說明
Bacterial and fungal ASVs (Amplicon Sequence Variant) that inhabit the rhizosphere soil and root endosphere of Pinus sylvestris trees affected by forest decline and asymptomatic individuals. Trees are located in the National Park of Sierra Nevada, Natural Park of Sierra de Baza, and Natural Park of Sierras de Almijara, Tejeda y Alhama (Granada, Southeast Spain). Furthermore, the physico-chemical properties of the soil close to the roots of each tree are included.
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 192 筆紀錄。
亦存在 2 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。:
Lasa A V, Pérez-Luque A J, Fernández López M (2024). Root-associated microbiota of decline-affected and asymptomatic Pinus sylvestris trees. Version 2.0. Estación Experimental del Zaidín (CSIC). Samplingevent dataset. https://doi.org/10.15470/dardca
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 Estación Experimental del Zaidín (CSIC)。 This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC 4.0) License.
GBIF 註冊
此資源已向GBIF註冊，並指定以下之GBIF UUID: 1826d3c2-9e33-43e8-afaa-450b7d6e2b9b。 Estación Experimental del Zaidín (CSIC) 發佈此資源，並經由GBIF Spain同意向GBIF註冊成為資料發佈者。
關鍵字
Samplingevent; Pinus sylvestris; drought; bacteria; fungi; genotype; bacterial ecology
聯絡資訊
- 出處 ●
- 使用者 ●
- 連絡人
- Postdoctoral Researcher
- Profesor Albareda 1
https://orcid.org/0000-0003-3783-7157
- 出處 ●
- 連絡人
- Postdoctoral Researcher
- Ctra. de la Coruña, 7.5
- 出處 ●
- 連絡人
- Tenured Scientist
- Profesor Albareda 1
地理涵蓋範圍
Three mountainous protected areas in Andalusia (southeast Spain): Sierras de Tejeda, Almijara y Alhama; Sierra de Baza, and Sierra Nevada. Several Pinus sylvestris stands (asymptomatic and decline affected pines) were selected.
| 界定座標範圍 | 緯度南界 經度西界 [36.875, -3.924], 緯度北界 經度東界 [37.287, -2.706] |
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分類群涵蓋範圍
All bacterial and fungal ASV were classified at Kingdom, Phylum, Class, Order, Family and Genus level where possible.
時間涵蓋範圍
| 起始日期 / 結束日期 | 2022-04-20 / 2022-05-11 |
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計畫資料
The project SUMHAL aims at implementing a strategy for biodiversity conservation in the Mediterranean area by setting a technologically efficient and scientifically robust system. The project combines fieldwork and virtual research environments for the recording, storing, analysis, and dissemination of the conservation status and threats of biodiversity in Andalusia (Southern Spain)
| 計畫名稱 | Sustainability for Mediterranean Hotspots in Andalusia integrating LifeWatch ERIC (SUMHAL). Working package 7: Improving sustainability of Mediterranean forests and silvopastoral agrosystems under climate change |
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| 辨識碼 | LIFEWATCH-2019-09-CSIC-4, POPE 2014-2020 |
| 經費來源 | This study was funded by MICINN through European Regional Development Fund [SUMHAL, LIFEWATCH-2019-09-CSIC-4, POPE 2014-2020] and by the Spanish Ministry of Economy, Industry and Competitiveness [AGL2015-66048-C2-1-R; RTI2018-098015-B-I00]. To be referred from 2023 onwards as SUMHAL, LIFEWATCH-2019-09-CSIC-4, POPE 2014-2020. |
| 研究區域描述 | Three mountainous areas were studied in this work, where Pinus sylvestris stands were located, in Andalusia (Spain). Sierra Nevada, where Pinus sylvestris stands affected by forest decline were located (Collado del Pino, Solana de Benabre, municipal district of Lanteira, 1949 meters above sea level) and also non-affected forest (Puerto de la Ragua, municipal district of Aldeire, 1852 meters above sea level). Sierra de Alhama, Tejeda y Almijara, were just asymptomatic individuals were found (municipal district of Alhama de Granada, 1545 meters above sea level), and Sierra de Baza, where just decline-affected P. sylvestris trees were found (municipal district of Caniles, 1587 meters above sea level) |
