Corresponding author: Sonia Ferreira (
Academic editor: Ben Price
The use of DNA barcoding allows unprecedented advances in biodiversity assessments and monitoring schemes of freshwater ecosystems; nevertheless, it requires the construction of comprehensive reference collections of DNA sequences that represent the existing biodiversity.
The InBIO Barcoding Initiative Database: contribution to the knowledge on DNA barcodes of Iberian
The species represented in this dataset correspond to an addition to public databases of 17 species and 21 BINs. Fifty-eight specimens were collected in Portugal and 18 in Spain during the period of 2004 to 2018. All specimens are deposited in the IBI collection at CIBIO, Research Center in Biodiversity and Genetic Resources and their DNA barcodes are publicly available in the Barcode of Life Data System (BOLD) online database. The distribution dataset can be freely accessed through the Global Biodiversity Information Facility (GBIF).
In freshwater ecosystems, biodiversity assessments and monitoring schemes often require the identification of aquatic insect species (e.g.
A total of 3718
The InBIO Barcoding Initiative Database: contribution to the knowledge on DNA barcodes of Iberian
This dataset aims to provide a first contribution to an authoritative DNA barcode sequences library for Iberian
A total of 71 specimens of
The name “The InBIO Barcoding Initiative Database: contribution to the knowledge on DNA barcodes of Iberian
Pedro Beja (project coordinator), Nuno Fonseca (project chair), Sónia Ferreira (taxonomist and IBI manager), Joana Paupério (IBI manager), Pedro Sousa (project technician), Filipa MS Martins (PhD student), Joana Veríssimo (PhD student), all affiliated to CIBIO-InBIO and Jose Manuel Tierno de Figueroa (taxonomist), Department of Zoology, University of Granada.
Iberian Peninsula (Fig.
Iberian Peninsula.
The studied material was collected in 40 different localities from the Iberian Peninsula (Suppl. materials
DNA extraction and sequencing followed the general pipeline used in the InBIO Barcoding Initiative (
All DNA barcodes sequences were compared against the BOLD database and the 99 top hits were inspected in order to detect possible issues due to contamination or misidentifications. Prior submission to GBIF, data were checked for errors and inconsistencies with OpenRefine 3.2 (
Specimens were collected in 40 different localities of the Iberian Peninsula. Sampling was conducted from 2004 to 2018 and consisted of direct search of specimens on rocks and vegetation of streams and river margins and in the use of entomological nets to intercept specimens in flight. Specimens collected were stored in 96% ethanol. A tissue sample (leg) was removed, from which DNA was extracted and the COI DNA barcode fragment was sequenced. Data generated were submitted to BOLD, GenBank and GBIF.
Iberian Peninsula
35.97 and 43.99 Latitude; 9.55 and 3.34 Longitude.
This dataset is composed of data relating to 71
Rank | Scientific Name | Common Name |
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kingdom |
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Animals |
phylum |
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Arthropods |
class |
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Insects |
order |
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Stoneflies |
family |
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family |
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family |
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family |
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family |
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family |
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family |
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The sampled material was collected in the period from 22 June 2004 to 19 May 2018
InBIO Barcoding Initiative
4ec2b246-f5fa-4b90-9a8d-ddafc2a3f970
“Alcohol”
Voucher tube - 1 to 71, DNA extractions - 1 to 71
Creative Commons Public Domain Waiver (CC-Zero)
The InBIO Barcoding Initiative Database: contribution to the knowledge on DNA barcodes of Iberian
1
DS-IBIPP01 IBI-
dwc, xml, tsv, fasta
The InBIO Barcoding Initiative Database: contribution to the knowledge on DNA barcodes of Iberian
The InBIO Barcoding Initiative will continue sequencing Iberian
It should be noted that, as the BOLD database is not compliant with the Darwin Core Standard format, the Darwin Core formatted file (dwc) that can be downloaded from BOLD is not strictly Darwin Core formatted. For a proper Darwin Core formatted file, see
All data are available in the BioStudies database (
Column label | Column description |
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processid | Unique identifier for the sample |
sampleid | Identifier for the sample being sequenced, i.e. IBI catalogue number at Cibio-InBIO, Porto University. Often identical to the "Field ID" or "Museum ID" |
recordID | Identifier for specimen assigned in the field |
catalognum | Catalogue number |
fieldnum | Field number |
institution_storing | The full name of the institution that has physical possession of the voucher specimen |
bin_uri | Barcode Index Number system identifier |
phylum_taxID | Phylum taxonomic numeric code |
phylum_name | Phylum name |
class_taxID | Class taxonomic numeric code |
class_name | Class name |
order_taxID | Order taxonomic numeric code |
order_name | Order name |
family_taxID | Family taxonomic numeric code |
family_name | Family name |
subfamily_taxID | Subfamily taxonomic numeric code |
subfamily_name | Subfamily name |
genus_taxID | Genus taxonomic numeric code |
genus_name | Genus name |
species_taxID | Species taxonomic numeric code |
species_name | Species name |
identification_provided_by | Full name of primary individual who assigned the specimen to a taxonomic group |
identification_method | The method used to identify the specimen |
voucher_status | Status of the specimen in an accessioning process (BOLD controlled vocabulary) |
tissue_type | A brief description of the type of tissue or material analysed |
collectors | The full or abbreviated names of the individuals or team responsible for collecting the sample in the field |
lifestage | The age class or life stage of the specimen at the time of sampling |
sex | The sex of the specimen |
