DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment
Abstract DNA metabarcoding (DNA-MB) targeting the whole plankton community is a promising approach in studies of sediment samples from water bodies, but its effectiveness in ancient material is not well demonstrated. We applied DNA-MB of plankton in a sediment core to reconstruct the paleo-environme...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2023-12-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-023-48367-z |
| _version_ | 1797397959001767936 |
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| author | Yasuhide Nakamura Eri Ogiso-Tanaka Koji Seto Takuto Ando Kota Katsuki Yoshiki Saito |
| author_facet | Yasuhide Nakamura Eri Ogiso-Tanaka Koji Seto Takuto Ando Kota Katsuki Yoshiki Saito |
| author_sort | Yasuhide Nakamura |
| collection | DOAJ |
| description | Abstract DNA metabarcoding (DNA-MB) targeting the whole plankton community is a promising approach in studies of sediment samples from water bodies, but its effectiveness in ancient material is not well demonstrated. We applied DNA-MB of plankton in a sediment core to reconstruct the paleo-environment of Lake Shinji, Japan, through a marine lagoon/freshwater lake transition during the past 2300 years. We interpreted core-sample plankton taxonomy and habitat by reference to the modern plankton community in water samples. OTUs (operational taxonomic units) belonging to Dictyochophyceae were 81.05% of the total reads in sediments. However, Ciliophora, Copepoda and Labyrinthulea formed the majority of plankton taxa in the water samples, suggesting that they are under-represented in sediment. A drastic change in plankton composition correlated with a large decrease in sediment sulfur concentration, implying the change of aquatic environment from marine lagoon to freshwater lake. This event took place ca. 1200 CE in Lake Shinji. A 250 year-long transitional period followed, during which the total DNA sequence reads were very low. This suggests that salinity fluctuations created a hostile environment for both marine and freshwater plankton species. Our results show that DNA-MB of the whole plankton community is effective in reconstructing paleo-environments. |
| first_indexed | 2024-03-09T01:18:44Z |
| format | Article |
| id | doaj.art-90c36148278449ae880e1baa5ef5f776 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-03-09T01:18:44Z |
| publishDate | 2023-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-90c36148278449ae880e1baa5ef5f7762023-12-10T12:19:56ZengNature PortfolioScientific Reports2045-23222023-12-011311810.1038/s41598-023-48367-zDNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environmentYasuhide Nakamura0Eri Ogiso-Tanaka1Koji Seto2Takuto Ando3Kota Katsuki4Yoshiki Saito5Estuary Research Center, Shimane UniversityCenter for Molecular Biodiversity Research, National Museum of Nature and ScienceEstuary Research Center, Shimane UniversityEstuary Research Center, Shimane UniversityEstuary Research Center, Shimane UniversityEstuary Research Center, Shimane UniversityAbstract DNA metabarcoding (DNA-MB) targeting the whole plankton community is a promising approach in studies of sediment samples from water bodies, but its effectiveness in ancient material is not well demonstrated. We applied DNA-MB of plankton in a sediment core to reconstruct the paleo-environment of Lake Shinji, Japan, through a marine lagoon/freshwater lake transition during the past 2300 years. We interpreted core-sample plankton taxonomy and habitat by reference to the modern plankton community in water samples. OTUs (operational taxonomic units) belonging to Dictyochophyceae were 81.05% of the total reads in sediments. However, Ciliophora, Copepoda and Labyrinthulea formed the majority of plankton taxa in the water samples, suggesting that they are under-represented in sediment. A drastic change in plankton composition correlated with a large decrease in sediment sulfur concentration, implying the change of aquatic environment from marine lagoon to freshwater lake. This event took place ca. 1200 CE in Lake Shinji. A 250 year-long transitional period followed, during which the total DNA sequence reads were very low. This suggests that salinity fluctuations created a hostile environment for both marine and freshwater plankton species. Our results show that DNA-MB of the whole plankton community is effective in reconstructing paleo-environments.https://doi.org/10.1038/s41598-023-48367-z |
| spellingShingle | Yasuhide Nakamura Eri Ogiso-Tanaka Koji Seto Takuto Ando Kota Katsuki Yoshiki Saito DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment Scientific Reports |
| title | DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment |
| title_full | DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment |
| title_fullStr | DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment |
| title_full_unstemmed | DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment |
| title_short | DNA metabarcoding focusing on the plankton community: an effective approach to reconstruct the paleo-environment |
| title_sort | dna metabarcoding focusing on the plankton community an effective approach to reconstruct the paleo environment |
| url | https://doi.org/10.1038/s41598-023-48367-z |
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