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In oceanic biogeochemistry, the f-ratio is the fraction of total primary production fuelled by nitrate (as opposed to that fuelled by other nitrogen compounds such as ammonium). The ratio was originally defined by Richard Eppley and Bruce Peterson in one of the first papers estimating global oceanic production. This fraction was originally believed significant because it appeared to directly relate to the sinking (export) flux of organic marine snow from the surface ocean by the biological pump. However, this interpretation relied on the assumption of a strong depth-partitioning of a parallel process, nitrification, that more recent measurements has questioned.

biogeochemistry nitrate f-ratio

1. Overview

Gravitational sinking of organisms (or the remains of organisms) transfers carbon from the surface waters of the ocean to its deep interior. This process is known as the biological pump, and quantifying it is of interest to scientists because it is an important aspect of the Earth's carbon cycle. Essentially, this is because carbon transported to the deep ocean is isolated from the atmosphere, allowing the ocean to act as a reservoir of carbon. This biological mechanism is accompanied by a physico-chemical mechanism known as the solubility pump which also acts to transfer carbon to the ocean's deep interior.

Measuring the flux of sinking material (so-called marine snow) is usually done by deploying sediment traps which intercept and store material as it sinks down the water column. However, this is a relatively difficult process, since traps can be awkward to deploy or recover, and they must be left in situ over a long period to integrate the sinking flux. Furthermore, they are known to experience biases and to integrate horizontal as well as vertical fluxes because of water currents.[1][2] For this reason, scientists are interested in ocean properties that can be more easily measured, and that act as a proxy for the sinking flux. The f-ratio is one such proxy.

2. "New" and "Regenerated" Production

Diagram of new and regenerated production.

Bio-available nitrogen occurs in the ocean in several forms, including simple ionic forms such as nitrate (NO3), nitrite (NO2) and ammonium (NH4+), and more complex organic forms such as urea ((NH2)2CO). These forms are used by autotrophic phytoplankton to synthesise organic molecules such as amino acids (the building blocks of proteins). Grazing of phytoplankton by zooplankton and larger organisms transfers this organic nitrogen up the food chain and throughout the marine food-web.

When nitrogenous organic molecules are ultimately metabolised by organisms, they are returned to the water column as ammonium (or more complex molecules that are then metabolised to ammonium). This is known as regeneration, since the ammonium can be used by phytoplankton, and again enter the food-web. Primary production fuelled by ammonium in this way is thus referred to as regenerated production.[3]

However, ammonium can also be oxidised to nitrate (via nitrite), by the process of nitrification. This is performed by different bacteria in two stages :

NH3 + O2 → NO2 + 3H+ + 2e
NO2 + H2O → NO3 + 2H+ + 2e

Crucially, this process is believed to only occur in the absence of light (or as some other function of depth). In the ocean, this leads to a vertical separation of nitrification from primary production, and confines it to the aphotic zone. This leads to the situation whereby any nitrate in the water column must be from the aphotic zone, and must have originated from organic material transported there by sinking. Primary production fuelled by nitrate is, therefore, making use of a "fresh" nutrient source rather than a regenerated one. Production by nitrate is thus referred to as new production.[3]

The figure at the head of this section illustrates this. Nitrate and ammonium are taken up by primary producers, processed through the food-web, and then regenerated as ammonium. Some of this return flux is released into the surface ocean (where it is available again for uptake), while some is returned at depth. The ammonium returned at depth is nitrified to nitrate, and ultimately mixed or upwelled into the surface ocean to repeat the cycle.

Consequently, the significance of new production lies in its connection to sinking material. At equilibrium, the export flux of organic material sinking into the aphotic zone is balanced by the upward flux of nitrate. By measuring how much nitrate is consumed by primary production, relative to that of regenerated ammonium, one should be able to estimate the export flux indirectly.

