Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses
Here we present a pilot study demonstrating, that preservation with mercury chloride allows the application of PCR-based molecular methods for the characterization of marine protist communities collected with moored long-term sediment traps. They can provide information on pelagic protist communitie...
Published in: | Frontiers in Marine Science |
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2017
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Online Access: | https://epic.awi.de/id/eprint/45624/ https://epic.awi.de/id/eprint/45624/1/Metfiesetal2017.pdf https://hdl.handle.net/10013/epic.51717 https://hdl.handle.net/10013/epic.51717.d001 |
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ftawi:oai:epic.awi.de:45624 2024-09-15T17:51:42+00:00 Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses Metfies, Katja Bauerfeind, Eduard Wolf, Christian Sprong, Pim Frickenhaus, Stephan Kaleschke, Lars Nicolaus, Anja Nöthig, Eva-Maria 2017-09-17 application/pdf https://epic.awi.de/id/eprint/45624/ https://epic.awi.de/id/eprint/45624/1/Metfiesetal2017.pdf https://hdl.handle.net/10013/epic.51717 https://hdl.handle.net/10013/epic.51717.d001 unknown https://epic.awi.de/id/eprint/45624/1/Metfiesetal2017.pdf https://hdl.handle.net/10013/epic.51717.d001 Metfies, K. orcid:0000-0003-3073-8033 , Bauerfeind, E. , Wolf, C. , Sprong, P. , Frickenhaus, S. orcid:0000-0002-0356-9791 , Kaleschke, L. , Nicolaus, A. orcid:0000-0002-2026-3540 and Nöthig, E. M. orcid:0000-0002-7527-7827 (2017) Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses , Frontiers in Marine Sciences . doi:10.3389/fmars.2017.00301 <https://doi.org/10.3389/fmars.2017.00301> , hdl:10013/epic.51717 EPIC3Frontiers in Marine Sciences Article isiRev 2017 ftawi https://doi.org/10.3389/fmars.2017.00301 2024-06-24T04:18:50Z Here we present a pilot study demonstrating, that preservation with mercury chloride allows the application of PCR-based molecular methods for the characterization of marine protist communities collected with moored long-term sediment traps. They can provide information on pelagic protist communities by collecting sinking plankton from the upper water column all year-round, even in remote polar oceans. Assessment of small protist species from the nano- and picoplankton fractions in sedimented material by microscopy is extremely challenging or almost impossible. Hence, comprehensive studies of variability in protist community composition in moored long-term sediment traps are scarce. Considering that marine nano- and picoeukaryotes are ecologically very important, new approaches are urgently needed to investigate protists in the smallest size-fractions of moored long-term sediment trap samples. We applied the quick and cost-effective Terminal Restriction Length Polymorphism (T-RFLP) on a set of selected samples that were collected between 2000 and 2010 in September at a depth of ~300 m in the area of the “LTER (Long-Term Ecological Research) site HAUSGARTEN” in the eastern Fram Strait (Arctic). The results of these analyses suggest a change in the trapped protist community after 2002 in this area. A comparison of 18S sequences obtained via 454-pyrosequencing from samples collected in the water column and mercury chloride preserved sediment traps in 2009 and 2010 suggests, that sediment traps might reflect the pelagic eukaryotic microbial biodiversity qualitatively. Furthermore, we have indication that preservation with mercury chloride does not severely change the nucleotide composition of 18S rRNA genes in long-term sediment traps. Overall, we suggest that preservation with mercury chloride is a key to open the door for molecular genetic analyses of long-term sediment trap samples, and that PCR-based molecular methods have a strong potential to become an important tool for comprehensive taxonomic analyses of ... Article in Journal/Newspaper Arctic Fram Strait Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) Frontiers in Marine Science 4 |
institution |
Open Polar |
collection |
Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) |
op_collection_id |
ftawi |
language |
unknown |
