Sampling event

The rhizosphere microbiome of burned holm-oak: potential role of the genus Arthrobacter in the recovery of burned soils

Latest version published by Estación Experimental del Zaidín (CSIC) on 15 September 2022 Estación Experimental del Zaidín (CSIC)

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Description

Major bacterial agents in a Mediterranean holm-oak forest recovery after a fire

Data Records

The data in this sampling event 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 6 records.

1 extension data tables also exist. An extension record supplies extra information about a core record. The number of records in each extension data table is illustrated below.

Event (core)
6
Occurrence 
14712

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:

Fernández González A J (2022): The rhizosphere microbiome of burned holm-oak: potential role of the genus Arthrobacter in the recovery of burned soils. v1.3. Estación Experimental del Zaidín (CSIC). Dataset/Samplingevent. https://doi.org/10.15470/hhahsj

Rights

Researchers should respect the following rights statement:

The publisher and rights holder of this work is Estación Experimental del Zaidín (CSIC). 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: 90cc5e31-5b36-4814-abc6-205cb3beb92c.  Estación Experimental del Zaidín (CSIC) publishes this resource, and is itself registered in GBIF as a data publisher endorsed by GBIF Spain.

Keywords

Samplingevent; Samplingevent; Metadata; Arthrobacter

Contacts

Who created the resource:

Antonio José Fernández González
Posdoc
CSIC-Estación Experimental del Zaidín
Granda
ES

Who can answer questions about the resource:

Antonio José Fernández González
Posdoc
CSIC - Estación Experimental del Zaidín
Granada
ES
Manuel Fernández López
Tenured Scientist
CSIC - Estación Experimental del Zaidín
Granada
ES

Who filled in the metadata:

Antonio José Fernández González

Who else was associated with the resource:

User
Katia Cezón

Geographic Coverage

The soil samples were collected from Lanjarón, Sierra Nevada, Granada, Spain Undisturbed holm oak forest rhizosphere were collected at 1790 meters above sea level. Burned holm oak forest rhizosphere were collected at 1566 meters above sea level.

Bounding Coordinates South West [36.96, -3.46], North East [36.97, -3.46]

Taxonomic Coverage

No Description available

Domain Bacteria (Bacteria), Archaea (Archaea)

Temporal Coverage

Start Date 2008-04-24

Project Data

El cambio global es un hecho constatado e incuestionable. Además de los procesos de tipo industrial existen otros factores, como los incendios forestales, que también contribuyen al calentamiento global dada la alta emisión de CO2 que producen. Disminuir la concentración de CO2 atmosférico, evitar su incremento o ayudar a su acumulación en la materia orgánica del suelo, se puede ver beneficiado por un correcto manejo del monte mediterráneo. Una rápida re-vegetación o recuperación de las formaciones autóctonas como son los encinares y robledales (Quercus ilex sp. rotundifolia y Q. pyrenaica) pueden ayudar en este sentido. Conocer las posibles etapas de modificación de estos bosques, expansión o regresión, por efecto del cambio climático también es importante, sobre todo si podemos contribuir a la progresión y al establecimiento de una mayor superficie de bosque. Los microorganismos del suelo son los responsables del cierre del ciclo biogeoquímico del carbono, contribuyendo además a la fertilidad del suelo y a la promoción del crecimiento vegetal. Por tanto en este proyecto se propone, la identificación de microorganismos indicadores que nos permitan seguir la evolución de la recuperación después de un incendio, la transición robledal-encinar y la progresión del robledal, como medida del cambio climático. Para ello se proponen los siguientes objetivos específicos: i) Análisis del fingerprint genético mediante TGGE de la diversidad microbiana y la redundancia funcional de fijación de N2 en los suelos bajo robles maduros y en progresión en alturas superiores. ii) Construcción y análisis de metagenomas de los suelos de encinar y robledal. iii) Secuenciación masiva del ADN ambiental extraído de un encinar y de un robledal maduros para la identificación de bioindicadores. iv) Monitorización, a los 2 y 4 años, de la evolución del encinar quemado y del robledal en progresión en altura mediante el empleo de los bioindicadores seleccionados.

