Description
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.
Data Records
The data in this occurrence resource has been published as a Darwin Core Archive (DwC-A), which is a standardized format for sharing biodiversity data as a set of one or more data tables. The core data table contains 18 records.
This IPT archives the data and thus serves as the data repository. The data and resource metadata are available for download in the downloads section. The versions table lists other versions of the resource that have been made publicly available and allows tracking changes made to the resource over time.
Versions
The table below shows only published versions of the resource that are publicly accessible.
How to cite
Researchers should cite this work as follows:
Oliveira D, Ferreira S, Sousa P, Beja P (2020): The InBIO Barcoding Initiative Database: Portuguese Stick Insects (Phasmatodea). v1.4. CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal. Occurrence dataset https://doi.org/10.15468/wppjdk
Rights
Researchers should respect the following rights statement:
The publisher and rights holder of this work is CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal. This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.
GBIF Registration
This resource has been registered with GBIF, and assigned the following GBIF UUID: 9c95b714-d716-408e-a893-860254c0a706. CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal publishes this resource, and is itself registered in GBIF as a data publisher endorsed by GBIF Portugal.
Keywords
Phasmatodea; Stick insect; Species; Occurrence; Cytochrome c oxidase I (COI); DNA barcode; Continental Portugal; Specimen
Contacts
- Metadata Provider ●
- Originator
- Master’s Student
- Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7
http://orcid.org/0000-0002-8733-4104
- Metadata Provider ●
- Originator ●
- Point Of Contact
- Post-Doc Researcher
- Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7
- +351 252660411
- Metadata Provider
- Post-Doc Researcher
- Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7
- +351 252660411
- Metadata Provider ●
- Originator ●
- Point Of Contact
- Coordinating Researcher
- Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7
- +351 252660411
- Metadata Provider
- Coordinating Researcher
- Campus Agrário de Vairão, Rua Padre Armando Quintas, nº 7
- +351 252660411
Geographic Coverage
Continental Portugal.
| Bounding Coordinates | South West [38, -8.9], North East [42, -6.9] |
|---|
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.
| Kingdom | Animalia |
|---|---|
| Phylum | Arthropoda |
| Class | Insecta |
| Order | Phasmatodea |
| Family | Diapheromeridae, Bacillidae |
Temporal Coverage
| Start Date / End Date | 2006-07-22 / 2019-05-26 |
|---|
Project Data
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.
| Title | The InBIO Barcoding Initiative Database: Portuguese Stick Insects (Phasmatodea) |
|---|---|
| Identifier | InBIO Barcoding Initiative |
| 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 | Specimens were captured throughout Portugal from 2006 to 2019 in ten different localities distributed across five districts. |
| Design 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. |
The personnel involved in the project:
Sampling Methods
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.
| 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. |
|---|---|
| Quality Control | 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/). |
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.
- The specimens were morphologically identified resorting to available literature (Scali, Milani and Passamonti, 2012, 2013).
- 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.
- 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.
- Prior submission to GBIF, data was checked for errors and inconsistencies with OpenRefine 3.2 (http://openrefine.org/).
Collection Data
| Collection Name | InBIO Barcoding Initiative |
|---|---|
| Collection Identifier | 4ec2b246-f5fa-4b90-9a8d-ddafc2a3f970 |
| Parent Collection Identifier | CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal |
| Specimen preservation methods | Alcohol |
|---|
| Curatorial Units | Between 1 and 18 Voucher tube , Between 1 and 18 DNA extractions |
|---|
Bibliographic Citations
- 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. 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. doi: 10.1111/jzs.12018.
Additional Metadata
| 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. |
|---|---|
| Alternative Identifiers | 9c95b714-d716-408e-a893-860254c0a706 |
| http://ipt.gbif.pt/ipt/resource?r=ibi_phasmatodea |