, Volume 17, Issue 2, pp 344–359

Animating the Carbon Cycle


    • School of Forestry and Environmental StudiesYale University
  • Peter A. Raymond
    • School of Forestry and Environmental StudiesYale University
  • James A. Estes
    • Department of Ecology and Evolutionary BiologyUniversity of California
  • Werner A. Kurz
    • Natural Resources CanadaCanadian Forest Service
  • Gordon W. Holtgrieve
    • School of Aquatic and Fishery SciencesUniversity of Washington
  • Mark E. Ritchie
    • Department of BiologySyracuse University
  • Daniel E. Schindler
    • School of Aquatic and Fishery SciencesUniversity of Washington
  • Amanda C. Spivak
    • Marine Chemistry and Geochemistry DepartmentWoods Hole Oceanographic Institution
  • Rod W. Wilson
    • Biosciences, College of Life and Environmental SciencesUniversity of Exeter
  • Mark A. Bradford
    • School of Forestry and Environmental StudiesYale University
  • Villy Christensen
    • Fisheries Centre, University of British Columbia
  • Linda Deegan
    • The Ecosystems Center Marine Biological Laboratory
  • Victor Smetacek
    • Alfred Wegener Institute for Polar and Marine Research
  • Michael J. Vanni
    • Department of Biology and Ecology, Evolution and Environmental Biology Graduate ProgramMiami University
  • Christopher C. Wilmers
    • Environmental Studies DepartmentUniversity of California

DOI: 10.1007/s10021-013-9715-7

Cite this article as:
Schmitz, O.J., Raymond, P.A., Estes, J.A. et al. Ecosystems (2014) 17: 344. doi:10.1007/s10021-013-9715-7


Understanding the biogeochemical processes regulating carbon cycling is central to mitigating atmospheric CO2 emissions. The role of living organisms has been accounted for, but the focus has traditionally been on contributions of plants and microbes. We develop the case that fully “animating” the carbon cycle requires broader consideration of the functional role of animals in mediating biogeochemical processes and quantification of their effects on carbon storage and exchange among terrestrial and aquatic reservoirs and the atmosphere. To encourage more hypothesis-driven experimental research that quantifies animal effects we discuss the mechanisms by which animals may affect carbon exchanges and storage within and among ecosystems and the atmosphere. We illustrate how those mechanisms lead to multiplier effects whose magnitudes may rival those of more traditional carbon storage and exchange rate estimates currently used in the carbon budget. Many animal species are already directly managed. Thus improved quantitative understanding of their influence on carbon budgets may create opportunity for management and policy to identify and implement new options for mitigating CO2 release at regional scales.

Key words:

animal mediation of carbon cyclinganimal multiplier effectsanimal management for carbon storagebiogeochemical cyclingregional carbon budgets


Over the past several decades, scientists and policy makers have studied the accumulation of atmospheric carbon dioxide (CO2) out of concern that humans are altering the dynamics of the global climate system (Revell and Suess 1957; Woodwell and others 1978; Broecker and others 1979; Post and others 1990; Falkowski and others 2000; Sarmiento and Gruber 2002; Houghton 2007). Understanding the processes that determine carbon exchange and storage is central to this undertaking because they determine the quantity of emitted CO2 and its fate among reservoirs within aquatic and terrestrial ecosystems and the atmosphere (Falkowski and others 2000; Sarmiento and Gruber 2002; Houghton 2007). Accounting of the distribution and exchange of carbon among the various reservoirs shows that aquatic and terrestrial ecosystems provide important services because biogeochemical processes within them remove as much as half of the CO2 emitted to the atmosphere each year from anthropogenic activities (Falkowski and others 2000; LeQuéré and others 2009; Ballantyne and others 2012). Although estimates of global-scale carbon storage and exchange among terrestrial and aquatic reservoirs and the atmosphere have continuously been refined (Falkowski and others 2000; LeQuéré and others 2009; Ballantyne and others 2012), large discrepancies still remain between the potential and observed carbon uptake of terrestrial and aquatic reservoirs (Ballantyne and others 2012). This is because understanding of the mechanisms that affect the processes of carbon exchange and storage and their quantification is still incomplete (Falkowski and others 2000; Mahecha and others 2010; Ballantyne and others 2012). Resolving those mechanisms not only provides an acid test of our predictive understanding of Earth as a system (Falkowski and others 2000), but also provides insights needed to formulate actionable policy aimed at mitigating CO2 build-up in the atmosphere (Falkowski and others 2000; Houghton 2007).

We develop the case that there may be much profit in quantifying the role of animals in mediating carbon dynamics to further refine estimates of carbon exchange and storage. Although mechanisms accounting for the role of animals in biogeochemical processes in general, and the carbon cycle specifically, are becoming better understood (Vanni 2002; Schmitz and others 2010), the magnitude of their effects remains remain poorly quantified. This is in part due to a research tradition in animal community ecology that focuses on biotic interactions among organisms with limited consideration of the link to biogeochemical cycling. It also stems from a classic view in ecosystem ecology that the existence of trophic pyramids of species abundances in ecosystems means that animal species, which occupy higher trophic levels in ecosystems, ought to contribute little to whole ecosystem functioning because (a) inputs of plant-derived materials for biogeochemical cycling overwhelm biomass inputs from all trophic levels, and (b) the order of magnitude lower biomass representation of animals in ecosystems relative to plants and microbes means that they can only have a minor effect on whole ecosystem metabolism (production, elemental cycling, and respiration). Finally, it results from the difficulty in modeling animal effects at the global scale because individual animal species are not globally distributed. Efforts that have attempted a global accounting focus on carbon released directly from animals to the atmosphere through respiration and eructation. The magnitudes of these direct contributions are found to be minuscule when compared to the orders of magnitude larger amounts of carbon released from plants and microbes, even when considering the global release of approximately 95–120 Tg y-1 of the potent greenhouse gas methane (CH4) by domestic and wild ruminants and termites (Dlugokencky and others 2011). However, such accounting overlooks the pivotal indirect role animals may play in mediating biogeochemical processes. Such indirect effects can cause animals to have disproportionately large impacts on rates and amounts of carbon uptake, storage and release relative to their biomass representation in ecosystems (Figure 1).
Figure 1