Title Project-1.- Análisis de la diversidad procariótica asociada a quercíneas (Quercus ilex y Q. pyrenaica) para la identificación de biomarcadores asociados a la evolución post-incendio y al cambio climático en Sierra Nevada. Project-2.- Identificación de bioindicadores microbianos en la rizosfera de quercíneas (Quercus ilex y Q. pyrenaica) asociados a cambio climático y evolución post-incendio. Project-3.- Adaptación y mejora de la resiliencia del monte mediterráneo frente al cambio climático y los incendios forestales mediante el manejo de microorganismos rizosféricos.
Identifier OAPN 021/2007; P08-CVI-03549; 20134R069, RECUPERA 2020.
Funding Department of Innovation, Science and Enterprise of the Autonomous Government of Andalusia; The National Parks Autonomous Body (Ministry of the Environment); the Spanish Ministry of Economy and Competitiveness; and CSIC, including ERDF (European Regional Development Fund).
Study Area Description Sierra Nevada Natural and National Park, Granada, Spain.

The personnel involved in the project:

Manuel Fernández López
Antonio José Fernández González
José Francisco Cobo-Díaz
Pablo José Villadas

Sampling Methods

Three sampling plots were randomly chosen within each study site along transects of 1.0 km length. At the BOF and UOF sites, we sampled the rhizosphere of three trees per plot, each with a diameter of at least 15 cm at breast height and separated by at least 5 m. Sampling took place on April 29, 2008 (3 years after the wildfire). Both sites were on a south-facing steep slope. The rhizospheric samples were collected from from holm oak rhizosphere soils by following the tree’s main roots until young cork-free roots were found at a distance of less than 50 cm from the trunk. The soil attached to the roots was manually removed and the roots with rhizospheric soil were put into 50 ml Falcon tubes filled with 20 ml of sterilized NaCl 0.8%. After shaking 25 min at 150 rpm and room temperature, the roots were removed and the tubes were centrifuged at 12,850 g for 5 min. The pelleted soil was used to extract environmental DNA. On the other hand, we processed up to 2 kg of soil from each site, sieved through a 2 mm mesh, for physicochemical analysis including soil type, pH, available water, total nitrogen, organic matter, electrical conductivity, etc. All these analyses were carried out with standardized procedures at the Food and Agriculture Laboratory of the Andalusian regional government at Atarfe (Granada, Spain).

Study Extent The study area is located in the Sierra Nevada Natural and National Park (SE Spain), where a wildfire in September 2005 burned 3426.74 ha, including 412 ha of evergreen holm oaks (Q. ilex subsp. ballota). Soil samples were collected in the valley of the Lanjarón River where two sites were selected: one in an area directly affected by the wildfire (burned forest containing holm oak trees [BOF]) and a nearby site in evergreen, undisturbed oak forest (UOF)
Quality Control In each treatment, 3 healthy trees were taken in 3 independent plots, with more than 1km distance between them to have a representative sample of each site. The DNA from the 3 trees in the same plot was mixed before sequencing to obtain a homogeneous composite sample from each plot. Finally, 3 composite replicates were obtained from each site, BOF as a burn treatment and UOF as a control treatment.

Method step description:

  1. The methodological steps were publised in detail in the paper entitled: The rhizosphere microbiome of burned holm-oak: potential role of the genus Arthrobacter in the recovery of burned soils. With DOI: https://doi.org/10.1038/s41598-017-06112-3

Collection Data

Collection Name Comunidades rizosféricas de las encinas de Lanjarón tomadas en 2008
Collection Identifier LJN08
Parent Collection Identifier No aplica

Additional Metadata

Alternative Identifiers 10.15470/hhahsj
90cc5e31-5b36-4814-abc6-205cb3beb92c
https://ipt.gbif.es/resource?r=zaidin-adn