scholarly journals Vertical stratification of environmental DNA in the open ocean captures ecological patterns and behavior of deep‐sea fishes

Author(s):  
Oriol Canals ◽  
Iñaki Mendibil ◽  
María Santos ◽  
Xabier Irigoien ◽  
Naiara Rodríguez‐Ezpeleta
2019 ◽  
Vol 10 (8) ◽  
pp. 1128-1135 ◽  
Author(s):  
Nathan K. Truelove ◽  
Elizabeth A. Andruszkiewicz ◽  
Barbara A. Block
Keyword(s):  

2019 ◽  
Vol 116 (38) ◽  
pp. 18874-18879 ◽  
Author(s):  
Paul F. Hoffman ◽  
Kelsey G. Lamothe

Carbonate sediments of nonglacial Cryogenian (659 to 649 Ma) and early Ediacaran (635 to 590 Ma) age exhibit large positive and negative δ13Ccarb excursions in a shallow-water marine platform in northern Namibia. The same excursions are recorded in fringing deep-sea fans and in carbonate platforms on other paleocontinents. However, coeval carbonates in the upper foreslope of the Namibian platform, and to a lesser extent in the outermost platform, have relatively uniform δ13Ccarb compositions compatible with dissolved inorganic carbon (DIC) in the modern ocean. We attribute the uniform values to fluid-buffered diagenesis that occurred where seawater invaded the sediment in response to geothermal porewater convection. This attribution, which is testable with paired Ca and Mg isotopes, implies that large δ13Ccarb excursions observed in Neoproterozoic platforms, while sedimentary in origin, do not reflect the composition of ancient open-ocean DIC.


2020 ◽  
Vol 265 ◽  
pp. 115060 ◽  
Author(s):  
João M. Pereira ◽  
Yasmina Rodríguez ◽  
Sandra Blasco-Monleon ◽  
Adam Porter ◽  
Ceri Lewis ◽  
...  

2016 ◽  
Vol 3 ◽  
Author(s):  
Telmo Morato ◽  
Emile Lemey ◽  
Gui Menezes ◽  
Christopher K. Pham ◽  
Joana Brito ◽  
...  

2013 ◽  
Vol 9 (4) ◽  
pp. 20130283 ◽  
Author(s):  
Franck Lejzerowicz ◽  
Philippe Esling ◽  
Wojciech Majewski ◽  
Witold Szczuciński ◽  
Johan Decelle ◽  
...  

Deep-sea subsurface sediments are the most important archives of marine biodiversity. Until now, these archives were studied mainly using the microfossil record, disregarding large amounts of DNA accumulated on the deep-sea floor. Accessing ancient DNA (aDNA) molecules preserved down-core would offer unique insights into the history of marine biodiversity, including both fossilized and non-fossilized taxa. Here, we recover aDNA of eukaryotic origin across four cores collected at abyssal depths in the South Atlantic, in up to 32.5 thousand-year-old sediment layers. Our study focuses on Foraminifera and Radiolaria, two major groups of marine microfossils also comprising diverse non-fossilized taxa. We describe their assemblages in down-core sediment layers applying both micropalaeontological and environmental DNA sequencing approaches. Short fragments of the foraminiferal and radiolarian small subunit rRNA gene recovered from sedimentary DNA extracts provide evidence that eukaryotic aDNA is preserved in deep-sea sediments encompassing the last glacial maximum. Most aDNA were assigned to non-fossilized taxa that also dominate in molecular studies of modern environments. Our study reveals the potential of aDNA to better document the evolution of past marine ecosystems and opens new horizons for the development of deep-sea palaeogenomics.