| 研究設計描述 | Our main goal was to gain more insights into the diversity, structure and taxonomic composition of the microbiota (fungi and bacteria) associated to the roots of decline-affected and asymptomatic Pinus sylvestris trees in three different mountainous areas of Andalusia, Spain. We hypothesized that the structure and taxonomical profiles of root-associated microbiota depended on the status of the trees. |
取樣方法
In each experimental area, rhizosphere soil samples and young roots were collected from the same tree, and processed in parallel as described below. Thus, after sample processing, for each of the 12 replicates rhizosphere and root endosphere microbial communities came from the same tree, obtaining 96 bacterial and 96 fungal samples (12 x ASH, 12 x BSD, 12 x NSH, 12 x NSD x 2 plant compartments). After the sequencing data processing, four samples were removed from the analysis due to the low quality of the sequencing reads or due to the inadequate number of quality reads.
| 研究範圍 | Three mountainous regions were selected for sample collection: Sierra de Almijara, Sierra Nevada and Sierra the Baza, all of them located in Granada (Andalusia, southeast Spain). In Sierra de Almijara, 12 unaffected P. sylvestris trees were chosen and marked (ASH01-12), while just decline-affected Scots pines were found in Sierra de Baza, and 12 individuals were also selected (BSD01-12). In contrast, 12 asymptomatic and 12 affected P. sylvestris trees were considered for the analyses in Sierra Nevada, which were named NSH and NSD, respectively. Those trees showing stunted growth, yellowing of the crown and/or defoliation were classified as symptomatic. All the samplings were performed in spring of 2022. |
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方法步驟描述:
- At a distance of less than 50 cm from the trunk of the trees, the topsoil (25-50 cm) was removed by digging. Then, the main roots of the selected tree were followed until young poorly suberized roots were found. The soil closely adhered to these roots was collected by rubbing them manually (rhizosphere soil samples). Furthermore, the roots were also collected and kept at 4ºC along with rhizosphere samples until they were processed in the laboratory. It should be marked that two samples of rhizosphere soil and roots were taken from two different parts of the same root system of each tree (2 x 48 trees). Roots were surface esterilized as described Lasa and co-workers (2024; https://doi.org/10.1016/j.scitotenv.2024.171858). Then, total DNA from rhizosphere soil and sterilized roots was extracted by using the DNeasy® PowerSoil® Pro and DNeasy® Plant Pro Kits (Qiagen; Hilden, Germany), respectively, following the manufacturer's instructions.The hypervariable regions V3-V4 of the bacterial 16 rRNA gene and the fungal ITS2 were sequenced following a 2 × 275 PE strategy at the genomics service of the Institute of Parasitology and Biomedicine López-Neyra (CSIC; Granada, Spain). Sequencing reads were processed in R by using the packages and functions, and the methods described in Lasa et al., (2024). Lasa, A.V., et al. (2024) Mediterranean pine forest decline: A matter of root-associated microbiota and climate change. Science of the Total Environment 926, 171858. https://doi.org/10.1016/j.scitotenv.2024.171858
引用文獻
- Lasa, A.V.; Fernández-González, A.J.; Villadas, P.J.; Mercado-Blanco, J.; Pérez-Luque, A.J.; Fernández-López, M. Mediterranean pine forest decline: a matter of root-associated microbiota and climate change. Science of The Total Environment 926: 171858 https://doi.org/10.1016/j.scitotenv.2024.171858
額外的詮釋資料
| 替代的識別碼 | 10.15470/dardca |
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| https://ipt.gbif.es/resource?r=psylvestris_microbiota |