Maritime and Sub-Antarctic microbial soil fungi communities

Последняя версия опубликована SCAR - Microbial Antarctic Resource System 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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Как оформить ссылку

Исследователи должны дать ссылку на эту работу следующим образом:

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

Права

Исследователи должны соблюдать следующие права:

Публикующей организацией и владельцем прав на данную работу является SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

Регистрация в GBIF

Этот ресурс был зарегистрирован в GBIF, ему был присвоен следующий UUID: 6c61d02f-a399-4d88-8e3b-a7068b2d3387.  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

Кто является создателем ресурса:

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

Кто может ответить на вопросы о ресурсе:

Filipa Cox
University of Manchester Manchester GB

Кем заполнены метаданные:

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

Кто еще связан с данным ресурсом:

User

Географический охват

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

Ограничивающие координаты Юг Запад [-67.598, -68.356], Север Восток [-54.009, -38.066]

Таксономический охват

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

Phylum  Fungi (Fungi)

Временной охват

Дата начала / Дата окончания 2011-10-27 / 2011-11-30

Данные проекта

Описание отсутсвует

Название Maritime and Sub-Antarctic microbial soil fungi communities
Финансирование 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.

Исполнители проекта:

Filipa Cox

Методы сбора

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.

Охват исследования 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.

Описание этапа методики:

  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.

Библиографические ссылки

  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

Дополнительные метаданные

Альтернативные идентификаторы 6c61d02f-a399-4d88-8e3b-a7068b2d3387
https://ipt.biodiversity.aq/resource?r=maritime_antarctic_soil_fungi_communities