Microorganisms in frost flowers on young Arctic sea ice, comparison between different ice types

Última versión Publicado por SCAR - Microbial Antarctic Resource System en Mar 21, 2019 SCAR - Microbial Antarctic Resource System

Amplicon sequencing dataset (454 pyrosequencing) of Bacteria in different types of young sea ice and sea ice brines in the Arctic ocean (North-East coast of Greenland)

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¿Cómo referenciar?

Los usuarios deben citar este trabajo de la siguiente manera:

Barber D, Ehn J, Pucko M, Rysgaard S, Deming J, Bowman J, Papakyriakou T, Galley R, Sogaard D (2019): Microorganisms in frost flowers on young Arctic sea ice, comparison between different ice types. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microorganisms_in_frost_flowers_on_young_arctic_sea_ice&v=1.0

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: 5953581e-6345-48ce-9887-1783808c7cde.  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?:

David Barber
University of Manitoba Winnipeg CA
J.K. Ehn
University of Manitoba Winnipeg CA
M. Pucko
University of Manitoba Winnipeg CA
S. Rysgaard
University of Manitoba Winnipeg CA
J.W. Deming
University of Washington Seattle US
J.S. Bowman
University of Washington Seattle US
T. Papakyriakou
University of Manitoba Winnipeg CA
R.J. Galley
University of Manitoba Winnipeg CA
D.H. Sogaard
Greenland Institute of Natural Resources Nuuk GL

¿Quién puede resolver dudas acerca del recurso?:

David Barber
University of Manitoba Winnipeg CA

¿Quién documentó los metadatos?:

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

¿Quién más está asociado con el recurso?:

Usuario

Cobertura Geográfica

Young Sound, North-East Greenland

Coordenadas límite Latitud Mínima Longitud Mínima [74.468, -20.311], Latitud Máxima Longitud Máxima [74.468, -20.311]

Cobertura Taxonómica

Bacteria were profiled by targeting the 16S ssu rRNA gene (v3-v5 region)

Dominio  Bacteria (Bacteria)

Cobertura Temporal

Periodo de Formación 2012-03

Datos del Proyecto

No hay descripción disponible

Título Microorganisms in frost flowers on young Arctic sea ice, comparison between different ice types
Fuentes de Financiación Canada Excellence Research Chair (CERC) and Canada Research Chair programs, the Natural Sciences and Engineering Research Council, the Canada Foundation for Innovation, the U.S. National Science Foundation (award OPP‐ARC1205152) and Walters Endowed Professorship (J.W.D.).

Personas asociadas al proyecto:

David Barber

Métodos de Muestreo

Frost flowers for microbial analyses were removed from the pond site into sterile 1 L plastic bags using an ethanol‐rinsed spatula. A second scraping over the same surface area yielded the corresponding, operationally defined brine skim, i.e., the surface slush layer. Samples of sea ice were also collected, as described above, along with the samples of seawater and snow from the surrounding area. Samples of frost flowers, the underlying surface slush layer, and snow were melted directly over the shortest possible period (always <12 h, with sample temperature remaining at ≤0°C), while sea ice samples were melted into sterile 0.2 µm filtered brine according to the isohaline approach described by Ewert et al. [2013].

Área de Estudio The thin‐ice station, POLY I (74°13.905′N, 20°07.701′W, 29–30 cm thick on 22 March, snow covered with varying thickness), was situated in a recurrent winter polynya region about 3 km off the landfast ice edge.

Descripción de la metodología paso a paso:

  1. An area of ~2.5 × 7 m was opened near POLY I at 16:00 geomagnetic time (GMT) on 22 March to expose the ocean to the atmosphere (hereinafter referred to as the “pond” site). The opening of the pond was done using a handheld ice saw by cutting smaller segments that then were pushed to the side underneath the ice cover. A time‐lapse camera was installed at the pond site to document the development of frost flowers as the ice formed in situ. Half of the pond was reopened on 24 March at 15:00 GMT, i.e., after about 47 h of the initial pond opening. At this time, the initial ice was ~12 cm thick. The recurrent polynya at this location will occur as open water (as evidenced by satellite imagery just prior to our arrival) or with a young ice cover (like we experienced); frost flowers are known to occur regularly on this polynya ice.
  2. DNA was extracted from the different sample types for amplification and sequencing of the 16S ribosomal ribonucleic acid (rRNA) gene using the phenol‐chloroform method, as in Bowman et al. (2013). One patch of frost flowers was sampled to obtain the upper centimeter portions separately from the basal portions. The V3–V5 regions of the 16S rRNA gene were amplified using primers 357F and 926R for 30 cycles. An aliquot of the amplified material, along with positive and negative controls, was visualized on a gel to insure proper fragment length. Amplicons were purified using the GeneJet Purification Kit (Fermentas) and submitted to the Tufts University Sequencing Center, where amplicons underwent a second round amplification for 10 cycles using barcoded primers 517F and 967R. Second round amplicons were gel purified prior to library construction. Sequencing was conducted on the 454 FLX platform (Roche) using titanium chemistry.

Referencias Bibliográficas

  1. Barber, D. G., Ehn, J. K., Pućko, M., Rysgaard, S., Deming, J. W., Bowman, J. S., ... & Søgaard, D. H. (2014). Frost flowers on young Arctic sea ice: The climatic, chemical, and microbial significance of an emerging ice type. Journal of Geophysical Research: Atmospheres, 119(20), 11-593. https://doi.org/10.1002/2014JD021736