2021 ◽  
Vol 8 ◽  
Author(s):  
Jun Liu ◽  
Haibin Zhang

Environmental DNA (eDNA) metabarcoding is an emerging tool to estimate diversity by combining DNA from the environmental samples and the high-throughput sequencing. Despite its wide use in estimating eukaryotic diversity, many factors may bias the results. Maker choice and reference databases are among the key issues in metabarcoding analyses. In the present study, we compared the performance of a novel 28S rRNA gene marker designed in this study and two commonly used 18S rRNA gene markers (V1-2 and V9) in estimating the eukaryotic diversity in the deep-sea sediments. The metabarcoding analyses based on the sediment surveys of the Okinawa Trough found that more eukaryotic taxa were discovered by 18S V9 than 28S and 18S V1-2, and that 18S V9 also performed better in metazoan recovery than the other two markers. Although a broad range of taxa were detected by the three metabarcoding markers, only a small proportion of taxa were shared between them even at the phylum level. The non-metric multidimensional scaling (NMDS) analysis also supported that communities detected by the three markers were distinct from each other. In addition, different communities were resolved by different reference databases (NCBI nt vs. SILVA) for the two 18S markers. Combining the three markers, annelids were found to be the most abundant (44.9%) and diverse [179 operational taxonomic units (OTUs)] metazoan group in the sediments of the Okinawa Trough. Therefore, multiple independent markers are recommended to be used in metabarcoding analyses during marine diversity surveys, especially for the poorly understood deep-sea sediments.


2006 ◽  
Vol 3 (5) ◽  
pp. 1587-1629 ◽  
Author(s):  
C. P. Slomp ◽  
P. Van Cappellen

Abstract. A new mass balance model for the coupled marine cycles of phosphorus (P) and carbon (C) is used to examine the relationships between oceanic circulation, primary productivity, and sedimentary burial of reactive P and particulate organic C (POC), on geological time scales. The model explicitly represents the exchanges of water and particulate matter between the continental shelves and the open ocean, and it accounts for the redox-dependent burial of POC and the various forms of reactive P (iron(III)-bound P, particulate organic P (POP), authigenic calcium phosphate, and fish debris). Steady state and transient simulations indicate that a slowing down of global ocean circulation decreases primary production in the open ocean, but increases that in the coastal ocean. The latter is due to increased transfer of soluble P from deep ocean water to the shelves, where it fuels primary production and causes increased reactive P burial. While authigenic calcium phosphate accounts for most reactive P burial ocean-wide, enhanced preservation of fish debris may become an important reactive P sink in deep-sea sediments during periods of ocean anoxia. Slower ocean circulation globally increases POC burial, because of enhanced POC preservation under anoxia in deep-sea depositional environments and higher primary productivity along the continental margins. In accordance with geological evidence, the model predicts increased accumulation of reactive P on the continental shelves during and following periods of ocean anoxia.


2020 ◽  
Vol 7 ◽  
Author(s):  
Telmo Morato ◽  
Pedro Afonso ◽  
Gui M. Menezes ◽  
Ricardo S. Santos ◽  
Mónica A. Silva

Ecology ◽  
2008 ◽  
Vol 89 (12) ◽  
pp. 3449-3461 ◽  
Author(s):  
Rui Rosa ◽  
Heidi M. Dierssen ◽  
Liliana Gonzalez ◽  
Brad A. Seibel

2010 ◽  
Vol 7 (6) ◽  
pp. 1973-1982 ◽  
Author(s):  
I. Tsandev ◽  
C. Rabouille ◽  
C. P. Slomp ◽  
P. Van Cappellen

Abstract. The areal exposure of continental shelves during glacial sea level lowering enhanced the transfer of erodible reactive organic matter to the open ocean. Sea level fall also activated submarine canyons thereby allowing large rivers to deposit their particulate load, via gravity flows, directly in the deep-sea. Here, we analyze the effects of shelf erosion and particulate matter re-routing to the open ocean during interglacial to glacial transitions, using a coupled model of the marine phosphorus, organic carbon and oxygen cycles. The results indicate that shelf erosion and submarine canyon formation may significantly lower deep-sea oxygen levels, by up to 25%, during sea level low stands, mainly due to the supply of new material from the shelves, and to a lesser extent due to particulate organic matter bypassing the coastal zone. Our simulations imply that deep-sea oxygen levels can drop significantly if eroded shelf material is deposited to the seafloor. Thus the glacial ocean's oxygen content could have been significantly lower than during interglacial stages. Primary production, organic carbon burial and dissolved phosphorus inventories are all affected by the erosion and rerouting mechanisms. However, re-routing of the continental and eroded shelf material to the deep-sea has the effect of decoupling deep-sea oxygen demand from primary productivity in the open ocean. P burial is also not affected showing a disconnection between the biogeochemical cycles in the water column and the P burial record.


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