Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation
It is important to characterize and understand the diversity of marine protists because of their relevance for ecosystem functioning. In the era of molecular science, diversity studies have received renewed attention. High-throughput, cost-intensive next generation sequencing provides deep insight i...
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Association for the Sciences of Limnology and Oceanography
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ftawi:oai:epic.awi.de:37476 2024-09-15T17:53:53+00:00 Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation Kilias, Estelle Wolf, Christian Metfies, Katja 2015-02 application/pdf https://epic.awi.de/id/eprint/37476/ https://epic.awi.de/id/eprint/37476/1/Kilias2015.pdf https://hdl.handle.net/10013/epic.45125 https://hdl.handle.net/10013/epic.45125.d001 unknown Association for the Sciences of Limnology and Oceanography https://epic.awi.de/id/eprint/37476/1/Kilias2015.pdf https://hdl.handle.net/10013/epic.45125.d001 Kilias, E. , Wolf, C. and Metfies, K. orcid:0000-0003-3073-8033 (2015) Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation , Limnology and Oceanography: Methods, 13 , pp. 74-80 . doi:10.1002/lom3.10008 <https://doi.org/10.1002/lom3.10008> , hdl:10013/epic.45125 EPIC3Limnology and Oceanography: Methods, Association for the Sciences of Limnology and Oceanography, 13, pp. 74-80 Article isiRev 2015 ftawi https://doi.org/10.1002/lom3.10008 2024-06-24T04:11:05Z It is important to characterize and understand the diversity of marine protists because of their relevance for ecosystem functioning. In the era of molecular science, diversity studies have received renewed attention. High-throughput, cost-intensive next generation sequencing provides deep insight in protist diversity but limits the volume of studied samples. Protist observations with high spatiotemporal resolution, therefore, require a quick and cost-effective tool to channelize the large sample volume and help select representatives for diversity studies. In this study, we evaluated the validity of “Automated Ribosomal Intergenic Spacer Analysis” (ARISA) as a means of estimating variability in marine protist communities. The evaluation was based on statistical correlation of ARISA data and 454-pyrosequencing data from samples collected in the Southern Ocean and Arctic Ocean. Here, we provide evidence that differences in ARISA profiles reflect taxon-specific differences observed in 454-pyrosequencing data sets. Calculated similarity indices for the ARISA profiles and 454- pyrosequencing data of 27 marine protist samples revealed strong agreements between the results of both methods regarding the extent of variability among protist communities. We suggest that ARISA might become an important tool for surveillance of differences in marine protist communities with high spatiotemporal resolution. Furthermore, it might serve as a preselection tool to identify representative samples in large data sets. Article in Journal/Newspaper Arctic Ocean Southern Ocean Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) Limnology and Oceanography: Methods 13 2 e10008 |
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Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) |
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ftawi |
language |
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description |
It is important to characterize and understand the diversity of marine protists because of their relevance for ecosystem functioning. In the era of molecular science, diversity studies have received renewed attention. High-throughput, cost-intensive next generation sequencing provides deep insight in protist diversity but limits the volume of studied samples. Protist observations with high spatiotemporal resolution, therefore, require a quick and cost-effective tool to channelize the large sample volume and help select representatives for diversity studies. In this study, we evaluated the validity of “Automated Ribosomal Intergenic Spacer Analysis” (ARISA) as a means of estimating variability in marine protist communities. The evaluation was based on statistical correlation of ARISA data and 454-pyrosequencing data from samples collected in the Southern Ocean and Arctic Ocean. Here, we provide evidence that differences in ARISA profiles reflect taxon-specific differences observed in 454-pyrosequencing data sets. Calculated similarity indices for the ARISA profiles and 454- pyrosequencing data of 27 marine protist samples revealed strong agreements between the results of both methods regarding the extent of variability among protist communities. We suggest that ARISA might become an important tool for surveillance of differences in marine protist communities with high spatiotemporal resolution. Furthermore, it might serve as a preselection tool to identify representative samples in large data sets. |
format |
Article in Journal/Newspaper |
author |
Kilias, Estelle Wolf, Christian Metfies, Katja |
spellingShingle |
Kilias, Estelle Wolf, Christian Metfies, Katja Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation |
author_facet |
Kilias, Estelle Wolf, Christian Metfies, Katja |
author_sort |
Kilias, Estelle |
title |
Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation |
title_short |
Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation |
title_full |
Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation |
title_fullStr |
Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation |
title_full_unstemmed |
Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation |
title_sort |
characterizing variability in marine protist communities via arisa fingerprints — a method evaluation |
publisher |
Association for the Sciences of Limnology and Oceanography |
publishDate |
2015 |
url |
https://epic.awi.de/id/eprint/37476/ https://epic.awi.de/id/eprint/37476/1/Kilias2015.pdf https://hdl.handle.net/10013/epic.45125 https://hdl.handle.net/10013/epic.45125.d001 |
genre |
Arctic Ocean Southern Ocean |
genre_facet |
Arctic Ocean Southern Ocean |
op_source |
EPIC3Limnology and Oceanography: Methods, Association for the Sciences of Limnology and Oceanography, 13, pp. 74-80 |
op_relation |
https://epic.awi.de/id/eprint/37476/1/Kilias2015.pdf https://hdl.handle.net/10013/epic.45125.d001 Kilias, E. , Wolf, C. and Metfies, K. orcid:0000-0003-3073-8033 (2015) Characterizing variability in marine protist communities via ARISA fingerprints — a method evaluation , Limnology and Oceanography: Methods, 13 , pp. 74-80 . doi:10.1002/lom3.10008 <https://doi.org/10.1002/lom3.10008> , hdl:10013/epic.45125 |
op_doi |
https://doi.org/10.1002/lom3.10008 |
container_title |
Limnology and Oceanography: Methods |
container_volume |
13 |
container_issue |
2 |
container_start_page |
e10008 |
_version_ |
1810429990033948672 |