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

Metadata-only
Последняя версия опубликовано SCAR - Microbial Antarctic Resource System мар. 19, 2019 SCAR - Microbial Antarctic Resource System
Дата публикации:
19 марта 2019 г.
Опубликовано:
SCAR - Microbial Antarctic Resource System
Лицензия:
CC-BY 4.0

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Описание

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

Версии

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Как оформить ссылку

Исследователи должны дать ссылку на эту работу следующим образом:

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

Права

Исследователи должны соблюдать следующие права:

Публикующей организацией и владельцем прав на данную работу является SCAR - Microbial Antarctic Resource System. Эта работа находится под лицензией Creative Commons Attribution (CC-BY 4.0).

Регистрация в GBIF

Этот ресурс был зарегистрирован в GBIF, ему был присвоен следующий UUID: 3a0fa23f-411a-49ec-96ed-3ee8cf7d5696.  SCAR - Microbial Antarctic Resource System отвечает за публикацию этого ресурса, и зарегистрирован в GBIF как издатель данных при оподдержке Scientific Committee on Antarctic Research.

Ключевые слова

Metadata

Контакты

Deric Learman
  • Originator ●
  • Point Of Contact
Central Michigan University
Mt. Pleasant
US
Michael Henson
  • Originator
Louisiana State University
Baton Rouge
US
Cameron Thrash
  • Originator
Louisiana State University
Baton Rouge
US
Ben Temperton
  • Originator
University of Exeter
Exeter
GB
Pamela Brannock
  • Originator
Auburn University
Auburn
US
Scott Santos
  • Originator
Auburn University
Auburn
US
Andrew Mahon
  • Originator
Central Michigan University
Mt. Pleasant
US
Kenneth Halanych
  • Originator
Auburn University
Auburn
US
Maxime Sweetlove
  • Metadata Provider
  • Research assistent
Royal Belgian Institute for Natural Sciences
  • Rue Vautier 29
1000 Brussels
BE

Географический охват

Southern Ocean marine sediment samples (Antarctica)

Ограничивающие координаты Юг Запад [-76,55, -102,159], Север Восток [-62,535, 170]

Таксономический охват

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

Domain Bacteria (Bacteria), Archaea (Archaea)

Eukaryotes (18S ssu rRNA gene, v4 region)

Domain Eukaryota (Eukaryotes)

Временной охват

Дата начала 2014-01-01

Данные проекта

Описание отсутсвует

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

Исполнители проекта:

Deric Learman

Методы сбора

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.

Охват исследования 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.

Описание этапа методики:

  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.

Библиографические ссылки

  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.

Дополнительные метаданные

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