Bacteria and Archaea in different soil types on King George Island (South Shetland Islands, Antarctica)

Versão mais recente publicado por SCAR - Microbial Antarctic Resource System em Mar 19, 2019 SCAR - Microbial Antarctic Resource System

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)

Downloads

Baixe a versão mais recente dos metadados como EML ou RTF:

Metadados como um arquivo EML download em English (10 KB)
Metadados como um arquivo RTF download em English (9 KB)

Versões

A tabela abaixo mostra apenas versões de recursos que são publicamente acessíveis.

Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

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

Direitos

Pesquisadores devem respeitar a seguinte declaração de direitos:

O editor e o detentor dos direitos deste trabalho é SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

GBIF Registration

Este recurso foi registrado no GBIF e atribuído ao seguinte GBIF UUID: 84d7d83b-94d2-4d44-a541-2c9e51e0f972.  SCAR - Microbial Antarctic Resource System publica este recurso, e está registrado no GBIF como um publicador de dados aprovado por Scientific Committee on Antarctic Research.

Palavras-chave

Metadata

Contatos

Quem criou esse recurso:

E. Pershina
All-Russia Research Institute for Agricultural Microbiology St. Petersburg RU
E. Ivanova
All-Russia Research Institute for Agricultural Microbiology St. Petersburg RU
E. Abakumov
St. Petersburg State University St. Petersburg RU
E. Andronova
All-Russia Research Institute for Agricultural Microbiology St. Petersburg RU

Quem pode responder a perguntas sobre o recurso:

E. Pershina
All-Russia Research Institute for Agricultural Microbiology St. Petersburg RU

Quem preencher os metadados:

Maxime Sweetlove
Research assistent
Royal Belgian Institute of Natural Sciences Rue Vautier 29 1000 Brussels BE

Quem mais foi associado com o recurso:

Usuário

Cobertura Geográfica

King George Island (Southern Shetland Islands:Antarctica)

Coordenadas delimitadoras Sul Oeste [-62.276, -59.032], Norte Leste [-62.113, -58.938]

Cobertura Taxonômica

Bacteria and Archaea (16S ssu rRNA gene, v4 region)

Domínio  Bacteria (Bacteria),  Archaea (Archaea)

Cobertura Temporal

Data Inicial / Data final 2016-01-22 / 2016-02-02

Dados Sobre o Projeto

Nenhuma descrição disponível

Título Soil biota dynamics in chronoseries of post-technogenic landscapes: analyses of soil ecological effectiveness of ecosystems restoration
Financiamento 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).

O pessoal envolvido no projeto:

E. Pershina

Métodos de Amostragem

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 Estudo Soils samples were taken from King George Island (Fildes Peninsula) and Nelson Island during the 61st Russian Antarctic expedition in 2016.

Descrição dos passos do método:

  1. 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).

Citações bibliográficas

  1. 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.

Metadados Adicionais

Identificadores alternativos 84d7d83b-94d2-4d44-a541-2c9e51e0f972
https://ipt.biodiversity.aq/resource?r=bacteria_and_archaea_in_different_king_george_island_soils