Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient

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

Amplicon sequencing dataset (MiSeq) of Archaea and Bacteria (16S ssu rRNA) in microbial mats at the floor of lake Fryxell (Antarctica).

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Comment citer

Les chercheurs doivent citer cette ressource comme suit:

Jungblut A, Hawes I, Mackey T, Krusor M, Doran P, Sumner D, Eiser J, Hillman C, Goroncy A (2019): Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient. v1.1. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbes_antarctic_lake_fryxell_oxygen&v=1.1

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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 : 59b5ae66-7413-448e-889d-681efbc1c00d.  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:

Anne Jungblut
The Natural History Museum London GB
Ian Hawes
University of Canterbury Christchurch NZ
Tyler Mackey
University of California Davis US
Megan Krusor
University of California Davis US
Peter Doran
Louisiana State University Baton Rouge US
Dawn Sumner
University of California Davis US
Jonathan Eiser
University of California Davis US
Colin Hillman
University of Canterbury Christchurch NZ
Alexander Goroncy
University of Canterbury Christchurch NZ

Personne pouvant répondre aux questions sur la ressource:

Anne Jungblut
The Natural History Museum London GB

Personne ayant renseigné les métadonnées:

Maxime Sweetlove
Assistent researcher
Royal Belgian Institute of Natural Sciences 1000 Brussels BE

Autres personnes associées à la ressource:

Utilisateur

Couverture géographique

Lake Fryxell, Antarctica

Enveloppe géographique Sud Ouest [-77.36, 162.2], Nord Est [-77.36, 162.2]

Couverture taxonomique

Archaea and Bacteria (16S ssu rRNA gene)

Domain  Bacteria (Bacteria),  Archaea (Archaea)

Données sur le projet

Pas de description disponible

Titre Microbial communities (Bacteria and Archaea) in Lake Fryxell (Antarctica) along an oxygen gradient
Financement This work was supported in part by NSF grant number 1115245 and NASA grant number NN13AI60G.

Les personnes impliquées dans le projet:

Peter Doran
Dawn Sumner

Méthodes d'échantillonnage

Samples were collected by a diver by cutting squares of mat from the lake floor and gently lifting them into a plastic box previously cleaned with antibacterial wipes. Box lids were sealed under water and samples returned to the surface and transferred to lakeside laboratory, where they were immediately dissected using flame-sterilized blades and forceps. Pinnacle and ridge-pit mats were dissected according to their distinctively pigmented horizontal upper (pink-purple and brown-purple, respectively), middle (pale purple and green-beige, respectively), and lower (all beige) layers. Prostrate mats were similarly dissected into upper (brown-purple), middle (green- beige), and lower (beige) layers. Dissected subsamples were rinsed in ster- ile deionized water, transferred into sterile plastic tubes, and frozen at 20°C until further analysis.

Etendue de l'étude Microbial mat samples representing the main three macroscopic mat morphologies, i.e., cuspate pinnacle, ridge-pit, and prostrate were collected from the floor of Lake Fryxell in November 2012.

Description des étapes de la méthode:

  1. DNA extractions of each of the triplicate mat sections were performed using the MoBio PowerDNA biofilm kit according to the manufacturer’s instructions. DNA was quantified using a Qubit fluorometer, and equal amounts of DNA per sample were pooled for 16S rRNA gene amplification. 16S rRNA gene PCR products were amplified in triplicate, pooled, and cleaned using the MoBio UltraClean PCR clean-up kit ac- cording to the manufacturer’s instructions. For the high-throughput se- quencing, we used primers (515f and 806r), described by Caporaso et al., which amplify both archaeal and bacterial 16S rRNA genes, including cyanobacterial 16S rRNA genes.
  2. Sequencing was performed on a MiSeq Illumina sequencer at NZ Genomics Limited, Palmerston North, New Zealand.

Citations bibliographiques

  1. Jungblut, A. D., Hawes, I., Mackey, T. J., Krusor, M., Doran, P. T., Sumner, D. Y., ... & Goroncy, A. K. (2016). Microbial mat communities along an oxygen gradient in a perennially ice-covered Antarctic lake. Appl. Environ. Microbiol., 82(2), 620-630.

Métadonnées additionnelles

Identifiants alternatifs 59b5ae66-7413-448e-889d-681efbc1c00d
https://ipt.biodiversity.aq/resource?r=microbes_antarctic_lake_fryxell_oxygen