6c61d02f-a399-4d88-8e3b-a7068b2d3387 https://ipt.biodiversity.aq/resource?r=maritime_antarctic_soil_fungi_communities Maritime and Sub-Antarctic microbial soil fungi communities 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
Maxime Sweetlove Royal Belgian Institute of Natural Sciences Research assistent
Rue Vautier 29 Brussels 1000
msweetlove@naturalsciences.be
user 2019-03-19 eng Amplicon sequencing dataset (454 pyrosequencing) of microbial soil fungi (based on ITS) from islands in maritime Antarctica and Sub-Antarctica. Metadata GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type.xml This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License. Bird Island (South Georgia), Signy Island (Antarctica) and Leonie Island (Antarctica) -68.356 -38.066 -54.009 -67.598 2011-10-27 2011-11-30 Fungi, profiled by targeting the ITS marker gene with primers ITS1F and ITS4 phylum Fungi Fungi unkown Filipa Cox University of Manchester
Manchester GB
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. 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. 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. Maritime and Sub-Antarctic microbial soil fungi communities Filipa Cox 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.
2019-03-19T09:58:20.021+01:00 dataset 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 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. 6c61d02f-a399-4d88-8e3b-a7068b2d3387/v1.1.xml