説明
This dataset contains 659 occurrence records of vascular plants from the Trás-os-Montes region of northeastern Portugal, of which 647 were morphologically identified to the most specific taxon (species, subspecies or variety), comprising 448 species belonging to 69 families. The samples were collected as part of the Agrivole project, in collaboration with the InBIO Barcoding Initiative (IBI), to build a reference collection of DNA barcodes for the region. Vascular plants were collected from traditionally managed olive grove agroecosystems and their surrounding areas during August 2018, May–June 2019 and June 2020, herborized in situ and a leaf tissue sample was collected for DNA extraction. Specimens were identified and revised by experts in vascular plant taxonomy. Sequencing was carried out for three molecular markers, TrnL (gh and ef) and ITS2, and all obtained DNA sequences were submitted to BOLD (Barcode of Life Data System) and GenBank databases. Specimens are deposited in the herbarium of the Natural History and Science Museum of the University of Porto (MHNC-UP).
データ レコード
この sampling event リソース内のデータは、1 つまたは複数のデータ テーブルとして生物多様性データを共有するための標準化された形式であるダーウィン コア アーカイブ (DwC-A) として公開されています。 コア データ テーブルには、86 レコードが含まれています。
拡張データ テーブルは1 件存在しています。拡張レコードは、コアのレコードについての追加情報を提供するものです。 各拡張データ テーブル内のレコード数を以下に示します。
この IPT はデータをアーカイブし、データ リポジトリとして機能します。データとリソースのメタデータは、 ダウンロード セクションからダウンロードできます。 バージョン テーブルから公開可能な他のバージョンを閲覧でき、リソースに加えられた変更を知ることができます。
バージョン
次の表は、公にアクセス可能な公開バージョンのリソースのみ表示しています。
引用方法
研究者はこの研究内容を以下のように引用する必要があります。:
Queirós J, Silva R, Pinho C J, Vale-Gonçalves H, Pita R, Alves P C, Beja P, Paupério J, Porto M (2024). The InBIO Barcoding Initiative Database: contribution to the knowledge of DNA barcodes of the vascular plants of northeastern Portugal. Version 1.0. CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal. Samplingevent dataset. http://ipt.gbif.pt/ipt/resource?r=iblt_plants_portugal&v=1.0
権利
研究者は権利に関する下記ステートメントを尊重する必要があります。:
パブリッシャーとライセンス保持者権利者は CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal。 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.
GBIF登録
このリソースをはGBIF と登録されており GBIF UUID: 5d859845-6734-4a30-bd1c-9d278f0e0e40が割り当てられています。 GBIF Portugal によって承認されたデータ パブリッシャーとして GBIF に登録されているCIBIO (Research Center in Biodiversity and Genetic Resources) Portugal が、このリソースをパブリッシュしました。
キーワード
Vascular plants; habitats; inventories; Reference database; Trás-os-montes; Portugal; DNA barcoding
連絡先
- 最初のデータ採集者
- Project Coordinator
- Campus Agrário de Vairão
- 最初のデータ採集者
- Junior Researcher
- Campus Agrário de Vairão
- 最初のデータ採集者
- Plant taxonomist
- Campus Agrário de Vairão
- 最初のデータ採集者
- Senior Researcher
- Campus Agrário de Vairão
- 最初のデータ採集者
- Senior Researcher
- Campus Agrário de Vairão
- 最初のデータ採集者
- Project co-coordinator
- Herdade da Mitra
- 最初のデータ採集者
- Student
- Campus Agrário de Vairão
- メタデータ提供者 ●
- 最初のデータ採集者
- Technician
- Campus Agrário de Vairão
- メタデータ提供者
- Technician
- Quinta dos Prados
- データ利用者
- Researcher
- Campus Agrário de Vairão
- データ利用者
地理的範囲
The study was carried out in the Trás-os-Montes region, specifically in the districts of Bragança and Vila Real in northeastern Portugal.
