Microbes (16S and 18S rRNA genes) from benthic Antarctic sediments

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

amplicon sequencing dataset (Illumina MiSeq) of microbial communities (16S and 18S rRNA genes) in 24 samples from benthic Antarctic sediments

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Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

Learman D, Henson M, Thrash C, Temperton B, Brannock P, Santos S, Mahon A, Halanych K (2019): Microbes (16S and 18S rRNA genes) from benthic Antarctic sediments. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbes_in_benthic_antarctic_sediments&v=1.2

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: 3a0fa23f-411a-49ec-96ed-3ee8cf7d5696.  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:

Deric Learman
Central Michigan University Mt. Pleasant US
Michael Henson
Louisiana State University Baton Rouge US
Cameron Thrash
Louisiana State University Baton Rouge US
Ben Temperton
University of Exeter Exeter GB
Pamela Brannock
Auburn University Auburn US
Scott Santos
Auburn University Auburn US
Andrew Mahon
Central Michigan University Mt. Pleasant US
Kenneth Halanych
Auburn University Auburn US

Quem pode responder a perguntas sobre o recurso:

Deric Learman
Central Michigan University Mt. Pleasant US

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

Southern Ocean marine sediment samples (Antarctica)

Coordenadas delimitadoras Sul Oeste [-76.55, -102.159], Norte Leste [-62.535, 170]

Cobertura Taxonômica

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

Domínio  Bacteria (Bacteria),  Archaea (Archaea)

Eukaryotes (18S ssu rRNA gene, v4 region)

Domínio  Eukaryota (Eukaryotes)

Cobertura Temporal

Data Inicial 2014-01-01

Dados Sobre o Projeto

Nenhuma descrição disponível

Título Microbes (16S and 18S rRNA genes) from benthic Antarctic sediments
Financiamento Funds through NSF Antarctic Program: Award Number 1043670 and 1043745, and from Central Michigan University Faculty Research and Creative Endeavors Committee and College of Science and Technology.

O pessoal envolvido no projeto:

Deric Learman

Métodos de Amostragem

Samples were collected on the Antarctic shelf at depths ranging from 223 to 820 m. The top 3 cm of sediments were transferred into sampling tubes and stored frozen (−80°C). Samples were shipped frozen to Central Michigan University within 3 months of collection.

Área de Estudo Surface sediment samples were collected from the continental shelf of Antarctica during two research cruises. The first cruise (Dec. 2013–Feb. 2014, RVIB Nathaniel B. Palmer) sampled Western Antarctica, which includes the Amundsen Sea, Bellingshausen Sea, and Ross Sea, using a multicorer. The second cruise (Nov.–Dec. 2014, ASRV Laurence M. Gould) sampled the Antarctic Peninsula using a box corer.

Descrição dos passos do método:

  1. DNA was extracted using a PowerSoil DNA extraction kit (MoBio) following the manufacturer's protocol. Approximately 4–8 extractions were completed on each sediment sample and pooled and concentrated with a DNA Clean and Concentrator kit (Zymo) due to low yields from some of the samples. DNA was then quantified using the Qubit2.0 Fluorometer (Life Technologies) and stored at −20°C. Bacterial and archaeal sequences were generated from the V4 region of 16S rRNA gene using the primer set 515f and 806r while eukaryotic sequences were obtained with the V4 region of the 18S rRNA gene using the primer set 1391r and EukBR. Resulting amplicons were sequenced on an Illumina MiSeq as paired-end (PE) reads of 250-bp at Michigan State University's (MSU) Research Technology Support Facility (RTSF) Genomics Core.

Citações bibliográficas

  1. Learman, D. R., Henson, M. W., Thrash, J. C., Temperton, B., Brannock, P. M., Santos, S. R., ... & Halanych, K. M. (2016). Biogeochemical and microbial variation across 5500 km of Antarctic surface sediment implicates organic matter as a driver of benthic community structure. Frontiers in microbiology, 7, 284.

Metadados Adicionais

Identificadores alternativos 3a0fa23f-411a-49ec-96ed-3ee8cf7d5696
https://ipt.biodiversity.aq/resource?r=microbes_in_benthic_antarctic_sediments