說明
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).
資料紀錄
此資源sampling event的資料已發佈為達爾文核心集檔案（DwC-A），其以一或多組資料表構成分享生物多樣性資料的標準格式。 核心資料表包含 86 筆紀錄。
亦存在 1 筆延伸集的資料表。延伸集中的紀錄補充核心集中紀錄的額外資訊。 每個延伸集資料表中資料筆數顯示如下。
此 IPT 存放資料以提供資料儲存庫服務。資料與資源的詮釋資料可由「下載」單元下載。「版本」表格列出此資源的其它公開版本，以便利追蹤其隨時間的變更。
版本
以下的表格只顯示可公開存取資源的已發布版本。
如何引用
研究者應依照以下指示引用此資源。:
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
權利
研究者應尊重以下權利聲明。:
此資料的發布者及權利單位為 CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal。 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.
GBIF 註冊
此資源已向GBIF註冊，並指定以下之GBIF UUID: 5d859845-6734-4a30-bd1c-9d278f0e0e40。 CIBIO (Research Center in Biodiversity and Genetic Resources) Portugal 發佈此資源，並經由GBIF Portugal同意向GBIF註冊成為資料發佈者。
關鍵字
Vascular plants; habitats; inventories; Reference database; Trás-os-montes; Portugal; DNA barcoding
聯絡資訊
- 出處
- Project Coordinator
- Campus Agrário de Vairão
- 出處
- Junior Researcher
- Campus Agrário de Vairão
- 出處
- Plant taxonomist
- Campus Agrário de Vairão
- 出處
- Senior Researcher
- Campus Agrário de Vairão
- 出處
- Senior Researcher
- Campus Agrário de Vairão
- 出處
- Project co-coordinator
- Herdade da Mitra
- 出處
- Student
- Campus Agrário de Vairão
- 元數據提供者 ●
- 出處
- Technician
- Campus Agrário de Vairão
- 元數據提供者
- Technician
- Quinta dos Prados
- 使用者
- Researcher
- Campus Agrário de Vairão
地理涵蓋範圍
The study was carried out in the Trás-os-Montes region, specifically in the districts of Bragança and Vila Real in northeastern Portugal.
| 界定座標範圍 | 緯度南界 經度西界 [41.336, -7.494], 緯度北界 經度東界 [41.832, -6.615] |
|---|
分類群涵蓋範圍
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 |
時間涵蓋範圍
| 起始日期 / 結束日期 | 2018-02-08 / 2020-07-06 |
|---|
計畫資料
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.
| 計畫名稱 | The InBIO Barcoding Initiative Database: contribution to the knowledge of DNA barcodes of the vascular plants of northeastern Portugal |
|---|---|
| 辨識碼 | The InBIO Barcoding Initiative Databases |
| 經費來源 | 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). |
| 研究區域描述 | The region of Trás-os-Montes is located in the mountainous northeast of Portugal, comprising the districts of Vila Real and Bragança. |
| 研究設計描述 | 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. |
參與計畫的人員:
- 作者
- 作者
- 作者
- 作者
- 作者
- 作者
- 作者
- 作者
- 作者
取樣方法
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.
| 研究範圍 | 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. |
|---|---|
| 品質控管 | 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 |
方法步驟描述:
- 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.
收藏資料
| 蒐藏名稱 | Plantas Vasculares - Herbário Português |
|---|---|
| 蒐藏編號 | Herbário da Universidade do Porto |
| 標本保存方法 | Dried |
|---|
| 管理單位 | 在...之間 72,113 和 72,772 sample |
|---|
額外的詮釋資料
| 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. |
|---|---|
| 維護說明 | This resource will be regularly checked for accuracy. |
| 替代的識別碼 | http://ipt.gbif.pt/ipt/resource?r=iblt_plants_portugal |