| 座標（緯度経度） | 南 西 [41.336, -7.494], 北 東 [41.832, -6.615] |
|---|
生物分類学的範囲
A total of 659 specimens were collected, of which 647 were morphologically identified to the most specific taxon (species, subspecies or variety). This data set includes 448 species belonging to 69 families, 34 orders, 7 classes and 1 phylum.
| Kingdom | Plantae |
|---|---|
| Phylum | Tracheophyta |
| Class | Liliopsida, Lycopodiopsida, Magnoliopsida, Pinopsida, Polypodiopsida, Psilotopsida, Pteridopsida |
| Order | Apiales, Asparagales, Asterales, Boraginales, Brassicales, Caryophyllales, Cucurbitales, Dioscoreales, Dipsacales, Equisetales, Ericales, Fabales, Fagales, Gentianales, Geraniales, Isoetales, Lamiales, Malpighiales, Malvales, Myrtales, Ophioglossales, Pinales, Piperales, Poales, Polypodiales, Pteridales, Ranunculales, Rosales, Santalales, Sapindales, Saxifragales, Solanales, Zygophyllales |
| Family | Amaranthaceae, Amaryllidaceae, Anacardiaceae, Apiaceae, Aristolochiaceae, Asparagaceae, Aspleniaceae, Asteraceae, Boraginaceae, Brassicaceae, Campanulaceae, Cannabaceae, Caprifoliaceae, Caryophyllaceae, Cistaceae, Convolvulaceae, Crassulaceae, Cucurbitaceae, Cupressaceae, Cyperaceae, Cytinaceae, Dennstaedtiaceae, Dioscoreaceae, Equisetaceae, Ericaceae, Euphorbiaceae, Fabaceae, Fagaceae, Gentianaceae, Geraniaceae, Hypericaceae, Isoetaceae, Juglandaceae, Juncaceae, Lamiaceae, Linaceae, Lythraceae, Malvaceae, Montiaceae, Oleaceae, Onagraceae, Ophioglossaceae, Orchidaceae, Orobanchaceae, Paeoniaceae, Papaveraceae, Plantaginaceae, Plumbaginaceae, Poaceae, Polygalaceae, Polygonaceae, Portulacaceae, Primulaceae, Pteridaceae, Ranunculaceae, Resedaceae, Rosaceae, Rubiaceae, Rutaceae, Salicaceae, Santalaceae, Saxifragaceae, Scrophulariaceae, Solanaceae, Thymelaeaceae, Urticaceae, Verbenaceae, Violaceae, Zygophyllaceae |
時間的範囲
| 開始日 / 終了日 | 2018-02-08 / 2020-07-06 |
|---|
プロジェクトデータ
This dataset contains 659 occurrence records of vascular plants from the Trás-os-Montes region of northeastern Portugal, of which 647 were morphologically identified to the most specific taxon (species, subspecies or variety), comprising 448 species belonging to 69 families. The samples were collected as part of the Agrivole project, in collaboration with the InBIO Barcoding Initiative (IBI), to build a reference collection of DNA barcodes for the region. Vascular plants were collected from traditionally managed olive grove agroecosystems and their surrounding areas during August 2018, May–June 2019 and June 2020, herborized in situ and a leaf tissue sample was collected for DNA extraction.
