microbial Eukaryotes in lakes along an Argentinian-Antarctic geographical gradient

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Dernière version Publié par SCAR - Microbial Antarctic Resource System le mars 20, 2019 SCAR - Microbial Antarctic Resource System
Date de publication:
20 mars 2019
Licence:
CC-BY 4.0

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Description

Amplicon sequencing dataset (Illumina HiSeq) of Eukaryotes (18S) in lakes along a latitudinal gradient from Southern Argentina to maritime Antarctica

Versions

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Comment citer

Les chercheurs doivent citer cette ressource comme suit:

Schiaffino R, Lara E, Fernandez L, Balagué V, Singer D, Seppey C, Massana R, Izaguirre I (2019): microbial Eukaryotes in lakes along an Argentinian-Antarctic geographical gradient. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=microbial_eukaryotes_in_antarctic_and_argentinian_lakes&v=1.0

Droits

Les chercheurs doivent respecter la déclaration de droits suivante:

L’éditeur et détenteur des droits de cette ressource est SCAR - Microbial Antarctic Resource System. Ce travail est sous licence Creative Commons Attribution (CC-BY) 4.0.

Enregistrement GBIF

Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : bc44c279-bfe6-4827-80b4-06dcb9aa7908.  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

Romina Schiaffino
  • Créateur ●
  • Personne De Contact
Centro de Investigaciones y transferencia del Noroeste de la Provincia de Buenos Aires
Junin
AR
Enrique Lara
  • Créateur
University of Neuchâtel
Neuchâtel
CH
Leonardo Fernandez
  • Créateur
University of Neuchâtel
Neuchâtel
CH
Vanessa Balagué
  • Créateur
Institut de Ciències del Mar
Barcelona
ES
David Singer
  • Créateur
University of Neuchâtel
Neuchâtel
CH
Christophe Seppey
  • Créateur
University of Neuchâtel
Neuchâtel
CH
Ramon Massana
  • Créateur
Institut de Ciències del Mar
Barcelona
ES
Irina Izaguirre
  • Créateur
Universidad de Buenos Aires
Buenos Aires
AR
Maxime Sweetlove
  • Fournisseur Des Métadonnées
Research assistent
Royal Belgian Institute of Natural Sciences
Rue Vautier 29
1000 Brussels
BE

Couverture géographique

Latitudinal gradient from Patagonia and Terra del Fuego (Argentina) to the Antarctic Peninsula

Enveloppe géographique Sud Ouest [-63,4, -71,51], Nord Est [-45,55, -57]

Couverture taxonomique

microbial eukaryotes were profiled by targeting the 18S ssu rRNA gene (v9 region)

Domain Eukaryota (Eukaryotes)

Couverture temporelle

Date de début / Date de fin 2004-01-15 / 2008-10-20

Données sur le projet

Pas de description disponible

Titre microbial Eukaryotes in lakes along an Argentinian-Antarctic geographical gradient
Financement This work was supported by a grant from the Argentinean Funds for Technical and Scientific Investigation (FONCYT, PICT 32732 and PICT 2013‐0794), the Spanish Project MIXANTAR (REN 2002‐11396‐E/ANT), the Swiss NSF project 310003A_143960 and the Program ‘Luis Santaló’ of the National Research Council of Spain and the National Council of Scientific and Technical Research of Argentina (CSIC‐CONICET, PROBA 2007AR0018).

Les personnes impliquées dans le projet:

Romina Schiaffino

Méthodes d'échantillonnage

Integrated samples were collected within the euphotic zone from the surface down to 5 m in deep lakes and from about 30 cm below the surface in shallow lakes.

Etendue de l'étude Samples were collected once in 14 freshwater bodies (ranging from oligotrophic to eutrophic) from Chubut Province, Argentinean Patagonia, to Hope Bay, Antarctic Peninsula (45º22′ to 63º24′ S of latitude) (Fig. 1). In Antarctic lakes, samples were taken during the austral summer 2004, whereas in Patagonian lakes, samples were collected in late spring 2007 and 2008.

Description des étapes de la méthode:

  1. Water samples were pre‐filtered in situ through a 50 µm net to remove zooplankton, then filtered with a vacuum pump first through a 20 µm pore‐size polycarbonate filter and then through a 3 µm and 0.2 µm pore‐size polycarbonate filters (diameter 47 mm; Millipore, Cork, Ireland). The filters were placed in cryovials with 1.8 ml of lysis buffer (40 mM EDTA, 50 mM Tris‐HCl, 0.75 M sucrose) and stored at −80°C until DNA extraction. The 0.2–3 µm size fraction was used for this study. The procedures followed for DNA extraction (phenol/chloroform extraction) and touchdown polymerase chain reaction (PCR) amplifications were previously described in detail (Unrein et al., 2005).
  2. We amplified extracted DNA using primers specific to the V9 variable region of the 18S rRNA gene using the protocol as in Amaral‐Zettler et al. (2009), and adapted after Lara et al. (2015). Sequencing was performed by the company Fasteris (Geneva, Switzerland) using Illumina HiSeq 2500 technology; paired end reads were around 200 bp in length.

Citations bibliographiques

  1. Schiaffino, M. R., Lara, E., Fernández, L. D., Balagué, V., Singer, D., Seppey, C. C., ... & Izaguirre, I. (2016). Microbial eukaryote communities exhibit robust biogeographical patterns along a gradient of Patagonian and Antarctic lakes. Environmental microbiology, 18(12), 5249-5264. https://doi.org/10.1111/1462-2920.13566