Articles | Volume 14, issue 11
https://doi.org/10.5194/bg-14-2741-2017
© Author(s) 2017. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
https://doi.org/10.5194/bg-14-2741-2017
© Author(s) 2017. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Research article
| 
06 Jun 2017
Research article |
| 06 Jun 2017
Planktonic foraminifera-derived environmental DNA extracted from abyssal sediments preserves patterns of plankton macroecology
Raphaël Morard
CORRESPONDING AUTHOR
MARUM Center for Marine Environmental Sciences, University of Bremen, Leobener Strasse, 28359 Bremen, Germany
Franck Lejzerowicz
Department of Genetics and Evolution, University of Geneva, 1211 Geneva, Switzerland
Kate F. Darling
School of GeoSciences, University of Edinburgh, Edinburgh, EH9 3FE, UK
School of Geography and GeoSciences, University of St Andrews, Fife, KY16 9AL, UK
Béatrice Lecroq-Bennet
Okinawa Institute of Sciences and Technology Graduate University, 1919-1 Tancha, Onna-son 904-0495, Japan
Mikkel Winther Pedersen
Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, Copenhagen 1350K, Denmark
Ludovic Orlando
Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, Copenhagen 1350K, Denmark
Jan Pawlowski
Department of Genetics and Evolution, University of Geneva, 1211 Geneva, Switzerland
Stefan Mulitza
MARUM Center for Marine Environmental Sciences, University of Bremen, Leobener Strasse, 28359 Bremen, Germany
Colomban de Vargas
Centre National de la Recherche Scientifique, UMR7144, EPEP, Station Biologique de Roscoff, 29680 Roscoff, France
Sorbonne Universités, UPMC Univ Paris 06, UMR7144, Station Biologique de Roscoff, 29680 Roscoff, France
Michal Kucera
MARUM Center for Marine Environmental Sciences, University of Bremen, Leobener Strasse, 28359 Bremen, Germany
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Cited
23 citations as recorded by crossref.
- Indications of a benthic foraminifer Cribrononion gnythosuturatum to salinities revealed by eDNA metabarcoding and morphological methods Y. Cao et al. 10.1016/j.marpolbul.2024.117428
- Unveiling the Ecological Applications of Ancient DNA From Mollusk Shells C. Der Sarkissian et al. 10.3389/fevo.2020.00037
- Changes in the composition of marine and sea-ice diatoms derived from sedimentary ancient DNA of the eastern Fram Strait over the past 30 000 years H. Zimmermann et al. 10.5194/os-16-1017-2020
- Characteristics of foraminiferal communities in the western Clarion–Clipperton Zone revealed by eDNA metabarcoding Q. Li et al. 10.1016/j.seares.2022.102286
- Planktonic foraminifera eDNA signature deposited on the seafloor remains preserved after burial in marine sediments I. Barrenechea Angeles et al. 10.1038/s41598-020-77179-8
- Ancient DNA from marine sediments: Precautions and considerations for seafloor coring, sample handling and data generation L. Armbrecht et al. 10.1016/j.earscirev.2019.102887
- The global genetic diversity of planktonic foraminifera reveals the structure of cryptic speciation in plankton R. Morard et al. 10.1111/brv.13065
- Planktonic foraminifera genomic variations reflect paleoceanographic changes in the Arctic: evidence from sedimentary ancient DNA J. Pawłowska et al. 10.1038/s41598-020-72146-9
- DNA Metabarcoding of Deep-Sea Sediment Communities Using COI: Community Assessment, Spatio-Temporal Patterns and Comparison with 18S rDNA S. Atienza et al. 10.3390/d12040123
- Patterns of eukaryotic diversity from the surface to the deep-ocean sediment T. Cordier et al. 10.1126/sciadv.abj9309
- A 3‐year plankton DNA metabarcoding survey reveals marine biodiversity patterns in Australian coastal waters T. Berry et al. 10.1111/ddi.13699
- Sedimentary ancient DNA: a new paleogenomic tool for reconstructing the history of marine ecosystems N. Nguyen et al. 10.3389/fmars.2023.1185435
- Advances in planktonic foraminifer research: New perspectives for paleoceanography R. Schiebel et al. 10.1016/j.revmic.2018.10.001
- Eukaryotic Biodiversity and Spatial Patterns in the Clarion-Clipperton Zone and Other Abyssal Regions: Insights From Sediment DNA and RNA Metabarcoding F. Lejzerowicz et al. 10.3389/fmars.2021.671033
- Molecular diversity and spatial distribution of benthic foraminifera of the seamounts and adjacent abyssal plains in the tropical Western Pacific Ocean J. Shi et al. 10.1016/j.marmicro.2020.101850
- Molecular diversity of foraminiferal eDNA in sediments and their correlations with environmental factors from the Yellow Sea Y. Cao et al. 10.1016/j.ecolind.2022.109294
- Environmental DNA metabarcoding of foraminifera for biological monitoring of bottom water and sediments on the Takuyo-Daigo Seamount in the northwestern Pacific A. Maeda et al. 10.3389/fmars.2023.1243713
- Taxonomic and abundance biases affect the record of marine eukaryotic plankton communities in sediment DNA archives N. Nguyen et al. 10.1111/1755-0998.14014
- Eukaryotic Diversity Based on High-Throughput 18S rRNA Sequencing and Its Relationship with Environmental Factors in a Salt Lake in Tibet, China L. He et al. 10.3390/w14172724
- From Sea Surface to Seafloor: A Benthic Allochthonous eDNA Survey for the Abyssal Ocean O. Laroche et al. 10.3389/fmars.2020.00682
- An optimized method for the extraction of ancient eukaryote DNA from marine sediments L. Armbrecht et al. 10.1111/1755-0998.13162
- The potential of sedimentary ancient DNA for reconstructing past sea ice evolution S. De Schepper et al. 10.1038/s41396-019-0457-1
- NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments J. Shi et al. 10.1007/s00343-021-0427-0
23 citations as recorded by crossref.
