Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin
P>The distribution of the archaeal communities in deep subseafloor sediments [0-36 m below the seafloor (mbsf)] from the New Caledonia and Fairway Basins was investigated using DNA- and RNA-derived 16S rRNA clone libraries, functional genes and denaturing gradient gel electrophoresis (DGGE). A ne...
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Wiley / Blackwell
2009
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ftarchimer:oai:archimer.ifremer.fr:6801 2023-05-15T17:12:06+02:00 Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin Roussel, Erwan Sauvadet, Anne-laure Chaduteau, Carine Fouquet, Yves Charlou, Jean-luc Prieur, Daniel Cambon, Marie-anne 2009-09 application/pdf https://archimer.ifremer.fr/doc/2009/publication-6801.pdf https://doi.org/10.1111/j.1462-2920.2009.01976.x https://archimer.ifremer.fr/doc/00000/6801/ eng eng Wiley / Blackwell https://archimer.ifremer.fr/doc/2009/publication-6801.pdf doi:10.1111/j.1462-2920.2009.01976.x https://archimer.ifremer.fr/doc/00000/6801/ 2009 Society for Applied Microbiology and Wiley - Blackwell Publishing Ltd. info:eu-repo/semantics/openAccess restricted use Environmental Microbiology (1462-2912) (Wiley / Blackwell), 2009-09 , Vol. 11 , N. 9 , P. 2446-2462 marine subsurface sediments sea floor biosphere gradient gel electrophoresis microbial communities molecular diversity anaerobic oxidation sequence alignment phylogenetic trees extracellular DNA methane hydrate text Publication info:eu-repo/semantics/article 2009 ftarchimer https://doi.org/10.1111/j.1462-2920.2009.01976.x 2021-09-23T20:17:28Z P>The distribution of the archaeal communities in deep subseafloor sediments [0-36 m below the seafloor (mbsf)] from the New Caledonia and Fairway Basins was investigated using DNA- and RNA-derived 16S rRNA clone libraries, functional genes and denaturing gradient gel electrophoresis (DGGE). A new method, Co-Migration DGGE (CM-DGGE), was developed to access selectively the active archaeal diversity. Prokaryotic cell abundances at the open-ocean sites were on average similar to 3.5 times lower than at a site under terrestrial influence. The sediment surface archaeal community (0-1.5 mbsf) was characterized by active Marine Group 1 (MG-1) Archaea that co-occurred with ammonia monooxygenase gene (amoA) sequences affiliated to a group of uncultured sedimentary Crenarchaeota. However, the anoxic subsurface methane-poor sediments (below 1.5 mbsf) were dominated by less active archaeal communities, such as the Thermoplasmatales, Marine Benthic Group D and other lineages probably involved in the methane cycle (Methanosarcinales, ANME-2 and DSAG/MBG-B). Moreover, the archaeal diversity of some sediment layers was restricted to only one lineage (Uncultured Euryarchaeota, DHVE6, MBG-B, MG-1 and SAGMEG). Sequences forming two clusters within the Thermococcales order were also present in these cold subseafloor sediments, suggesting that these uncultured putative thermophilic archaeal communities might have originated from a different environment. This study shows a transition between surface and subsurface sediment archaeal communities. Article in Journal/Newspaper Methane hydrate Archimer (Archive Institutionnelle de l'Ifremer - Institut français de recherche pour l'exploitation de la mer) Environmental Microbiology 11 9 2446 2462 |
institution |
Open Polar |
collection |
Archimer (Archive Institutionnelle de l'Ifremer - Institut français de recherche pour l'exploitation de la mer) |
op_collection_id |
ftarchimer |
language |
English |
topic |
marine subsurface sediments sea floor biosphere gradient gel electrophoresis microbial communities molecular diversity anaerobic oxidation sequence alignment phylogenetic trees extracellular DNA methane hydrate |
spellingShingle |
