Microbial soil Fungi (ITS2) diversity from Maritime Antarctica

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

Amplicon sequencing dataset (454) of microbial fungi (ITS2 marker gene) in soils from the Antarctic Peninsula and Maritime Antarctic Islands.

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Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

Newsham K, Hopkins D, Carvalhais L, Fretwell P, Rushton S, O'Donnell A, Dennis P (2019): Microbial soil Fungi (ITS2) diversity from Maritime Antarctica. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=soil_fungi_its2_maritime_antarctica&v=1.2

Direitos

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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: 7c5815a5-7909-418b-87dc-af0cab0e57ce.  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:

Kevin Newsham
British Antarctic Survey Cambridge GB
David Hopkins
The Royal Agricultural University Cirencester GB
Lilia Carvalhais
The University of Queensland Brisbane AU
Peter Fretwell
British Antarctic Survey Cambridge GB
Steven Rushton
Newcastle University Newcastle upon Tyne GB
Anthony O'Donnell
University of Western Australia Crawley AU
Paul Dennis
The University of Queensland Brisbane AU

Quem pode responder a perguntas sobre o recurso:

Kevin Newsham
British Antarctic Survey Cambridge GB
Paul Dennis
The University of Queensland Brisbane AU

Quem preencher os metadados:

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

Quem mais foi associado com o recurso:

Usuário

Cobertura Geográfica

Soil samples from the Antarctic Peninsula and Maritime Antarctic Islands.

Coordenadas delimitadoras Sul Oeste [-71.878, -71.844], Norte Leste [-60.701, -45.661]

Cobertura Taxonômica

microbial soil Fungi, ITS2 marker gene

Filo  Fungi (Fungi)

Dados Sobre o Projeto

Nenhuma descrição disponível

Título Microbial soil Fungi (ITS2) diversity from Maritime Antarctica
Financiamento This work was funded by a UK Natural Environment Research Council Antarctic Funding Initiative grant (NE/D00893X/1; AFI 7/05) and a University of Queensland Early Career Researcher Award.

O pessoal envolvido no projeto:

David Hopkins

Métodos de Amostragem

The uppermost five centimetres of soil was collected in 50 ml DNA/RNAase-treated plastic tubes (30 mm diam.) from each of five locations at each site and was bulked. The soil was then immediately snap-frozen by immersion in a mixture of dry ice and ethanol (c. -80 °C). Samples were maintained at -80 °C from the time of sampling until they were processed.

Área de Estudo Soils without plant cover were sampled along the climatic gradient in Maritime Antarctica.

Descrição dos passos do método:

  1. Total DNA was extracted under sterile conditions from 10 g of soil using a PowerMax® Soil DNA isolation kit (MO BIO Laboratories, Inc., Carlsbad, CA, USA) as per the manufacturer’s instructions. The internal transcribed spacer 2 (ITS2) region of the ribosomal RNA encoding genes was amplified by polymerase chain reaction (PCR) using the primers gITS7 (5′ GTGARTCATCGARTCTTTG27) and ITS4 (5′ TCCTCCGCTTATTGATATGC28), which target sites in the 5.8S gene and ribosomal large subunit, respectively. The gITS7 primer was 5’-labelled with the 454 FLX sequencing primer adapter B sequence and the ITS4 primer was 5’-labelled with a sample specific barcode sequence and the 454 FLX sequencing primer adapter A sequence. PCRs were performed in duplicate 50 μl reactions, each containing 5 ng template DNA, 1X Phusion® High Fidelity PCR Buffer (New England Biolabs Inc.), 0.2 mM of each of the dNTPs (Invitrogen), 0.3 μM of the ITS4 primer, 0.5 μM of the gITS7 primer, and 1U of 1X Phusion® High Fidelity DNA Polymerase (New England Biolabs Inc.). Thermocycling conditions were as follows: 98 °C for 30 s, 35 cycles of 98 °C for 10 s, 56 °C for 30 s, 72 °C for 15 s and a final extension at 72 °C for 7 min. Negative controls, consisting of sterile water in place of template DNA, did not yield amplicons. Amplicons were purified using a Wizard® SV Gel and PCR Clean-Up System (Promega), quantified with a Qubit fluorometer with a Quant-iT dsDNA HF assay kit and then 72 ng of each sample was pooled. The pooled sample was purified again using a QIAquick PCR Purification Kit (Qiagen), and then sent to Macrogen (Seoul, Korea) for 454 pyrosequencing.

Citações bibliográficas

  1. Newsham, K. K., Hopkins, D. W., Carvalhais, L. C., Fretwell, P. T., Rushton, S. P., O’Donnell, A. G., & Dennis, P. G. (2016). Relationship between soil fungal diversity and temperature in the maritime Antarctic. Nature Climate Change, 6(2), 182.

Metadados Adicionais

Identificadores alternativos 7c5815a5-7909-418b-87dc-af0cab0e57ce
https://ipt.biodiversity.aq/resource?r=soil_fungi_its2_maritime_antarctica