Global biogeography of desert cyanobacteria

Dernière version Publié par SCAR - Microbial Antarctic Resource System le Mar 19, 2019 SCAR - Microbial Antarctic Resource System

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

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Comment citer

Les chercheurs doivent citer cette ressource comme suit:

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. v1.4. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=desert_cyanobacteria&v=1.4

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L’éditeur et détenteur des droits de cette ressource est SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

Enregistrement GBIF

Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : 914f39c7-7bb2-4e77-a4ae-36147aa07daf.  SCAR - Microbial Antarctic Resource System publie cette ressource, et est enregistré dans le GBIF comme éditeur de données avec l'approbation du Scientific Committee on Antarctic Research.

Mots-clé

Metadata

Contacts

Personne ayant créé cette ressource:

Donnabella Lacap-bugler
Auckland University of Technology Auckland NZ
Kevin Lee
Auckland University of Technology Auckland NZ
Stephen Archer
Auckland University of Technology Auckland NZ
Len Gillman
Auckland University of Technology Auckland NZ
Maggie Lau
Princeton University Princeton US
Sebastian Leuzinger
Auckland University of Technology Auckland NZ
Charles Lee
University of Waikato Hamilton NZ
Teruya Maki
Kanazawa University Kanazawa JP
Christoffer McKay
National Aeronautics and Space Administration Ames Research Center Moffett Field US
John Perrott
Auckland University of Technology Auckland NZ
Asunción de los Rios-Murillo
Museo Nacional de Ciencias Naturales Madrid ES
Kimberley Warren-Rhodes
Kanazawa University Kanazawa JP
David Hopkins
The Royal Agricultural University Cirencester GB
Stephen Pointing
Auckland University of Technology Auckland NZ

Personne pouvant répondre aux questions sur la ressource:

Donnabella Lacap-bugler
Auckland University of Technology Auckland NZ

Personne ayant renseigné les métadonnées:

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

Autres personnes associées à la ressource:

Utilisateur

Couverture géographique

Tibetan Plateau, China; Taklimakan Desert, China; Devon Island (Arctic), Canada; McMurdo Dry Valleys, Antarctica

Enveloppe géographique Sud Ouest [-77.41, 88.616], Nord Est [42.715, 161.193]

Couverture taxonomique

Bacteria (16S ssu rRNA) and Cyanobacteria (nifH)

Domain  Bacteria (Bacteria)
Phylum  Cyanobacteria (Cyanobacteria)

Données sur le projet

Pas de description disponible

Titre Global biogeography of desert cyanobacteria
Financement 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).

Les personnes impliquées dans le projet:

Donnabella Lacab-bugler

Méthodes d'échantillonnage

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.

Etendue de l'étude 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).

Description des étapes de la méthode:

  1. 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).
  2. 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.

Citations bibliographiques

  1. 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.

Métadonnées additionnelles

Identifiants alternatifs 914f39c7-7bb2-4e77-a4ae-36147aa07daf
https://ipt.biodiversity.aq/resource?r=desert_cyanobacteria