元數據

Archaea from the ANDEEP3 expedition

最新版本 由 Antarctic Biodiversity Information Facility (ANTABIF) 發佈於 2019年3月19日 Antarctic Biodiversity Information Facility (ANTABIF)
發布日期:
2019年3月19日
授權條款:
CC-BY 4.0

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說明

This dataset describes a 16S ribosomal DNA clone library analysis, performed to assess archaeal diversity within three surficial sediment samples obtained from the bathypelagic zone (depth : 2,165 -3,406 m) of the Weddell Sea, Antarctica. The nearly complete 16S rDNA gene (1440 bp) was obtained for 146 clones and 46 phylotypes were defined. The majority of the sequences (> 99%) formed three clusters within the Marine Group I Crenarchaeota. The most important cluster, with 78.8% of the clones, included Candidatus Nitrosopumilus maritimus, a mesophilic archaeon able to oxidize ammonia. The most important subgroup in that cluster was the APA4-0cm subgroup (with 62.3% of the clones). This subgroup might represent important Crenarchaeota in the functioning of the bathypelagic sedimentary ecosystems of the Weddell Sea because it dominated the clone libraries in all sampling stations, and was found in sediments separated by very large geographic distances. Only one clone grouped within the Euryarchaeota. This euryarchaeal clone could not be affiliated with any of the previously defined clusters and might represent a novel Euryarchaeal lineage

版本

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如何引用

研究者應依照以下指示引用此資源。:

Gillan, David C., and Bruno Danis. 2007. The archaebacterial communities in Antarctic bathypelagic sediments. Deep Sea Research Part II: Topical Studies in Oceanography 54 (16-17) (August): 1682-1690.

權利

研究者應尊重以下權利聲明。:

此資料的發布者及權利單位為 Antarctic Biodiversity Information Facility (ANTABIF)。 This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.

GBIF 註冊

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關鍵字

EARTH SCIENCE; BIOLOGICAL CLASSIFICATION; BACTERIA/ARCHAEA

聯絡資訊

資源建立者:
-

Bruno Danis
Antarctic Biodiversity Information Facility
29, rue Vautier
1000 Brussels
BE
http://www.biodiversity.aq

可回覆此資源相關問題者:

Bruno Danis
Antarctic Biodiversity Information Facility
29, rue Vautier
1000 Brussels
BE
http://www.biodiversity.aq

元數據填寫者:
-

Bruno Danis
Antarctic Biodiversity Information Facility
29, rue Vautier
1000 Brussels
BE
http://www.biodiversity.aq

與此資源的相關者:

Bruno Danis
使用者
Antarctic Biodiversity Information Facility
29, rue Vautier
1000 Brussels
BE
http://www.biodiversity.aq
David Gillan
作者
Laboratoire de Biologie Marine
50, av FD Roosevelt
Brussels
BE

地理涵蓋範圍

ANDEEP 3 cruise track, from Cape Town (SA) to Punta Arenas (CH). Four study regions were selected, but the main focus was on the Powell Basin and the Weddell Basin of the Weddell Sea, and their slopes. Two comparative samples were taken further north in the adjacent Agulhas and southern Cape Basins, which are separated from each other by the Agulhas Ridge. Four study regions were selected, but the main focus was on the Powell Basin and the Weddell Basin of the Weddell Sea, and their slopes. The major South Atlantic deep-sea basins started forming during Jurassic and Cretaceous times in connection with the Gondwana break-up and seafloor spreading (Brandt et al., 2004a, 2007; Lawver and Gahagan, 2003). The Weddell Basin is separated from the northerly basins by the South- west India Ridge (LaBrecque, 1986). The Powell Basin on the western side of the Weddell Sea was formed in the Tertiary by geological processes opening the Drake Passage and tectonic movements in the Scotia Sea (Lawver and Gahagan, 2003; Mitchell et al., 2000). The oceanography of the deep South Atlantic seafloor is defined by its prominent water mass, the Antarctic Bottom Water (Tomczak and Godfrey, 2001). The Antarctic Bottom Water expands north- wards into the Atlantic basins east and west of the Mid-Atlantic Ridge, like the Agulhas Basin, but can only enter the basins north of the Walvis Ridge (e.g., Cape Basin) via the northerly Romanche Fracture Zone. The Weddell Sea Bottom Water (WSBW), defined by a temperature of 0.7 1C and a salinity of 34.64 ppt (Orsi et al., 1993), is the main water mass above the Weddell Sea benthos (Fahrbach et al., 2001). The WSBW flows from the western Weddell Sea into the Scotia Sea and South Sandwich Forearc, and its circulation is driven by the Weddell Sea gyre. The sediments in the bathyal and abyssal Weddell and Powell Basins are dominated by silt and clay.

