microbial Eukaryotes in lakes along an Argentinian-Antarctic geographical gradient

Dernière version Publié par SCAR - Microbial Antarctic Resource System le Mar 20, 2019 SCAR - Microbial Antarctic Resource System

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

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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

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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.

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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

Personne ayant créé cette ressource:

Romina Schiaffino
Centro de Investigaciones y transferencia del Noroeste de la Provincia de Buenos Aires Junin AR
Enrique Lara
University of Neuchâtel Neuchâtel CH
Leonardo Fernandez
University of Neuchâtel Neuchâtel CH
Vanessa Balagué
Institut de Ciències del Mar Barcelona ES
David Singer
University of Neuchâtel Neuchâtel CH
Christophe Seppey
University of Neuchâtel Neuchâtel CH
Ramon Massana
Institut de Ciències del Mar Barcelona ES
Irina Izaguirre
Universidad de Buenos Aires Buenos Aires AR

Personne pouvant répondre aux questions sur la ressource:

Romina Schiaffino
Centro de Investigaciones y transferencia del Noroeste de la Provincia de Buenos Aires Junin AR

Personne ayant renseigné les métadonnées:

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

Autres personnes associées à la ressource:

Utilisateur

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