As an aside, the f-ratio can also reveal important aspects of local ecosystem function.[4] High f-ratio values are typically associated with productive ecosystems dominated by large, eukaryotic phytoplankton (such as diatoms) that are grazed by large zooplankton (and, in turn, by larger organisms such as fish). By contrast, low f-ratio values are generally associated with low biomass, oligotrophic food webs consisting of small, prokaryotic phytoplankton (such as Prochlorococcus) which are kept in check by microzooplankton.[5][6]

3. Assumptions

Is nitrification really confined to the aphotic zone?

A fundamental assumption in this interpretation of the f-ratio is the spatial separation of primary production and nitrification. Indeed, in their original paper, Eppley & Peterson noted that: "To relate new production to export requires that nitrification in the euphotic zone be negligible".[7] However, subsequent observational work on the distribution of nitrification has found that nitrification can occur at shallower depths, and even within the photic zone.[8][9][10]

As the adjacent diagram shows, if ammonium is indeed nitrified to nitrate in the ocean's surface waters it essentially "short circuits" the deep pathway of nitrate. In practice, this would lead to an overestimation of new production and a higher f-ratio, since some of the ostensibly new production would actually be fuelled by recently nitrified nitrate that had never left the surface ocean. After including nitrification measurements in its parameterisation, an ecosystem model of the oligotrophic subtropical gyre region (specifically the BATS site) found that, on an annual basis, around 40% of surface nitrate was recently nitrified (rising to almost 90% during summer).[11] A further study synthesising geographically diverse nitrification measurements found high variability but no relationship with depth, and applied this in a global-scale model to estimate that up to a half of surface nitrate is supplied by surface nitrification rather than upwelling.[12]

Although measurements of the rate of nitrification are still relatively rare, they do suggest that the f-ratio is not as straightforward a proxy for the biological pump as was once thought. For this reason, some workers have proposed distinguishing between the f-ratio and the ratio of particulate export to primary production, which they term the pe-ratio.[6] While quantitatively different than the f-ratio, the pe-ratio shows similar qualitative variation between high productivity/high biomass/high export regimes and low productivity/low biomass/low export regimes.

In addition, a further process that potentially complicates the use of the f-ratio to estimate "new" and "regenerated" production is dissimilatory nitrate reduction to ammonium (DNRA). In low oxygen environments, such as oxygen minimum zones and seafloor sediments, chemoorganoheterotrophic microbes use nitrate as an electron acceptor for respiration,[13] reducing it to nitrite, then to ammonium. Since, like nitrification, DNRA alters the balance in the availability of nitrate and ammonium, it has the potential to introduce inaccuracy to the calculated f-ratio. However, as DNRA's occurrence is limited to anaerobic situations,[14] its importance is less widespread than nitrification, although it can occur in association with primary producers.[15][16]