lat | The geographical latitude (in decimal degrees) of the geographic centre of a location |
lon | The geographical longitude (in decimal degrees) of the geographic centre of a location |
elev | Elevation of sampling site (in metres above sea level) |
country | The full, unabbreviated name of the country where the organism was collected |
province_state | The full, unabbreviated name of the province ("Distrito" in Portugal) where the organism was collected |
region | The full, unabbreviated name of the municipality ("Concelho" in Portugal) where the organism was collected |
exactsite | Additional name/text description regarding the exact location of the collection site relative to a geographic relevant landmark |
This project has received funding from 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 the research conducted at the Long Term Research Site of Baixo Sabor, (LTER_EU_PT_002). FMSM was supported by FCT PhD grant SFRH/BD/104703/2014 and JV by FCT PhD grant SFRH/BD/133159/2017.
Map of the localities where
List of species that were collected and DNA barcoded within this project. " Indicate species new to BOLD database and * new BINs in BOLD database.
Family | Species | IBI code | BOLD code | BOLD BIN | GenBank | BOLD BIN |
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INV00770 |
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INV02034 |
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INV02035 |
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INV02036 |
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INV03768 |
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INV03770 |
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INV06355 |
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INV00467 |
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INV03933 |
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INV03934 |
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INV06330 |
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INV06354 |
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INV06359 |
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INV06360 |
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INV03771 |
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INV03775 |
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INV03718 |
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INV02033 |
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INV03720 |
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INV02025 |
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INV02026 |
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INV03719 |
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INV00350 |
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INV00405 |
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INV02875 |
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INV02926 |
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INV06379 |
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INV00773 |
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INV00367 |
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INV00368 |
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INV00389 |
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INV00392 |
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INV00345 |
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INV00382 |
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INV00385 |
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INV00454 |
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INV04847 |
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INV06416 |
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INV00404 |
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INV02028 |
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INV02031 |
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INV02032 |
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INV02021 |
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INV00640 |
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INV00677 |
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INV00688 |
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INV00764 |
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INV05226 |
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INV04280 |
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INV04281 |
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INV00344 |
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INV00355 |
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INV00358 |
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INV00507 |
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INV00766 |
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INV02925 |
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INV00828 |
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INV00850 |
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INV00183 |
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INV00479 |
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INV00500 |
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INV00548 |
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INV00767 |
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INV00768 |
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INV03931 |
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INV03932 |
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INV04831 |
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INV07241 |
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INV03772 |
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INV04837 |
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INV03773 |
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IBI-
Record information - specimen data
The file includes information about all records in BOLD for the IBI-
File: oo_417920.txt
IBI-
Record information - specimen data in Darwin Core Standard format
The file includes information about all records in BOLD for the IBI-
File: oo_417919.txt
IBI-
Genomic data, DNA sequences
COI sequences in fasta format. Each sequence is identified by the BOLD ProcessID, species name, marker and GenBank accession number, separated by pipe. The data are as downloaded from BOLD.
File: oo_417901.fas