The InBIO Barcoding Initiative Database: Portuguese Stick Insects (Phasmatodea)

The dataset contains 18 records of Stick insects (Phasmatodea) species collected from 2006 to 2019 in continental Portugal. All captured specimens were identified to species level, belonging to the two species of Phasmatodea present in Portugal.

Specimens were detected and captured by direct search of the environment. Captured specimens were preserved in 96% ethanol. From each specimen one leg (tissue sample) was removed to be used for DNA extraction. Preserved specimens and DNA extracts are deposited in the InBIO Barcoding Initiative (IBI) collection at the CIBIO (Research Center in Biodiversity and Genetic Resources).

Samples of each species were selected for DNA sequencing based on geographic provenance of the corresponding specimen. Sequencing of the 658 bp DNA barcodes was conducted within the InBIO Barcoding Initiative (IBI) and all DNA sequences were submitted to BOLD (Barcode of Life Data System) and GenBank databases.

Default

Identification

Alternate Identifier

9c95b714-d716-408e-a893-860254c0a706

Publication Date
2020-07-08
Title

The InBIO Barcoding Initiative Database: Portuguese Stick Insects (Phasmatodea)

Abstract

The dataset contains 18 records of Stick insects (Phasmatodea) species collected from 2006 to 2019 in continental Portugal. All captured specimens were identified to species level, belonging to the two species of Phasmatodea present in Portugal.

Specimens were detected and captured by direct search of the environment. Captured specimens were preserved in 96% ethanol. From each specimen one leg (tissue sample) was removed to be used for DNA extraction. Preserved specimens and DNA extracts are deposited in the InBIO Barcoding Initiative (IBI) collection at the CIBIO (Research Center in Biodiversity and Genetic Resources).

Samples of each species were selected for DNA sequencing based on geographic provenance of the corresponding specimen. Sequencing of the 658 bp DNA barcodes was conducted within the InBIO Barcoding Initiative (IBI) and all DNA sequences were submitted to BOLD (Barcode of Life Data System) and GenBank databases.

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 - Daniel Oliveira (Master’s Student)

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 - Sónia Ferreira (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 (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
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
  CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto - Pedro Sousa (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 - 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 (n/a)

  • Phasmatodea

Keywords (n/a)

  • Stick insect

Keywords (n/a)

  • Species

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

  • Occurrence

Keywords (n/a)

  • Cytochrome c oxidase I (COI)

Keywords (n/a)

  • DNA barcode

Keywords (n/a)

  • Continental Portugal

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

  • Specimen

Geographic Coverage

Geographic Description

Continental Portugal.

Bounding Box

West Bounding Coordinate

-8.9

East Bounding Coordinate

-6.9

North Bounding Coordinate

42

South Bounding Coordinate

38

Temporal Coverage

Range of Dates

Begin Date

2006-07-22

End Date

2019-05-26

Taxonomic Coverage

General Taxonomic Coverage

This dataset is composed of data relating to 18 Phasmatodea specimens belonging to the two species present in Portugal, Leptynia attenuata and Clonopsis gallica. These species belong to two different families, Diapheromeridae and Bacillidae, respectively.

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

Phasmatodea

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Diapheromeridae

Taxonomic Classification

Taxonomic Rank Name

Family

Taxonomic Rank Value

Bacillidae

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
 

Additional Metadata

Metadata

GBIF Metadata Block

Date Stamp

2021-11-29T09:08:25Z

Citation

Oliveira D, Ferreira S, Sousa P, Beja P (2020). The InBIO Barcoding Initiative Database: Portuguese Stick Insects (Phasmatodea). Version 1.4. CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal. Occurrence dataset https://doi.org/10.15468/wppjdk accessed via GBIF.org on 2021-11-29.

Bibliography

Scali, V., Milani, L. and Passamonti, M. (2012) ‘Revision of the stick insect genus Leptynia: Description of new taxa, speciation mechanism and phylogeography’, Contributions to Zoology, 81(1), pp. 25–42. doi: 10.1163/18759866-08101002.

Scali, V., Milani, L. and Passamonti, M. (2013) ‘Description and ecology of new Pijnackeria stick insects: Four bisexual species and a triploid parthenogen with their phyletic relationships’, Journal of Zoological Systematics and Evolutionary Research, 51(3), pp. 213–226. doi: 10.1111/jzs.12018.

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

CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal

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

InBIO Barcoding Initiative

Speciment Preservation Method

ALCOHOL

JGTI Curatorial Unit

Voucher tube

1

18

JGTI Curatorial Unit

DNA extractions

1

18

 

Project

• Project

Title

The InBIO Barcoding Initiative Database: Portuguese Stick Insects (Phasmatodea)

Personnel

Individual Name

Given Name

Pedro

Surname

Beja

User ID

0000-0001-8164-0760

Role

AUTHOR

Personnel

Individual Name

Given Name

Daniel

Surname

Oliveira

User ID

0000-0002-8733-4104

Role

AUTHOR

Personnel

Individual Name

Given Name

Sónia

Surname

Ferreira

User ID

0000-0002-6884-3966

Role

AUTHOR

Personnel

Individual Name

Given Name

Pedro

Surname

Sousa

User ID

0000-0002-5859-9656

Role

ORIGINATOR

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

InBIO Barcoding Initiative 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). 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).

Study Area Description

Descriptor

Specimens were captured throughout Portugal from 2006 to 2019 in ten different localities distributed across five districts.

Design Description

Description

The specimens in this dataset were collected in field work incursions carried out between 2006 and 2019, encompassing several sites throughout Portugal. Specimens of Phasmatodea were detected by direct search of vegetation.

 
 

Methods

• Method

Method Step

Description

Specimens of Phasmatodea were captured in continental Portugal from 2006 and 2019 by direct search of vegetation. Collected specimens were preserved in 96% ethanol prior to storage.

Method Step

Description

The specimens were morphologically identified resorting to available literature (Scali, Milani and Passamonti, 2012, 2013).

Method Step

Description

Six specimens from each species (or all specimens, when less than six available) were selected for DNA extraction and sequencing, based on geographical location. For this, one leg was removed from each individual from which a 658 bp COI DNA barcode fragment was extracted, amplified and sequenced.

Method Step

Description

All obtained sequences 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 3.2 ( http://openrefine.org/).

Sampling

Study Extent

Specimens of Phasmatodea were captured in ten sites distributed across the country, despite a concentration of records in the NE regions. Sampling was conducted from 2006 to 2019, in several field work expeditions.

Sampling Description

Specimens were captured from 2006 to 2019 by direct search of ten sampling sites in continental Portugal. Captured insects were preserved in 96% ethanol and stored at the InBIO Barcoding Initiative reference collection.

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