marine subsurface sediments sea floor biosphere gradient gel electrophoresis microbial communities molecular diversity anaerobic oxidation sequence alignment phylogenetic trees extracellular DNA methane hydrate Roussel, Erwan Sauvadet, Anne-laure Chaduteau, Carine Fouquet, Yves Charlou, Jean-luc Prieur, Daniel Cambon, Marie-anne Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin |
topic_facet |
marine subsurface sediments sea floor biosphere gradient gel electrophoresis microbial communities molecular diversity anaerobic oxidation sequence alignment phylogenetic trees extracellular DNA methane hydrate |
description |
P>The distribution of the archaeal communities in deep subseafloor sediments [0-36 m below the seafloor (mbsf)] from the New Caledonia and Fairway Basins was investigated using DNA- and RNA-derived 16S rRNA clone libraries, functional genes and denaturing gradient gel electrophoresis (DGGE). A new method, Co-Migration DGGE (CM-DGGE), was developed to access selectively the active archaeal diversity. Prokaryotic cell abundances at the open-ocean sites were on average similar to 3.5 times lower than at a site under terrestrial influence. The sediment surface archaeal community (0-1.5 mbsf) was characterized by active Marine Group 1 (MG-1) Archaea that co-occurred with ammonia monooxygenase gene (amoA) sequences affiliated to a group of uncultured sedimentary Crenarchaeota. However, the anoxic subsurface methane-poor sediments (below 1.5 mbsf) were dominated by less active archaeal communities, such as the Thermoplasmatales, Marine Benthic Group D and other lineages probably involved in the methane cycle (Methanosarcinales, ANME-2 and DSAG/MBG-B). Moreover, the archaeal diversity of some sediment layers was restricted to only one lineage (Uncultured Euryarchaeota, DHVE6, MBG-B, MG-1 and SAGMEG). Sequences forming two clusters within the Thermococcales order were also present in these cold subseafloor sediments, suggesting that these uncultured putative thermophilic archaeal communities might have originated from a different environment. This study shows a transition between surface and subsurface sediment archaeal communities. |
format |
Article in Journal/Newspaper |
author |
Roussel, Erwan Sauvadet, Anne-laure Chaduteau, Carine Fouquet, Yves Charlou, Jean-luc Prieur, Daniel Cambon, Marie-anne |
author_facet |
Roussel, Erwan Sauvadet, Anne-laure Chaduteau, Carine Fouquet, Yves Charlou, Jean-luc Prieur, Daniel Cambon, Marie-anne |
author_sort |
Roussel, Erwan |
title |
Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin |
title_short |
Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin |
title_full |
Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin |
title_fullStr |
Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin |
title_full_unstemmed |
Archaeal communities associated with shallow to deep subseafloor sediments of the New Caledonia Basin |
title_sort |
archaeal communities associated with shallow to deep subseafloor sediments of the new caledonia basin |
publisher |
Wiley / Blackwell |
publishDate |
2009 |
url |
https://archimer.ifremer.fr/doc/2009/publication-6801.pdf https://doi.org/10.1111/j.1462-2920.2009.01976.x https://archimer.ifremer.fr/doc/00000/6801/ |
genre |
Methane hydrate |
genre_facet |
Methane hydrate |
op_source |
Environmental Microbiology (1462-2912) (Wiley / Blackwell), 2009-09 , Vol. 11 , N. 9 , P. 2446-2462 |
op_relation |
https://archimer.ifremer.fr/doc/2009/publication-6801.pdf doi:10.1111/j.1462-2920.2009.01976.x https://archimer.ifremer.fr/doc/00000/6801/ |
op_rights |
2009 Society for Applied Microbiology and Wiley - Blackwell Publishing Ltd. info:eu-repo/semantics/openAccess restricted use |
op_doi |
https://doi.org/10.1111/j.1462-2920.2009.01976.x |
container_title |
Environmental Microbiology |
container_volume |
11 |
container_issue |
9 |
container_start_page |
2446 |
op_container_end_page |
2462 |
_version_ |
1766068857979535360 |