Maritime and Sub-Antarctic microbial soil fungi communities

最新版本 由 SCAR - Microbial Antarctic Resource System 發佈於 Mar 19, 2019 SCAR - Microbial Antarctic Resource System

Amplicon sequencing dataset (454 pyrosequencing) of microbial soil fungi (based on ITS) from islands in maritime Antarctica and Sub-Antarctica.

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如何引用

研究者應依照以下指示引用此資源。:

Cox F, Newsham K, Bol R, Dungait J, Robinson C (2019): Maritime and Sub-Antarctic microbial soil fungi communities. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=maritime_antarctic_soil_fungi_communities&v=1.1

Rights

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The publisher and rights holder of this work is 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: 6c61d02f-a399-4d88-8e3b-a7068b2d3387。  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

資源建立者:

Filipa Cox
University of Manchester Manchester GB
Kevin Newsham
British Antarctic Survey Cambridge GB
Roland Bol
Institute of Bio‐ and Geosciences Jülich DE
Jennifer Dungait
Rothamsted Research Okehampton GB
Clare Robinson
University of Manchester Manchester GB

可回覆此資源相關問題者:

Filipa Cox
University of Manchester Manchester GB

元數據填寫者:

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

與此資源的相關者:

使用者

地理涵蓋範圍

Bird Island (South Georgia), Signy Island (Antarctica) and Leonie Island (Antarctica)

界定座標範圍 緯度南界 經度西界 [-67.598, -68.356], 緯度北界 經度東界 [-54.009, -38.066]

分類群涵蓋範圍

Fungi, profiled by targeting the ITS marker gene with primers ITS1F and ITS4

Phylum  Fungi (Fungi)

時間涵蓋範圍

起始日期 / 結束日期 2011-10-27 / 2011-11-30

計畫資料

無相關描述

計畫名稱 Maritime and Sub-Antarctic microbial soil fungi communities
經費來源 This work was funded by an Antarctic Funding Initiative grant from the UK Natural Environment Research Council, under grant numbers NE/H014098/1, NE/H014772/1 and NE/H01408X/1.

The personnel involved in the project:

Filipa Cox

取樣方法

Soil was collected under populations of Colobanthus quitensis (Kunth) Bartl. and Deschampsia antarctica Desv., the only two native vascular plant species that occur in Antarctica. On each island, 50 mL sterile centrifuge tubes (Corning Inc, Corning, NY, USA) were used to collect samples by hammering them directly into the vertical walls of three soil pits at three depths (2, 4 and 8 cm). Soil was stored at −80 °C within 5 h of collection and was later freeze‐dried to preserve fungal nucleotides.

研究範圍 Between October and November 2011, soil samples were collected from Bird Island (54.0089° S, 38.0662° W), Signy Island (60.7107° S, 45.5849° W) and Léonie Island (67.5984° S, 68.3561° W) in the sub‐Antarctic, low maritime and high maritime Antarctic respectively.

方法步驟描述:

  1. Total DNA was extracted from five individual 50 mg soil samples, using the RNA PowerSoil Total RNA Isolation and DNA Elution Accessory kits (MoBio Laboratories, Carlsbad, CA, USA). The extracted DNA was amplified in triplicate PCR reactions using ITS1F and ITS4 primers. The ITS4 primer was modified with the 454 A adaptor and a 10-bp barcode specific to each sample, allowing the identification of different samples once pooled, and the ITS1F primer was modified with the 454 B adaptor. This primer design allowed reverse sequencing across the ITS2 region. Triplicate PCR reactions were performed using Phusion HF 2X Master Mix (New England Biolabs, Beverly, MA, USA) using the following amounts per 50 μl reaction: 19 μl H20; 25 μl 2X HF mix; 2.5 μl of each primer; 1 μl template, and the following PCR cycle: initial denaturation of 98°C for 45 s, then for 33 cycles: denaturation: 98°C for 10 s, annealing: 53°C for 30 s, extension: 72°C for 30 s, final extension: 72°C for 7 min. The triplicate PCR products were pooled and subsequently purified using AMPure XP bead purification (Beckman Coulter, Inc, Brea, CA, USA) and quantified using Qubit dsDNA HS Assay (Life Technologies, Carlsbad, CA, USA) before normalization to equal concentrations. The purified and normalized PCR products were run on one plate on the 454 Roche Titanium FLX platform at the Liverpool Centre for Genomic Research.

引用文獻

  1. Cox, F., Newsham, K. K., Bol, R., Dungait, J. A., & Robinson, C. H. (2016). Not poles apart: Antarctic soil fungal communities show similarities to those of the distant Arctic. Ecology letters, 19(5), 528-536. https://doi.org/10.1111/ele.12587

額外的元數據

替代的識別碼 6c61d02f-a399-4d88-8e3b-a7068b2d3387
https://ipt.biodiversity.aq/resource?r=maritime_antarctic_soil_fungi_communities