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

Última versión publicado por SCAR - Microbial Antarctic Resource System el mar 19, 2019 SCAR - Microbial Antarctic Resource System
Fecha de publicación:
19 de marzo de 2019
Licencia:
CC-BY 4.0

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Descripción

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

Versiones

La siguiente tabla muestra sólo las versiones publicadas del recurso que son de acceso público.

¿Cómo referenciar?

Los usuarios deben citar este trabajo de la siguiente manera:

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

Derechos

Los usuarios deben respetar los siguientes derechos de uso:

El publicador y propietario de los derechos de este trabajo es SCAR - Microbial Antarctic Resource System. Esta obra está bajo una licencia Creative Commons de Atribución/Reconocimiento (CC-BY 4.0).

Registro GBIF

Este recurso ha sido registrado en GBIF con el siguiente UUID: 59b5ae66-7413-448e-889d-681efbc1c00d.  SCAR - Microbial Antarctic Resource System publica este recurso y está registrado en GBIF como un publicador de datos avalado por Scientific Committee on Antarctic Research.

Palabras clave

Metadata

Contactos

Anne Jungblut
  • Originador
  • Punto De Contacto
The Natural History Museum
London
GB
Ian Hawes
  • Originador
University of Canterbury
Christchurch
NZ
Tyler Mackey
  • Originador
University of California
Davis
US
Megan Krusor
  • Originador
University of California
Davis
US
Peter Doran
  • Originador
Louisiana State University
Baton Rouge
US
Dawn Sumner
  • Originador
University of California
Davis
US
Jonathan Eiser
  • Originador
University of California
Davis
US
Colin Hillman
  • Originador
University of Canterbury
Christchurch
NZ
Alexander Goroncy
  • Originador
University of Canterbury
Christchurch
NZ
Maxime Sweetlove
  • Proveedor De Los Metadatos
Assistent researcher
Royal Belgian Institute of Natural Sciences
1000 Brussels
BE

Cobertura geográfica

Lake Fryxell, Antarctica

Coordenadas límite Latitud Mínima Longitud Mínima [-77,36, 162,2], Latitud Máxima Longitud Máxima [-77,36, 162,2]

Cobertura taxonómica

Archaea and Bacteria (16S ssu rRNA gene)

Dominio Bacteria (Bacteria), Archaea (Archaea)

Datos del proyecto

No hay descripción disponible

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

Personas asociadas al proyecto:

Peter Doran
Dawn Sumner

Métodos de muestreo

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.

Área de Estudio 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.

Descripción de la metodología paso a paso:

  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.

Referencias bibliográficas

  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.

Metadatos adicionales

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