| タイトル | The InBIO Barcoding Initiative Database: contribution to the knowledge of DNA barcodes of the vascular plants of northeastern Portugal |
|---|---|
| 識別子 | The InBIO Barcoding Initiative Databases |
| ファンデイング | This work was funded by the European Regional Development Fund (ERDF) through “Programa Operacional de Factores de Competitividade—COMPETE” and by national funds through FCT—Portuguese Foundation for Science and Technology, IP, under the scope of the project AGRIVOLE (PTDC/BIA- ECO/31728/2017). |
| Study Area Description | The region of Trás-os-Montes is located in the mountainous northeast of Portugal, comprising the districts of Vila Real and Bragança. |
| 研究の意図、目的、背景など（デザイン） | Vascular plants were collected from traditionally managed olive grove agroecosystems and surrounding areas in northeastern Portugal. Each distinct vascular plant species within each patch was collected, photographed and then herbarized in situ. These were then morphologically identified by experts and a portion of the leaf tissue was used to obtain DNA barcodes. |
プロジェクトに携わる要員:
- 論文著者
- 論文著者
- 論文著者
- 論文著者
- 論文著者
- 論文著者
- 論文著者
- 論文著者
- 論文著者
収集方法
Plant samples were collected in the northeast of Portugal from traditionally managed olive grove agroecosystems and their surrounding areas. Young olive groves were used as a central point from which a 50m buffer zone was drawn. Every distinct vascular plant species within each patch was collected, photographed, and then herbarised in situ with an assigned specimen number. A portion of leaf tissue was collected from each sample, placed in a paper envelope, and then stored in a zip-lock bag with silica gel until DNA extraction. To minimise contamination between samples, tweezers and scissors were systematically sterilised with 100% ethanol under flame. After morphological identification, all the specimens (vouchers) were deposited in the herbarium of the Natural History and Science Museum of the University of Porto (MHNC-UP) with the codes PO-V72113–PO-V72772.
| Study Extent | The data were collected in the Trás-os-Montes region (Northeast Portugal), in the municipalities of Aljó, Bragança, Vila Real, Macedo de Cavaleiros, Vila Flor and Vimioso. |
|---|---|
| Quality Control | Collected samples were identified and revised by experts in vascular plant taxonomy. The obtained DNA barcode sequences were compared against the GenBank and BOLD databases, and the top hits were examined to identify potential PCR/ sequencing errors, contaminations or misidentifications.item-0item-0 |
Method step description:
- 1. Vascular plants were collected in the northeast of Portugal in August 2018, May–June 2019 and June 2020, from traditionally managed olive grove agroecosystems and their surrounding areas. A leaf tissue sample was collected for DNA extraction. 2. Taxonomic identification was carried out, after herborisation, under a stereomicroscope, using mainly the dichotomous keys of Flora Iberica. For some specimens, it was necessary to consult other works namely in cases of possible hybrids, or in cases where the Flora Iberica has a different treatment of the taxon of interest. Whenever possible, the specimens were identified at the infraspecific level. 3. DNA extracts were obtained from collected leaf tissues and DNA barcodes were sequenced using Illumina protocols for two regions: the chloroplast trnL (UAA) intron region (markers e/ f: 147–540 bp and g/ h:10–143 bp) and the nuclear internal transcribed spacer 2 region, ITS2 (marker UniPlantF/ UniPlantR: 187–387 bp). 4. Sequences were submitted to BOLD and GenBank databases.
コレクションデータ
| コレクション名 | Plantas Vasculares - Herbário Português |
|---|---|
| コレクション識別子 | Herbário da Universidade do Porto |
| 標本保存方法 | Dried |
|---|
| Curatorialユニット | 範囲 72,113 ～ 72,772 sample |
|---|
追加のメタデータ
| 目的 | This dataset was generated as part of the Agrivole project, in collaboration with the InBIO Barcoding Initiative (IBI), which aimed to investigate the impact of small mammals, particularly voles, in local agroecosystems. The project aimed to explore the trophic niche of these small mammals through DNA metabarcoding analysis of their faeces using high throughput sequencing methods. This required a reliable plant DNA barcoding library for the region to accurately and precisely infer the dietary taxa consumed by each species, for which collaboration with IBI was crucial. Therefore, this database aims to provide a reference database of DNA barcodes of the vascular plants of the Trás-os-Montes region in northeastern Portugal. This library will facilitate the DNA-based identification of plant species for the Agrivole project and other DNA metabarcoding and traditional molecular studies. |
|---|---|
| メンテナンス内容 | This resource will be regularly checked for accuracy. |
| 代替識別子 | http://ipt.gbif.pt/ipt/resource?r=iblt_plants_portugal |