Table of Contents

• Coverage
• Dataset Description
  • Methods & Sampling
  • Data Processing Description
• Data Files
• Parameters
• Instruments
• Deployments
• Project Information
• Program Information
• Funding

Cell abundance estimates of heterotrophic protists by size-class, based on epifluorescence microscopy. Samples were collected on the MV1008 cruise in the Costa Rica Dome (CRD) region of the Eastern Tropical Pacific Ocean.

Seawater samples (500 mL) for microscopical analysis were gently collected from the CTD and immediately preserved for slide preparation according to a modified protocol of Sherr and Sherr (1993). The samples were first preserved with 260 uL of alkaline Lugol’s solution, immediately followed by 10 mL of buffered formalin and 500 uL of sodium thiosulfate, with gentle mixing between each addition. Preserved samples were shielded from light and left to rest at room temperature for 1 h. After the rest period, 1 mL of proflavin (0.33% w/v) was added and the samples were stored in the dark for an additional hour. Just prior to filtration, the preserved samples were stained with 1 mL of DAPI (0.01 mg mL-1) and immediately transferred to the filtration manifold. A 50-mL aliquot (small volume, SV) of the sample was filtered through a 25-mm black polycarbonate filter with 0.8-um pore size, and the remaining 450 mL aliquot (large volume, LV) was filtered through a 25-mm black polycarbonate filter with 8.0-um pores. A 10-mm nylon backing filter was placed under all polycarbonate filters to promote even cell distribution, and filtered the samples under gentle vacuum pressure (<100 mm Hg). Each filter was then mounted onto glass slides with one drop of Type DF immersion oil and a No. 2 cover slip, and the prepared slides were frozen at -80°C for later analysis in the lab. NOTE: ciliated protists are poorly preserved by this method and are not included in these analyses.

Slides were digitally imaged using a Zeiss Axiovert 200 M inverted compound microscope equipped for high-throughput epifluorescence microscopy with a motorized focus drive, stage, objective and filters. Digital images were acquired with a Zeiss AxioCam MRc black and white 8-bit CCD camera. SV samples (50 mL aliquots) were viewed at 630X magnification, and LV samples (450 mL aliquots) were viewed at 200X magnification. A minimum of 20 random positions were imaged for each slide, with each position consisting of three to four fluorescent channels: Chl a, DAPI, FITC (SV and LV samples) and phycoerythrin (SV samples only).  

Images were analyzed using ImagePro software to semi-automate the enumeration of eukaryotic cells larger than 1.5 um in length (Taylor et al., 2012). Whenever possible, 20 positions and >300 cells were counted for each slide. Each cell was manually identified and grouped into identifiable taxonomic groups. Heterotrophic cells were distinguished from autotrophs (eukaryotic phytoplankton) by very low red autofluorescence (low/absent chlorophyll and absence of defined chloroplasts). Cells with recently consumed autotrophic prey were counted as heterotrophs.

BCO-DMO Processing Notes:
- size_class and taxon columns were transposed from columns into rows.

Research was aimed at improved understanding of plankton dynamics, carbon and nutrient fluxes, and potential trace element limitation in the Costa Rica Dome region of the eastern tropical Pacific. The specific science objectives of the 2010 R/V Melville cruise (MV1008) were:
1) to assess grazing and trace metal/nutrient controls on primary production and phytoplankton standing stocks;
2) to quantify carbon and elemental fluxes and export rates from the euphotic zone; and
3) to measure microbial population, processes, stable isotope abundances associated with the OMZ and nitrite maxima.

Additional information about MV1008 can be found in the cruise report (PDF).

NOTE: The original proposal and award abstract are not relevant. The project was originally funded by NSF as experimental tests of phytoplankton controls in the Arabian Sea. Piracy concerns in the region led to the cancellation of the research cruise in 2009, and a Change of Scope request was approved to focus the project on related issues in the Costa Rica Dome (CRD).

Though this project is not formally affiliated with any large program, it aligns with IMBER's emphasis on community ecology and biogeochemistry, and the OCB focus on carbon-based measurements of production, grazing and export processes.

The BCO-DMO database includes data from IMBER endorsed projects lead by US funded investigators. There is no dedicated US IMBER project or data management office. Those functions are provided by US-OCB and BCO-DMO respectively.

The information in this program description pertains to the Internationally coordinated IMBER research program. The projects contributing data to the BCO-DMO database are those funded by US NSF only. The full IMBER data catalog is hosted at the Global Change Master Directory (GCMD). 

IMBER Data Portal: The IMBER project has chosen to create a metadata portal hosted by the NASA's Global Change Master Directory (GCMD). The GCMD IMBER data catalog provides an overview of all IMBER endorsed and related projects and links to datasets, and can be found at URL http://gcmd.nasa.gov/portals/imber/.

IMBER research will seek to identify the mechanisms by which marine life influences marine biogeochemical cycles, and how these, in turn, influence marine ecosystems. Central to the IMBER goal is the development of a predictive understanding of how marine biogeochemical cycles and ecosystems respond to complex forcings, such as large-scale climatic variations, changing physical dynamics, carbon cycle chemistry and nutrient fluxes, and the impacts of marine harvesting. Changes in marine biogeochemical cycles and ecosystems due to global change will also have consequences for the broader Earth System. An even greater challenge will be drawing together the natural and social science communities to study some of the key impacts and feedbacks between the marine and human systems.

To address the IMBER goal, four scientific themes, each including several issues, have been identified for the IMBER project: Theme 1 - Interactions between Biogeochemical Cycles and Marine Food Webs; Theme 2 - Sensitivity to Global Change: How will key marine biogeochemical cycles, ecosystems and their interactions, respond to global change?; Theme 3 - Feedback to the Earth System: What are the roles of the ocean biogeochemistry and ecosystems in regulating climate?; and Theme 4 - Responses of Society: What are the relationships between marine biogeochemical cycles, ecosystems, and the human system?

The Ocean Carbon and Biogeochemistry (OCB) program focuses on the ocean's role as a component of the global Earth system, bringing together research in geochemistry, ocean physics, and ecology that inform on and advance our understanding of ocean biogeochemistry. The overall program goals are to promote, plan, and coordinate collaborative, multidisciplinary research opportunities within the U.S. research community and with international partners. Important OCB-related activities currently include: the Ocean Carbon and Climate Change (OCCC) and the North American Carbon Program (NACP); U.S. contributions to IMBER, SOLAS, CARBOOCEAN; and numerous U.S. single-investigator and medium-size research projects funded by U.S. federal agencies including NASA, NOAA, and NSF.

The scientific mission of OCB is to study the evolving role of the ocean in the global carbon cycle, in the face of environmental variability and change through studies of marine biogeochemical cycles and associated ecosystems.

The overarching OCB science themes include improved understanding and prediction of: 1) oceanic uptake and release of atmospheric CO2 and other greenhouse gases and 2) environmental sensitivities of biogeochemical cycles, marine ecosystems, and interactions between the two.

The OCB Research Priorities (updated January 2012) include: ocean acidification; terrestrial/coastal carbon fluxes and exchanges; climate sensitivities of and change in ecosystem structure and associated impacts on biogeochemical cycles; mesopelagic ecological and biogeochemical interactions; benthic-pelagic feedbacks on biogeochemical cycles; ocean carbon uptake and storage; and expanding low-oxygen conditions in the coastal and open oceans.