description |
Here we present a pilot study demonstrating, that preservation with mercury chloride allows the application of PCR-based molecular methods for the characterization of marine protist communities collected with moored long-term sediment traps. They can provide information on pelagic protist communities by collecting sinking plankton from the upper water column all year-round, even in remote polar oceans. Assessment of small protist species from the nano- and picoplankton fractions in sedimented material by microscopy is extremely challenging or almost impossible. Hence, comprehensive studies of variability in protist community composition in moored long-term sediment traps are scarce. Considering that marine nano- and picoeukaryotes are ecologically very important, new approaches are urgently needed to investigate protists in the smallest size-fractions of moored long-term sediment trap samples. We applied the quick and cost-effective Terminal Restriction Length Polymorphism (T-RFLP) on a set of selected samples that were collected between 2000 and 2010 in September at a depth of ~300 m in the area of the “LTER (Long-Term Ecological Research) site HAUSGARTEN” in the eastern Fram Strait (Arctic). The results of these analyses suggest a change in the trapped protist community after 2002 in this area. A comparison of 18S sequences obtained via 454-pyrosequencing from samples collected in the water column and mercury chloride preserved sediment traps in 2009 and 2010 suggests, that sediment traps might reflect the pelagic eukaryotic microbial biodiversity qualitatively. Furthermore, we have indication that preservation with mercury chloride does not severely change the nucleotide composition of 18S rRNA genes in long-term sediment traps. Overall, we suggest that preservation with mercury chloride is a key to open the door for molecular genetic analyses of long-term sediment trap samples, and that PCR-based molecular methods have a strong potential to become an important tool for comprehensive taxonomic analyses of ... |
format |
Article in Journal/Newspaper |
author |
Metfies, Katja Bauerfeind, Eduard Wolf, Christian Sprong, Pim Frickenhaus, Stephan Kaleschke, Lars Nicolaus, Anja Nöthig, Eva-Maria |
spellingShingle |
Metfies, Katja Bauerfeind, Eduard Wolf, Christian Sprong, Pim Frickenhaus, Stephan Kaleschke, Lars Nicolaus, Anja Nöthig, Eva-Maria Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses |
author_facet |
Metfies, Katja Bauerfeind, Eduard Wolf, Christian Sprong, Pim Frickenhaus, Stephan Kaleschke, Lars Nicolaus, Anja Nöthig, Eva-Maria |
author_sort |
Metfies, Katja |
title |
Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses |
title_short |
Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses |
title_full |
Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses |
title_fullStr |
Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses |
title_full_unstemmed |
Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses |
title_sort |
protist communities in moored long-term sediment traps (fram strait, arctic)–preservation with mercury chloride allows for pcr-based molecular genetic analyses |
publishDate |
2017 |
url |
https://epic.awi.de/id/eprint/45624/ https://epic.awi.de/id/eprint/45624/1/Metfiesetal2017.pdf https://hdl.handle.net/10013/epic.51717 https://hdl.handle.net/10013/epic.51717.d001 |
genre |
Arctic Fram Strait |
genre_facet |
Arctic Fram Strait |
op_source |
EPIC3Frontiers in Marine Sciences |
op_relation |
https://epic.awi.de/id/eprint/45624/1/Metfiesetal2017.pdf https://hdl.handle.net/10013/epic.51717.d001 Metfies, K. orcid:0000-0003-3073-8033 , Bauerfeind, E. , Wolf, C. , Sprong, P. , Frickenhaus, S. orcid:0000-0002-0356-9791 , Kaleschke, L. , Nicolaus, A. orcid:0000-0002-2026-3540 and Nöthig, E. M. orcid:0000-0002-7527-7827 (2017) Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses , Frontiers in Marine Sciences . doi:10.3389/fmars.2017.00301 <https://doi.org/10.3389/fmars.2017.00301> , hdl:10013/epic.51717 |
op_doi |
https://doi.org/10.3389/fmars.2017.00301 |
container_title |
Frontiers in Marine Science |
container_volume |
4 |
_version_ |
1810293667097739264 |