Descripción
Amplicon sequencing dataset (454 pyrosequencing) of Bacteria and Archaea (16S ssu rRNA gene) in three sets of environmentally distinct soil samples on King George Island (Antarctica)
Versiones
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¿Cómo referenciar?
Los usuarios deben citar este trabajo de la siguiente manera:
Pershina E, Ivanova E, Abakumov E, Andronova E (2019): Bacteria and Archaea in different soil types on King George Island (South Shetland Islands, Antarctica). v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=bacteria_and_archaea_in_different_king_george_island_soils&v=1.1
Derechos
Los usuarios deben respetar los siguientes derechos de uso:
El publicador y propietario de los derechos de este trabajo es SCAR - Microbial Antarctic Resource System. Esta obra está bajo una licencia Creative Commons de Atribución/Reconocimiento (CC-BY 4.0).
Registro GBIF
Este recurso ha sido registrado en GBIF con el siguiente UUID: 84d7d83b-94d2-4d44-a541-2c9e51e0f972. SCAR - Microbial Antarctic Resource System publica este recurso y está registrado en GBIF como un publicador de datos avalado por Scientific Committee on Antarctic Research.
Palabras clave
Metadata
Contactos
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Cobertura geográfica
King George Island (Southern Shetland Islands:Antarctica)
| Coordenadas límite | Latitud Mínima Longitud Mínima [-62,276, -59,032], Latitud Máxima Longitud Máxima [-62,113, -58,938] |
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Cobertura taxonómica
Bacteria and Archaea (16S ssu rRNA gene, v4 region)
| Dominio | Bacteria (Bacteria), Archaea (Archaea) |
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Cobertura temporal
| Fecha Inicial / Fecha Final | 2016-01-22 / 2016-02-02 |
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Datos del proyecto
No hay descripción disponible
| Título | Soil biota dynamics in chronoseries of post-technogenic landscapes: analyses of soil ecological effectiveness of ecosystems restoration |
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| Fuentes de Financiación | This work was supported by the Russian Scientific Foundation projects 17-16-01030, ‘Soil biota dynamics in chronoseries of post-technogenic landscapes: analyses of soil ecological effectiveness of ecosystems restoration’ (soil sampling, agrochemical analysis, preparation of the manuscript), and 14-26-00094 P, ‘Analysis of the soil microbiomes’ genetic and evolutionary potential for increasing plant productivity and soil fertility’ (molecular analysis, pyrosequencing, bioinformatics). |
Personas asociadas al proyecto:
Métodos de muestreo
Soil samples (50 g) were collected from five points at each site by the ‘envelope method’ (four points in the corners of the square and one in the centre). All samples were homogenized, and five subsamples of 0.2 g each were used for the DNA extractions.
| Área de Estudio | Soils samples were taken from King George Island (Fildes Peninsula) and Nelson Island during the 61st Russian Antarctic expedition in 2016. |
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Descripción de la metodología paso a paso:
- Following the manufacturer’s instructions, DNA was extracted from the 0.2 g soil samples using the PowerSoil DNA Isolation Kit (Mobio Laboratories, Solana Beach, CA, USA), which included a bead-beating step. The samples were homogenized twice using a Precellys 24 tissue homogenizer (Bertin Corp, USA) for 30 s at 6.5 m s-1. The purity and quantity of the DNA were tested by electrophoresis in 0.5 × TAE buffer on 1% agarose gels. DNA concentrations were measured at 260nm using a SPECTROStar Nano microplate reader (BMG Labtech, Ortenberg, Germany). The average DNA yield was 2–5 μg at concentrations of 10–50 ng μL-1. The purified DNA templates were amplified with the universal multiplex primers F515 5′-GTGCCAGCMGCCGCGGTAA-3′ and R806 5′-GGACTACVSGGGTATCTAAT-3′ (Bates et al. 2011), which target the variable V4 region of bacterial and archaeal 16S rRNA genes. Each multiplex primer contained the adapter, a 4 bp key (TCAG), a 10 bp barcode, and the primer sequences. The amplified product was expected to be 400 bp long. The purification, pooling and pyrosequencing of the amplicons were performed with specified reagents according to the manufacturer’s instructions (Roche, Branford, USA). Pyrosequencing was performed with a Roche 454 GS Junior system in the Core Centrum ‘Genomic Technologies, Proteomics and Cell Biology’ (All-Russia Research Institute for Agricultural Microbiology).
Referencias bibliográficas
- Pershina, E. V., Ivanova, E. A., Abakumov, E. V., & Andronov, E. E. (2018). The impacts of deglaciation and human activity on the taxonomic structure of prokaryotic communities in Antarctic soils on King George Island. Antarctic Science, 30(5), 278-288.
Metadatos adicionales
| Identificadores alternativos | 84d7d83b-94d2-4d44-a541-2c9e51e0f972 |
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| https://ipt.biodiversity.aq/resource?r=bacteria_and_archaea_in_different_king_george_island_soils |