%) and 2019 (50%).
Design Description
- Description
-
Specimens in this dataset were collected in field work carried out between 2003 and 2019, directed specifically for the sampling of Diptera using different methodologies. Specimens were morphologically identified and DNA barcoded.
Methods
• Method
Method Step
- Description
-
Specimens were collected in 83 different Portuguese localities. Field work was carried out between 2003 and 2019, with 82% of the records made in the years 2018 and 2019.
Method Step
- Description
-
Specimens were collected during fieldwork by direct search and individual netting of specimens, by sweeping the vegetation or were directly collected at light traps (using both UV and mercury vapor lights) and preserved in 96% alcohol. The majority of captured specimens were deposited in the IBI reference collection at CIBIO (Research Center in Biodiversity and Genetic Resources).
Method Step
- Description
-
All specimens were morphologically identified using the available literature except seven that were identified using the BOLD Identification Engine . For some specimens it was necessary to prepare and then exam their terminalia.
Method Step
- Description
-
All specimens were DNA barcoded. For these, one leg was removed from each individual, DNA was then extracted, and a 658 bp COI DNA barcode fragment was amplified and sequenced. All DNA extracts were deposited in the IBI collection.
Method Step
- Description
-
All sequences in the dataset were submitted to BOLD and GenBank databases and to each sequenced specimen the morphological identification was contrasted with the results of the BLAST of the newly generated DNA barcodes in BOLD Identification Engine.
Method Step
- Description
-
Prior submission to GBIF, data was checked for errors and inconsistencies with OpenRefine 3.4 ( http://openrefine.org/).
Sampling
- Study Extent
-
Portugal, including the Autonomous Regions of the Azores and of Madeira.
- Sampling Description
-
The studied material was collected in 83 different Portuguese localities. Sampling was conducted between 2003 and 2019, although 82% of the records were made in the years 2018 and 2019. Specimens were collected by direct search and individual netting of specimens, by sweeping the vegetation with a net or were directly collected at light traps, using both UV and mercury vapor lights. Captured specimens deposited in the IBI reference collection were preserved in 96% alcohol.
qualityControl
- Description
-
For all DNA barcoded specimens, their morphological identification was contrasted with the results of the Blast of the newly generated DNA barcodes in BOLD Identification Engine. Prior submission to GBIF, data was checked for errors and inconsistencies with OpenRefine 3.4 ( http://openrefine.org/).