Bacteria on mummified seals in the Antarctic Dry Valleys

Dernière version Publié par SCAR - Microbial Antarctic Resource System le Mar 19, 2019 SCAR - Microbial Antarctic Resource System

Amplicon dataset of Bacteria (16S ssu rRNA) living around mummified seal carcasses in the Antarctic Dry Valleys

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Comment citer

Les chercheurs doivent citer cette ressource comme suit:

Tiao G, Lee C, McDonald I, Cowan D, Cary C (2019): Bacteria on mummified seals in the Antarctic Dry Valleys. v1.2. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=antarctic_dry_valley_mummified_seal_microbiome&v=1.2

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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.

Enregistrement GBIF

Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : a3fb3af6-724d-4de3-ace8-4fa21cc729ed.  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:

Grace Tiao
University of Waikato Hamilton NZ
Charles Lee
University of Waikato Hamilton NZ
Ian McDonald
University of Waikato Hamilton NZ
Donald Cowan
University of the Western Cape Cape Town ZA
Craig Cary
University of Waikato Hamilton NZ

Personne pouvant répondre aux questions sur la ressource:

Grace Tiao
University of Waikato Hamilton NZ

Personne ayant renseigné les métadonnées:

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

Autres personnes associées à la ressource:

Utilisateur

Couverture géographique

soil samples from under and around mummified crabeater seal near Lake Miers (S 78°05′36″, E 163°51′22″), Miers Valley, Victoria Land, Antarctica, that was transported to a similar site 20 m north.

Enveloppe géographique Sud Ouest [-78.933, 163.856], Nord Est [-78.933, 163.856]

Couverture taxonomique

Amplicin sequencing of Bacteria (16S ssu rRNA gene)

Domain  Bacteria (Bacteria)

Couverture temporelle

Date de début / Date de fin 2005-01-15 / 2009-01-15

Données sur le projet

Pas de description disponible

Titre Seal Movement
Financement This work was supported through grants from the New Zealand Foundation for Research Science and Technology, Antarctica New Zealand, and the National Science Foundation (OPP-0739648 and 0944560). Additional support was provided by a George Peabody Gardner Fellowship, by the New Zealand Foundation for Research, Science and Technology Postdoctoral Research Fellowship and the New Zealand Marsden Foundation (UOW1003).

Les personnes impliquées dans le projet:

Grace Tiao

Méthodes d'échantillonnage

Soil samples (>10 g each) were collected aseptically at a depth of 0.05m. Samples were stored in sterile plastic containers at −80 °C until analysis.

Etendue de l'étude On 30 January 2006, a mummified crabeater seal was carried from its original resting site near Lake Miers (S 78°05′36″, E 163°51′22″), Miers Valley, Victoria Land, Antarctica, to a new site of similar geomorphology 20 m north. Samples for amplicon sequencing were taken from the original site before transportation (austral summer 2005), the new site before transportation (control, austral summer 2006), and the new site after incubation (austral summer 2009)

Description des étapes de la méthode:

  1. 16S rRNA gene were generated using the primer pair Tx9 (5′-GGATTAGAWACCCBGGTAGTC-3′) and 1391R (5′-GACGGGCRGTGWGTRCA-3′). PCR was performed in triplicate and pooled to reduce stochastic variability between reactions. Each 30 μl reaction contained 5 or 20 ng of extracted community DNA, Pfx polymerase and platinum polymerase (0.5 U each; Invitrogen), 1× Pfx PCR buffer with Pfx enhancer, 0.2 mM dNTPs, 1 mM MgCl2, 0.02 mg ml−1 BSA, 0.8 μM of forward and reverse primer, and PCR-grade water. Thermal cycling conditions were 94 °C for 2 min; 18 or 24 cycles of 94 °C for 15 s, 55 °C for 30 s and 68 °C for 1 min; and 68 °C for 3 min.
  2. Amplicons were size-selected and purified using polyacrylamide gel electrophoresis before being prepared for pyrosequencing by Taxon Biosciences (Tiburon, CA, USA).

Citations bibliographiques

  1. Tiao, G., Lee, C. K., McDonald, I. R., Cowan, D. A., & Cary, S. C. (2012). Rapid microbial response to the presence of an ancient relic in the Antarctic Dry Valleys. Nature Communications, 3, 660.

Métadonnées additionnelles

Identifiants alternatifs a3fb3af6-724d-4de3-ace8-4fa21cc729ed
https://ipt.biodiversity.aq/resource?r=antarctic_dry_valley_mummified_seal_microbiome