Carbonate chemistry sample inventory from R/V Atlantis AT37-13 at methane seeps in the Pacific Ocean off Costa Rica from May to June 2017 (Costa Rica Seeps project)

Data Type: Cruise Results
Version: 0
Version Date: 2017-09-25

» Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea (Costa Rica Seeps)
Orphan, Victoria J.California Institute of Technology (Caltech)Principal Investigator
Cordes, Erik E.Temple University (Temple)Co-Principal Investigator
Copley, NancyWoods Hole Oceanographic Institution (WHOI BCO-DMO)BCO-DMO Data Manager

This dataset is an inventory of carbonate chemistry bottle samples collected by HOV/Alvin on the RV/Atlantis cruise AT/37-13 during May and June 2017 at the Costa Rica Margin (sites Mound 12, Quepos landslide, Jaco Scar), Pacific Ocean.


Spatial Extent: N:9.1181 E:-84.1281 S:8.8525 W:-84.8413
Temporal Extent: 2017-05-21 - 2017-06-08

Acquisition Description

Carbonates and other hard substrates were collected by Alvin using the manipulator arm. Carbonates were subsampled for microscopy, molecular analysis, mineralogy and incubation experiments (details of sampling can be found in Case et al., 2015 mBio. 6:6

Processing Description

BCO-DMO Processing Notes:
- added conventional header with dataset name, PI name, version date
- modified parameter names to conform with BCO-DMO naming conventions
- blank values were replaced with no data value 'nd'
- reformatted Date from dd-Mon-yy to yyyy-mm-dd

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Related Publications

Case, D. H., Pasulka, A. L., Marlow, J. J., Grupe, B. M., Levin, L. A., & Orphan, V. J. (2015). Methane Seep Carbonates Host Distinct, Diverse, and Dynamic Microbial Assemblages. mBio, 6(6). doi:10.1128/mbio.01348-15

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Related Datasets

Levin, L. A., Rouse, G., Pereira, O. S. (2021) Matrix of taxon by sample for hard substrates collected by HOV Alvin during R/V Atlantis cruise AT37-13 and AT42-03 in the Pacific margin of Costa Rica in 2017 and 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2) Version Date 2021-03-16 doi:10.26008/1912/bco-dmo.747699.2 [view at BCO-DMO]
Relationship Description: Sampling locations

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Datesampling date unitess
DiveAlvin dive number unitess
Rock_numrock or specimen sample number unitess
SN_numlab serial number for sample unitess
Regionregion sampled unitess
Typedescription of sampled site unitess
Available_Livenumber or samples maintained in seawater at 4 degrees C count
Incubateddate of incubation formatted as dd/Mon/yy unitess
Depth_msample depth meters
Latlatitude; north is positive decimal degrees
Longlongitude; east is positive decimal degrees
PFAnumber or samples preserved in paraformaldehyde samples
Ethanolnumber or samples preserved in ethanol samples
Frozennumber or samples frozen samples
Livenumber or samples analyzed in a live state samples
Othernumber or samples preserved or used in another way samples
Notescomments pertaining to sampling unitess

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R/V Atlantis
Start Date
End Date
More cruise information is available from Rolling Deck to Repository (R2R): *


Start Date
End Date
Collections of seep organisms in sediments and on rocks.

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Project Information

Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea (Costa Rica Seeps)

Coverage: Costa Rica Pacific Margin

NSF abstract:
If life were to disappear from the deep sea, would we notice? We only have a cursory understanding of this vast region and the connectivity among its communities and the rest of the oceans, and yet the ecosystems of the deep sea have been implicated in the larger function of the global marine ecosystems. We now rely on the deep ocean for food, energy, novel drugs and materials, and for its role in the global cycling of carbon, as well as for supporting services such as habitat creation, nutrient replenishment for shallow waters, and the maintenance of biodiversity. Cold seeps, active areas of the seafloor where methane and other chemicals are released, are key features along the continental margins worldwide. To characterize how methane seep communities interact with the surrounding ecosystems and vice versa, we will study methane seeps off the Pacific coast of Costa Rica in 2017 and 2018. It is the sphere of influence around the seep, both along the seafloor and up into the water column, that we seek to better understand. We will map the structure and the chemistry surrounding these habitats using a novel 3-dimensional framework, combining typical transects with vertical characterizations of the water column just above the seafloor. This will include measurements of methane flux into the water column and changes in the overlying carbonate chemistry and oxygen levels that are critical to our understanding of the effect of warming, oxygen loss and ocean acidification in this region. Within this framework, we will collect seep organisms in sediments and on rocks (including all sizes from microbes to large animals), and transplant some of these from within the area of seep influence to the background deep sea, and vice-versa. Together, these studies will help us to measure the size of the seep sphere of influence, and also demonstrate the role of these seeps within the deep sea and the greater, global, marine ecosystem. We will share this information with a group of teachers during a series of workshops in the San Diego area, at an exhibit at the Birch Aquarium, and through the work of an artist who has worked extensively with marine organisms in extreme environments.

Chemosynthetic ecosystems are inextricably linked to the broader world-ocean biome and global biogeochemical cycles in ways that we are just beginning to understand. This research will identify the form, extent, and nature of the physical, chemical, and biological linkages between methane seeps and the surrounding deep-sea ecosystem. The proposed research builds critical understanding of the structural and functional processes that underpin the ecosystem services provided by chemosynthetic ecosystems. We target a critical continental margin, Costa Rica, where methane fates and dynamics loom large and play out in an setting that reflects many oceanographic stressors. We will use quantitative sampling and manipulative studies within a 3-dimensional oceanographic framework. We will ask what are the shapes of the diversity and density functions for organisms of different size classes and trophic position over the transition from the seep habitat through the ecotone to the background deep sea? Further, we will ask how do depth, dissolved oxygen concentrations, pH and carbonate ion availability, relative rates of fluid flux, and substrate (biogenic, authigenic carbonate, sediments) alter these linkages and interactions with the surrounding deep sea? Evidence for distinct transitional communities and biotic patterns in density and alpha and beta diversity will be quantified and placed in a global biogeographic context. All of these investigations will occur across biological size spectra: for microorganisms (archaea, bacteria, microeukaryotes), the macrofauna, and the megafauna that form biogenic habitats. Our research results will be interpreted in the context of potential effects of global ocean change in the equatorial Pacific to determine how the linkages with the surrounding deep sea will be altered as anthropogenic impacts proceed in the future. 

Related publications:
Levin, L.A., V.J. Orphan, G.W. Rouse, W. Ussler, A. E. Rathburn, G. S. Cook, S. Goffredi, E. Perez, A. Waren, B. Grupe, G. Chadwick, B. Strickrott. (2012). A hydrothermal seep on the Costa Rica margin: Middle ground in a continuum of reducing ecosystems. Proc. Royal Soc. B. 279: 2580-88 doi: 10.1098/rspb.2012.0205

Sahling, H., Masson, D. G., Ranero, C. R., Hühnerbach, V., Weinrebe, W., Klaucke, I., & Suess, E. (2008). Fluid seepage at the continental margin offshore Costa Rica and southern Nicaragua. Geochemistry, Geophysics, Geosystems 9: doi: 10.1029/2008GC001978

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Funding SourceAward
NSF Division of Ocean Sciences (NSF OCE)

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