- Indications of a benthic foraminifer Cribrononion gnythosuturatum to salinities revealed by eDNA metabarcoding and morphological methods Y. Cao et al. 10.1016/j.marpolbul.2024.117428
- Unveiling the Ecological Applications of Ancient DNA From Mollusk Shells C. Der Sarkissian et al. 10.3389/fevo.2020.00037
- Changes in the composition of marine and sea-ice diatoms derived from sedimentary ancient DNA of the eastern Fram Strait over the past 30 000 years H. Zimmermann et al. 10.5194/os-16-1017-2020
- Characteristics of foraminiferal communities in the western Clarion–Clipperton Zone revealed by eDNA metabarcoding Q. Li et al. 10.1016/j.seares.2022.102286
- Planktonic foraminifera eDNA signature deposited on the seafloor remains preserved after burial in marine sediments I. Barrenechea Angeles et al. 10.1038/s41598-020-77179-8
- Ancient DNA from marine sediments: Precautions and considerations for seafloor coring, sample handling and data generation L. Armbrecht et al. 10.1016/j.earscirev.2019.102887
- The global genetic diversity of planktonic foraminifera reveals the structure of cryptic speciation in plankton R. Morard et al. 10.1111/brv.13065
- Planktonic foraminifera genomic variations reflect paleoceanographic changes in the Arctic: evidence from sedimentary ancient DNA J. Pawłowska et al. 10.1038/s41598-020-72146-9
- DNA Metabarcoding of Deep-Sea Sediment Communities Using COI: Community Assessment, Spatio-Temporal Patterns and Comparison with 18S rDNA S. Atienza et al. 10.3390/d12040123
- Patterns of eukaryotic diversity from the surface to the deep-ocean sediment T. Cordier et al. 10.1126/sciadv.abj9309
- A 3‐year plankton DNA metabarcoding survey reveals marine biodiversity patterns in Australian coastal waters T. Berry et al. 10.1111/ddi.13699
- Sedimentary ancient DNA: a new paleogenomic tool for reconstructing the history of marine ecosystems N. Nguyen et al. 10.3389/fmars.2023.1185435
- Advances in planktonic foraminifer research: New perspectives for paleoceanography R. Schiebel et al. 10.1016/j.revmic.2018.10.001
- Eukaryotic Biodiversity and Spatial Patterns in the Clarion-Clipperton Zone and Other Abyssal Regions: Insights From Sediment DNA and RNA Metabarcoding F. Lejzerowicz et al. 10.3389/fmars.2021.671033
- Molecular diversity and spatial distribution of benthic foraminifera of the seamounts and adjacent abyssal plains in the tropical Western Pacific Ocean J. Shi et al. 10.1016/j.marmicro.2020.101850
- Molecular diversity of foraminiferal eDNA in sediments and their correlations with environmental factors from the Yellow Sea Y. Cao et al. 10.1016/j.ecolind.2022.109294
- Environmental DNA metabarcoding of foraminifera for biological monitoring of bottom water and sediments on the Takuyo-Daigo Seamount in the northwestern Pacific A. Maeda et al. 10.3389/fmars.2023.1243713
- Taxonomic and abundance biases affect the record of marine eukaryotic plankton communities in sediment DNA archives N. Nguyen et al. 10.1111/1755-0998.14014
- Eukaryotic Diversity Based on High-Throughput 18S rRNA Sequencing and Its Relationship with Environmental Factors in a Salt Lake in Tibet, China L. He et al. 10.3390/w14172724
- From Sea Surface to Seafloor: A Benthic Allochthonous eDNA Survey for the Abyssal Ocean O. Laroche et al. 10.3389/fmars.2020.00682
- An optimized method for the extraction of ancient eukaryote DNA from marine sediments L. Armbrecht et al. 10.1111/1755-0998.13162
- The potential of sedimentary ancient DNA for reconstructing past sea ice evolution S. De Schepper et al. 10.1038/s41396-019-0457-1
- NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments J. Shi et al. 10.1007/s00343-021-0427-0
Discussed (final revised paper)
Discussed (final revised paper)
Discussed (preprint)
Latest update: 25 Dec 2024
Short summary
The exploitation of deep-sea sedimentary archive relies on the recovery of mineralized skeletons of pelagic organisms. Planktonic groups leaving preserved remains represent only a fraction of the total marine diversity. Environmental DNA left by non-fossil organisms is a promising source of information for paleo-reconstructions. Here we show how planktonic-derived environmental DNA preserves ecological structure of planktonic communities. We use planktonic foraminifera as a case study.
The exploitation of deep-sea sedimentary archive relies on the recovery of mineralized skeletons...
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Final-revised paper
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