Microbiome (Archaea, Bacteria and Fungi) in soils from King George Island (Antarctica)

Versão mais recente published by SCAR - Microbial Antarctic Resource System on mar 19, 2019 SCAR - Microbial Antarctic Resource System
Publication date:
19 de Março de 2019
Licença:
CC-BY 4.0

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Descrição

Amplicon sequencing dataset (Illumina MiSeq) of Bacteria (16S); Archaea (16S) and Fungi (ITS) in soils from the Fildes region on King George Island (Antarctica).

Versões

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

Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

Zhang Y, Lu L, Chang X, Jiang F, Gao X, Yao Y, Cao S, Zhou Q, Peng F (2019): Microbiome (Archaea, Bacteria and Fungi) in soils from King George Island (Antarctica). v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbiome_soil_king_george_island_antarctica&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: 0e3185d2-7264-4487-b77a-b559de2f2a79.  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

Yumin Zhang
  • Originador
  • Ponto De Contato
Wuhan University
Wuhan
CN
Lu Lu
  • Originador
Wuhan University
Wuhan
CN
Xulu Chang
  • Originador
Wuhan University
Wuhan
CN
Fan Jiang
  • Originador
Wuhan University
Wuhan
CN
Xiangdong Gao
  • Originador
Wuhan University
Wuhan
CN
Yifeng Yao
  • Originador
Chinese Academy of Sciences
Beijing
CN
Shunan Cao
  • Originador
Polar Research Institute of China
Shanhai
CN
Qiming Zhou
  • Originador
ChosenMed Technology (Beijing) Company Limited
Beijing
CN
Fang Peng
  • Originador
Wuhan University
Wuhan
CN
Maxime Sweetlove
  • Provedor Dos Metadados
Research assistent
Royal Belgian Institute of Natural Sciences
Rue vautier 29
1000 Brussels
BE

Cobertura Geográfica

Fildes region on the King George island, Antarctica

Coordenadas delimitadoras Sul Oeste [-62,24, -59,03], Norte Leste [-62,15, -58,84]

Cobertura Taxonômica

Bacteria, profiled by targeting the 16S ssu rRNA gene

Domínio Bacteria (Bacteria)

Archaea, profiled by targeting the 16S ssu rRNA gene

Domínio Archaea (Archaea)

Fungi, profiled by targeting ITS gene

Filo Fungi (Fungi)

Dados Sobre o Projeto

Nenhuma descrição disponível

Título Microbiome (Archaea, Bacteria and Fungi) in soils from King George Island (Antarctica)
Financiamento This work was supported by the National Key R&D Program of China (2018YFC1406700), the R&D Infrastructure and Facility Development Program of the Ministry of Science and Technology of the People’s Republic of China (Grant No. NIMR-2017-8), the National Natural Science Foundation of China (Grant No. 31270538), and the Chinese Polar Scientific Strategy Research Fund IC201706.

O pessoal envolvido no projeto:

Yumin Zhang

Métodos de Amostragem

Soils were sampled from the A-horizon (10 cm) at an internal distance of approximately 3–5 m, and samples were collected in triplicate around each quadrat plot. Soil samples collected for each replicate were taken from five soil cores (5 cm diameter) and mixed thoroughly. A total of 36 soil samples were placed in sterile plastic bags, and soil DNA was extracted within 2 h in the laboratory of the Great Wall Station. The remaining soils were stored in the freezer until further soil physico-chemical property analyses were performed.

Área de Estudo The 12 permanent quadrat plots (1.5 m × 1.0 m each) investigated in this study were established on the Fildes Peninsula and Ardley Island between 2013 and 2015. Each quadrat plot was fenced to minimize disturbance. The distance between quadrat plots ranges from approximately 1.6 to 8.2 km. Sampling occurred during China’s 33rd Antarctic expedition in January 2017.

Descrição dos passos do método:

  1. The bacterial hypervariable V4 region of the 16S rRNA genes was amplified using primers 515F (5’-GTGCCAGCMGCCGCGGTAA-3’) with a 7-nucleotide barcode and 907R (5’-CCGTCAATTCMTTTRAGTTT-3’). Amplifications of the bacterial 16S rRNA genes were performed, consisting of an initial denaturation at 98 °C for 30 s, followed by 25 cycles of denaturation at 98 °C for 15 s, annealing at 50 °C for 30 s, extension at 72 °C for 30 s, and a final extension at 72 °C for 5 min.
  2. The archaeal V5-6 region of 16S rRNA genes was amplified using primers 524F-10-extF (5’-TGYCAGCCGCCGCGGTAA-3’) with a 7-nucleotide barcode and Arch958-modR (5’-YCCGGCGTTGAVTCCAATT-3’). Amplifications of the archaeal 16S rRNA genes were performed, consisting of an initial denaturation at 95 °C for 30 s, followed by 25 cycles of denaturation at 95 °C for 15 s, annealing at 55 °C for 30 s, extension at 72 °C for 30 s, and a final extension at 72 °C for 5 min.
  3. The fungal rDNA ITS1-5.8S-ITS2 region was amplified using primers ITS5 (5’-GGAAGTAAAAGTCGTAACAAGG-3’) with a 7-nucleotide barcode and ITS4 (5’-TCCTCCGCTTATTGATATGC-3’). Amplifications of the fungal ITS regions were performed, consisting of an initial denaturation at 95 °C for 30 s, followed by 25 cycles of denaturation at 95 °C for 15 s, annealing at 50 °C for 30 s, extension at 72 °C for 30 s, and a final extension at 72 °C for 5 min. The PCR 25 μl reaction mixture contained 0.25 μl Q5 high-fidelity DNA polymerase (NEB), 5 μl reaction buffer, 5 μl high GC buffer, 0.5 μl of 10 mM dNTP, 1 μl template DNA, 1 μl of each primer (10 μM), and 11.25 μl ddH2O.
  4. PCR products were purified using an AxyPreDNA Gel Extraction Kit (Axygen Biosciences, Corning, NY, USA) according to the manufacturer’s instructions. The purified PCR amplicons from each sample were then mixed after quantification using a Quant-iT PicoGreen dsDNA Assay Kit (Invitrogen) in the Microplate reader (Bio Tek, FLx800). Sequencing was performed on the Illumina Miseq Platform.

Citações bibliográficas

  1. Zhang, Y., Lu, L., Chang, X., Jiang, F., Gao, X., Yao, Y., ... & Peng, F. (2018). Small-scale soil microbial community heterogeneity linked to landform historical events on King George Island, maritime Antarctica. Frontiers in microbiology, 9, 3065.

Metadados Adicionais

Identificadores alternativos 0e3185d2-7264-4487-b77a-b559de2f2a79
https://ipt.biodiversity.aq/resource?r=microbiome_soil_king_george_island_antarctica