界定座標範圍 緯度南界 經度西界 [-71.31, 0], 緯度北界 經度東界 [-61.5, 64.64]

分類群涵蓋範圍

無相關描述

Domain Archaea

時間涵蓋範圍

起始日期 2005-02-21
起始日期 2005-03-14
起始日期 2005-03-18

計畫資料

無相關描述

計畫名稱 ANDEEP: Antarctic Deep Sea Biodiversity
研究區域描述 The study area of this dataset was set in the Southern Ocean and focused on deep sea stations distributed on the continental slopes of the eastern Weddell Sea (off Kapp Norvegia) and western Weddell Sea and the South Orkney Islands, and deep Cape, Agulhas, Weddell and Powell BasinsSouthern Ocean. The Southern Ocean deep-sea is a very under sampled area, according to a recent gap analysis carried out by Griffiths et al (2011).

參與計畫的人員:

Angelika Brandt
研究主持人

取樣方法

Archaeal communities were analyzed in sediments in three bathypelagic stations (2200-3400m) sampled during the ANTXXII-3 cruise of RV Polarstern (ANDEEP3). Sediments were sampled using a box-corer. The sediments were immediately and aseptically sampled using 3 ml polyethylene (PET) cryovials (top 2 cm of the sediments). The cryovials were immediately frozen in liquid nitrogen and the samples were then stored at -20°C. Six replicate samples of the same core were collected at each site.

研究範圍 Bathypelagic sediment samples were taken from 3 stations during the ANDEEP3 expedition to the Weddell Sea.
品質控管 PCR-generated chimeric sequences were first detected and eliminated using three different softwares : CHIMERA_CHECK version 2.7 of the Ribosomal Database Project II (Cole et al., 2003), Bellerophon (Huber et al., 2004), and Pintail version 0.33 (Ashelford et al., 2005). Sequences were then submitted to BLAST version 2.2.12 to identify the closest relatives and download their 16S rDNA sequence (Madden et al., 1996). All sequences were manually aligned and analyzed using Se-Al version 2.0a11 (Rambaut, 1996). Alignments and similarity calculations were also performed using the EMBOSS-Align tool of the EMBL-EBI (http://www.ebi.ac.uk). Distance and maximum-likelihood trees were generated with the Phylip program package, version 3.6 (Felsenstein, 2002). Distance trees were generated with "Dnadist" using Jukes-Cantor distances and Neighbour-Joining. Maximum-likelihood trees were generated with "Dnaml" (Ti/Tv=2.0; empirical base frequencies, one category of sites with a constant rate of variation). The statistical significance of the phylogenetic groups within the trees was tested by using bootstrap analysis with the Phylip programs "Seqboot" and "Consense" (100 bootstrap replicates, using using Jukes-Cantor distances and Neighbour-Joining). Trees were created using the program Treeview (version 1.6.6.).

方法步驟描述:

  1. A MICROBIAL_SEQUENCE_SET Description file describing 3 data sets was uploaded to the ANTABIF IPT instance (http://ipt.biodiversity.aq).

引用文獻

  1. Brandt A, Gooday AJ, Brandao SN, Brix S, Brökeland W, Cedhagen T, Choudhury M, Cornelius N, Danis B, De Mesel I, Diaz RJ, Gillan DC, Ebbe B, Howe JA, Janussen D, Kaiser S, Linse K, Malyutina M, Pawlowski J, Raupach M, Vanreusel A, 2007. First insights into the biodiversity and biogeography of the Southern Ocean deep sea. Nature 447:307-311. http://dx.doi.org/10.1038/nature05827

額外的詮釋資料