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

元數據
最新版本 published by SCAR - Microbial Antarctic Resource System on 三月 19, 2019 SCAR - Microbial Antarctic Resource System
發布日期:
2019年3月19日
授權條款:
CC-BY 4.0

下載最新版本資源元數據的EML或RTF文字檔。

元數據EML檔 下載 在 English 中 (10 KB)
元數據RTF文字檔 下載 在 English 中 (9 KB)

說明

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

版本

以下的表格只顯示可公開存取資源的已發布版本。

如何引用

研究者應依照以下指示引用此資源。:

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

權利

研究者應尊重以下權利聲明。:

此資料的發布者及權利單位為 SCAR - Microbial Antarctic Resource System。 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF 註冊

此資源已向GBIF註冊，並指定以下之GBIF UUID: 3a0fa23f-411a-49ec-96ed-3ee8cf7d5696。  SCAR - Microbial Antarctic Resource System 發佈此資源，並經由Scientific Committee on Antarctic Research同意向GBIF註冊成為資料發佈者。

關鍵字

Metadata

聯絡資訊

Deric Learman
  • 出處 ●
  • 連絡人
Central Michigan University
Mt. Pleasant
US
Michael Henson
  • 出處
Louisiana State University
Baton Rouge
US
Cameron Thrash
  • 出處
Louisiana State University
Baton Rouge
US
Ben Temperton
  • 出處
University of Exeter
Exeter
GB
Pamela Brannock
  • 出處
Auburn University
Auburn
US
Scott Santos
  • 出處
Auburn University
Auburn
US
Andrew Mahon
  • 出處
Central Michigan University
Mt. Pleasant
US
Kenneth Halanych
  • 出處
Auburn University
Auburn
US
Maxime Sweetlove
  • 元數據提供者
Research assistent
Royal Belgian Institute for Natural Sciences
Rue Vautier 29
1000 Brussels
BE

地理涵蓋範圍

Southern Ocean marine sediment samples (Antarctica)

界定座標範圍 緯度南界 經度西界 [-76.55, -102.159], 緯度北界 經度東界 [-62.535, 170]

分類群涵蓋範圍

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

Domain Bacteria (Bacteria), Archaea (Archaea)

Eukaryotes (18S ssu rRNA gene, v4 region)

Domain Eukaryota (Eukaryotes)

時間涵蓋範圍

起始日期 2014-01-01

計畫資料

無相關描述

計畫名稱 Microbes (16S and 18S rRNA genes) from benthic Antarctic sediments
經費來源 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.

參與計畫的人員:

Deric Learman

取樣方法

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.

研究範圍 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.

方法步驟描述:

  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.

引用文獻

  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.

額外的詮釋資料

替代的識別碼 3a0fa23f-411a-49ec-96ed-3ee8cf7d5696
https://ipt.biodiversity.aq/resource?r=microbes_in_benthic_antarctic_sediments