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  2. Buesseler, K.O. (2007). "An assessment of the use of sediment traps for estimating upper ocean particle fluxes". J. Mar. Res. 65 (3): 345–416. doi:10.1357/002224007781567621. ISSN 0022-2402. 
  3. Dugdale, R.C.; Goering, J.J. (1967). "Uptake of new and regenerated forms of nitrogen in primary productivity". Limnol. Oceanogr. 12 (2): 196–206. doi:10.4319/lo.1967.12.2.0196. Bibcode: 1967LimOc..12..196D. 
  4. Allen, A.E.; Howard-Jones, M.H.; Booth, M.G.; Frischer, M.E.; Verity, P.G.; Bronk, D.A.; Sanderson, M.P. (2002). "Importance of heterotrophic bacterial assimilation of ammonium and nitrate in the Barents Sea during summer". Journal of Marine Systems 38 (1–2): 93–108. doi:10.1016/s0924-7963(02)00171-9. Bibcode: 2002JMS....38...93A.
  5. Laws, E.A.; Falkowski, P.G.; Smith, W.O.; Ducklow, H.; McCarthy, J.J. (2000). "Temperature effects on export production in the open ocean". Global Biogeochemical Cycles 14 (4): 1231–1246. doi:10.1029/1999GB001229. Bibcode: 2000GBioC..14.1231L. 
  6. Dunne, J.P.; Armstrong, R.A.; Gnanadesikan, A.; Sarmiento, J.L. (2005). "Empirical and mechanistic models for the particle export ratio". Global Biogeochemical Cycles 19 (4): GB4026. doi:10.1029/2004GB002390. Bibcode: 2005GBioC..19.4026D. 
  7. Eppley, R.W.; Peterson, B.J. (1979). "Particulate organic matter flux and planktonic new production in the deep ocean". Nature 282 (5740): 677–680. doi:10.1038/282677a0. Bibcode: 1979Natur.282..677E.
  8. Dore, J.E.; Karl, D.M. (1996). "Nitrification in the euphotic zone as a source for nitrite, nitrate, and nitrous oxide at Station ALOHA". Limnol. Oceanogr. 41 (8): 1619–1628. doi:10.4319/lo.1996.41.8.1619. Bibcode: 1996LimOc..41.1619D.
  9. Raimbault, P.; Slawyk, G.; Boudjellal, B.; Coatanoan, C.; Conan, P.; Coste, B.; Garcia, N.; Moutin, T. et al. (1999). "Carbon and nitrogen uptake and export in the equatorial Pacific at 150°W: Evidence of an efficient regenerated production cycle". J. Geophys. Res. 104 (C2): 3341–3356. doi:10.1029/1998JC900004. Bibcode: 1999JGR...104.3341R. 
  10. Diaz, F.; Raimbault, P. (2000). "Nitrogen regeneration and dissolved organic nitrogen release during spring in a NW Mediterranean coastal zone (Gulf of Lions): implications for the estimation of new production". Mar. Ecol. Prog. Ser. 197: 51–65. doi:10.3354/meps197051. Bibcode: 2000MEPS..197...51D.
  11. Martin, A.P.; Pondaven, P. (2006). "New primary production and nitrification in the western subtropical North Atlantic: a modelling study". Global Biogeochemical Cycles 20 (4): n/a. doi:10.1029/2005GB002608. Bibcode: 2006GBioC..20.4014M. 
  12. Yool, A.; Martin, A.P.; Fernández, C.; Clark, D.R. (2007). "The significance of nitrification for oceanic new production". Nature 447 (7147): 999–1002. doi:10.1038/nature05885. PMID 17581584. Bibcode: 2007Natur.447..999Y.
  13. Kraft, B. Strous, M. and Tegetmeyer, H. E. (2011). "Microbial nitrate respiration – Genes, enzymes and environmental distribution". Journal of Biotechnology 155 (1): 104–117. doi:10.1016/j.jbiotec.2010.12.025. PMID 21219945.
  14. Lam, Phyllis and Kuypers, Marcel M. M. (2011). "Microbial Nitrogen Processes in Oxygen Minimum Zones". Annual Review of Marine Science 3: 317–345. doi:10.1146/annurev-marine-120709-142814. PMID 21329208. Bibcode: 2011ARMS....3..317L.
  15. Kamp, Anja; Beer, Dirk de; Nitsch, Jana L.; Lavik, Gaute; Stief, Peter (2011-04-05). "Diatoms respire nitrate to survive dark and anoxic conditions" (in en). Proceedings of the National Academy of Sciences 108 (14): 5649–5654. doi:10.1073/pnas.1015744108. ISSN 0027-8424. PMID 21402908. Bibcode: 2011PNAS..108.5649K.
  16. Kamp, Anja; Stief, Peter; Knappe, Jan; Beer, Dirk de (2013-12-02). "Response of the Ubiquitous Pelagic Diatom Thalassiosira weissflogii to Darkness and Anoxia". PLOS ONE 8 (12): e82605. doi:10.1371/journal.pone.0082605. ISSN 1932-6203. PMID 24312664. Bibcode: 2013PLoSO...882605K.
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