Author: Maxime Sweetlove
Keywords: Metadata

Global biogeography of desert cyanobacteria

Donnabella Lacap-bugler^1, Kevin Lee^1, Stephen Archer^1, Len Gillman^1, Maggie Lau^2, Sebastian Leuzinger^1, Charles Lee^3, Teruya Maki^4, Christoffer McKay^5, John Perrott^1, Asunción de los Rios-Murillo^6, Kimberley Warren-Rhodes^4, David Hopkins^7, Stephen Pointing^1, Maxime Sweetlove^8

1 Auckland University of Technology, Auckland, New Zealand; 2 Princeton University, Princeton, United States; 3 University of Waikato , Hamilton, New Zealand; 4 Kanazawa University, Kanazawa, Japan; 5 National Aeronautics and Space Administration Ames Research Center, Moffett Field, United States; 6 Museo Nacional de Ciencias Naturales, Madrid, Spain; 7 The Royal Agricultural University, Cirencester, United Kingdom; 8 Royal Belgian Institute for Natural Sciences, Rue Vautier 29, 1000, Brussels

Corresponding author(s): Donnabella Lacap-buglerKevin LeeStephen ArcherLen GillmanMaggie LauSebastian LeuzingerCharles LeeTeruya MakiChristoffer McKayJohn PerrottAsunción de los Rios-MurilloKimberley Warren-RhodesDavid HopkinsStephen Pointing, Maxime Sweetlove (msweetlove@naturalsciences.be)

Received {date}; Revised {date}; Accepted {date}; Published {date}

Citation: Combination of authors, year of data paper publication (in parentheses), Title, Journal Name, Volume, Issue number (in parentheses), and doi of the data paper.

Resource Citation

Lacap-bugler D, Lee K, Archer S, Gillman L, Lau M, Leuzinger S, Lee C, Maki T, McKay C, Perrott J, de los Rios-Murillo A, Warren-Rhodes K, Hopkins D, Pointing S (2018): Global biogeography of desert cyanobacteria. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. http://ipt.biodiversity.aq/resource?r=desert_cyanobacteria&v=1.2

Abstract

Amplicon sequencing dataset (454 pyrosequencing) of Bacteria (16S ssu rRNA) and Cyanobacteria (nifH) in cold desert quartz rocks

Keywords: Metadata

Project details

Project title: Global biogeography of desert cyanobacteria
Personnel: Donnabella Lacab-bugler
Funding: The research was funded by the NASA Astrobiology Science and Technology for Exploring Planets (ASTEP) program and the Institute for Applied Ecology New Zealand (www.aenz.aut.ac.nz).

Data published through GBIF: http://ipt.biodiversity.aq/resource?r=desert_cyanobacteria

Taxonomic coverage

General taxonomic coverage description: Bacteria (16S ssu rRNA) and Cyanobacteria (nifH)
Taxonomic ranks
Domain: Bacteria
Phylum: Cyanobacteria
Common names: Bacteria, Cyanobacteria

Spatial coverage

General spatial coverage: Tibetan Plateau, China; Taklimakan Desert, China; Devon Island (Arctic), Canada; McMurdo Dry Valleys, Antarctica
Coordinates: 77°24'37.26''S and 42°42'54.9''N Latitude; 88°36'57.96''E and 161°11'33.9''E Longitude 

Methods

Method step description: 
- . 	Amplification of 16S rRNA genes was achieved using primer pair 341F and 907R with PCR conditions involving an initial denaturation time of 5min; 30 cycles at 95°C for 1 min, 55°C for 1 min, 72°C for 1 min, and a final extension at 72°C for 10 min. Positive and negative controls were run for every PCR. For each amplicon library purification was carried out with Agencourt AMPure XP Bead (Beckman Coulter, CA, USA) according to manufacturer’s instructions. The libraries were quantified with Quant-iT PicoGreen dsDNA Assay Kit (Invitrogen Life Technologies, NY, USA) using FLUOstar OPTIMA F fluorometer (BMG Labtech GmbH, Offenburg, Germany) and library quality was assessed with the FlashGel System (Lonza Group Ltd., Basel, Switzerland). 
- . 	Emulsion-PCR was carried out with GS Junior Titanium emPCR Kit (Lib-L, 454 Life Sciences Corp., CT, USA) according to the emPCR Amplification Method Manual – Lib-L, Single-Prep. The sequencing reaction was carried out with the GS Junior Titanium Sequencing Kit and GS Junior Titanium PicoTiterPlate Kit (454 Life Sciences Corp.) according to the manufacturer’s instructions. The sequencing run was conducted in 200 cycles.
Study extent description: Hypolithic communities were recovered from quartz substrate in desert pavement on the Tibetan Plateau (China), the Taklimakan Desert (China), Devon Island (Canada) and the McMurdo Dry Valleys (Antarctica).
Sampling description: Colonized quartz stones were retrieved by hand (using isopropyl alcohol surface sterilized latex gloves) and loose soil particles gently removed with a sterile (autoclaved) paintbrush. Samples were then stored in sterile Whirlpak bags (Nasco) at -20°C in the field and in transit, and subsequently stored frozen at -80°C in the laboratory until processed. 

Metadata language: English
Date of metadata creation: 2018-12-18
Hierarchy level: Dataset

References
Lacap-Bugler, D. C., Lee, K. K., Archer, S., Gillman, L. N., Lau, M. C., Leuzinger, S., ... & de los Rios-Murillo, A. (2017). Global diversity of desert hypolithic cyanobacteria. Frontiers in microbiology, 8, 867.