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PMID: 14766555 Published · ppublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Phylogenetic composition of Arctic Ocean archaeal assemblages and comparison with Antarctic assemblages.

Applied and environmental microbiology ·Vol. 70 ·No. 2 ·2004-02-00 ·Pages 781-9

Bano N, Ruffin S, Ransom B, Hollibaugh JT

Abstract

Archaea assemblages from the Arctic Ocean and Antarctic waters were compared by PCR-denaturing gradient gel electrophoresis (DGGE) analysis of 16S rRNA genes amplified using the Archaea-specific primers 344f and 517r. Inspection of the DGGE fingerprints of 33 samples from the Arctic Ocean (from SCICEX submarine cruises in 1995, 1996, and 1997) and 7 Antarctic samples from Gerlache Strait and Dallman Bay revealed that the richness of Archaea assemblages was greater in samples from deep water than in those from the upper water column in both polar oceans. DGGE banding patterns suggested that most of the Archaea ribotypes were common to both the Arctic Ocean and the Antarctic Ocean. However, some of the Euryarchaeota ribotypes were unique to each system. Cluster analysis of DGGE fingerprints revealed no seasonal variation but supported depth-related differences in the composition of the Arctic Ocean Archaea assemblage. The phylogenetic composition of the Archaea assemblage was determined by cloning and then sequencing amplicons obtained from the Archaea-specific primers 21f and 958r. Sequences of 198 clones from nine samples covering three seasons and all depths grouped with marine group I Crenarchaeota (111 clones), marine group II Euryarchaeota (86 clones), and group IV Euryarchaeota (1 clone). A sequence obtained only from a DGGE band was similar to those of the marine group III Euryarchaeota:

MeSH Terms

Antarctic Regions Archaea/classification,genetics Arctic Regions DNA Fingerprinting/methods DNA, Archaeal/analysis Ecosystem Electrophoresis/methods Molecular Sequence Data Phylogeny Polymerase Chain Reaction RNA, Ribosomal, 16S/genetics Seawater/microbiology Sequence Analysis, DNA

Chemicals

DNA, Archaeal RNA, Ribosomal, 16S

Authors & Affiliations

4 authors, click to expand affiliations / ORCID

Bano Nasreen

Department of Marine Sciences, University of Georgia, Athens, Georgia 30602-3636, USA.

Ruffin Shomari

Ransom Briana

Hollibaugh James T

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Article Info

Journal

Applied and environmental microbiology

Abbr.

Appl Environ Microbiol

ISSN

0099-2240

DOI

10.1128/AEM.70.2.781-789.2004

Published

2004-02-00

Pages

781-9

Language

English

Region

United States

NLM ID

7605801

PMCID

PMC348845

Subset

Databases

GENBANK

AY288356, AY288357, AY288358, AY288359, AY288360, AY288361, AY288362, AY288363, AY288364, AY288365, AY288366, AY288367, AY288368, AY288369, AY288370, AY288371, AY288372, AY288373, AY288374, AY288375, AY288376, AY288377, AY288378, AY288380, AY288381, AY288382, AY288383, AY288384, AY288386, AY288387, AY288388, AY288389, AY288390, AY288391, AY288392, AY288393, AY288394, AY288395, AY288396, AY288397, AY288398, AY288399, AY288400, AY288401, AY288402, AY288403, AY288404, AY288405, AY288406, AY288407, AY288409

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PubMed source DOI: 10.1128/AEM.70.2.781-789.2004 PMC Full Text View journal details

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Phylogenetic composition of Arctic Ocean archaeal assemblages and comparison with Antarctic assemblages.

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