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

Última versión Publicado por SCAR - Microbial Antarctic Resource System en 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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¿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. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

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.

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Metadata

Contactos

¿Quién creó el recurso?:

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

¿Quién puede resolver dudas acerca del recurso?:

Anne Jungblut
The Natural History Museum London GB

¿Quién documentó los metadatos?:

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

¿Quién más está asociado con el recurso?:

Usuario

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