A schematic of how animals can influence carbon exchange and storage in terrestrial and aquatic ecosystems. This depicts exchanges between terrestrial and atmospheric reservoirs and aquatic and atmospheric reservoirs. In terrestrial ecosystems, animals can mediate uptake and release of CO2 (and hence NPP) by influencing the amount of plant biomass present in an ecosystem. By killing live biomass in NPP, they can promote wildfires that release CO2 to the atmosphere. Animals can influence biophysical conditions such as temperature through destruction of vegetation or trampling that in turn alter rates of NPP, decomposition and wildfires and ultimate release of CO2 and CH4 to the atmosphere. Animals can determine the amount of organic matter biomass and chemical elemental quality of that biomass in NPP that enters the soil pool. Control over organic matter chemical quality influences the rates of organic matter decomposition and CO2 release. In aquatic systems, animals can determine levels of inorganic carbon in dissolved form (DIC) by producing it from physiological processes. Production of DIC can influence surface level pH that influences CO2 exchange between surface waters and the atmosphere. Animals can mediate uptake and release of CO2 into plant biomass (and hence NPP) by influencing the amount of plant biomass present in an ecosystem. They can mediate the amount of organic C that is transported to sediment reservoirs via physical circulation processes. By disturbing sediments (bioturbation) they can determine the amount of sediment organic C that is released to the water column to be decomposed and hence released to the atmosphere.

We present quantitative evidence to illustrate the kinds of contributions that animals can make (Table 1). To encourage further quantification of animal effects we highlight some of the known mechanisms by which animals may affect the amounts of carbon taken up, released and transported within ecosystems. Although it continues to be challenging to include animals at the global scale, we develop the thesis that an improved understanding of the influence of animals on carbon exchange and storage can and should nonetheless be done for regional scales, given that is the scale at which many carbon management projects are occurring.
Table 1

Magnitude of Carbon Exchanges or Storage in Different Ecosystems With and Without Animal Species


Low density or absence (Tg C y−1)

High density or presence (Tg C y−1)

Differential (Tg C y−1)

Extent of region (km2)


 Large mammals

183 to 1825


183 to 1825

1.0 × 106 Arctic yedoma


548 to 656

689 to 722

66 to 141

1.89 × 106 North American boreal forest

 Mountain Pine Beetle




7.4 × 104 Interior British Columbia





2.5 × 104 Serengetti




40 to 110


3.0 × 108 Global, pelagic





1.0 × 107 Global, shelf




3.2 × 107 Global, slopes




2.9 × 108 Global, abyssal

 Sea Otter

0.3 to −0.9

1.2 to 2.2

0.9 to 1.3

1.2 × 104 North Pacific inshore

Carbon can be taken up in plant biomass (NPP), stored in plant biomass (storage), soils or sediment (burial) or escape to the atmosphere (release). Differential quantifies the net difference in carbon exchange between when animals are present or in high abundance vs. absent or in low abundance. Values in bold font indicate release to the atmosphere, values in regular font indicate uptake into terrestrial or aquatic reservoirs.


Most animal species are not globally distributed but instead interact within and across the boundaries of ecosystems. Thus, a refined accounting of animal effects needs to be conducted at the associated regional scales of ecosystems, rather than at a global scale. This focal scale is also consistent with recent calls to pay more attention to regional-scale exchange and storage processes when considering the global carbon budget (Ballantyne and others 2012). Moreover, policies and management to mitigate atmospheric CO2 buildup are usually implemented regionally within sub-national political jurisdictions such as states or provinces (Dulal and others 2012; Venter and Koh 2012).

Huge quantities of carbon currently reside in non-reactive or protected carbon reservoirs following CO2 uptake by photosynthesis and then burial of the plant biomass in soils, peatlands or aquatic sediments (Tarnocai and others 2009; Schuur and Abbott 2011). Animals can mediate many physical, chemical and biological processes within ecosystems (Figure 1) that determine how much carbon is fixed, transformed and transported among those carbon reservoirs. This has the potential to cause regional ecosystems to shift from being net CO2 sinks to sources, or vice versa (Table 1).

Long-term build-up of protected organic carbon requires only a fraction of organic matter to escape microbial, plant and detritivore metabolism through transfer to a more biologically inert soil, sediment, or deep ocean reservoir. For example, carbon is sequestered in deep ocean waters as dissolved inorganic carbon (DIC), either through direct transport of DIC to these depths via deep-water formation or through the decay of organic matter delivered there from the euphotic zone. Animals can affect the production of inorganic carbon that is then transported to depth via physical processes (Figure 1). Once in any of these storage pools, carbon remains a potential source of CO2 and CH4 release through biotic (microbial, bioturbation) or abiotic (for example, fires influencing terrestrial pools, thawing of permafrost) disturbances (Kurz and others 2008a, b; Houghton and others 2009; Schuur and Abbott 2011).

Animal Effects on Regional Carbon Flux Magnitudes

Several studies are beginning to document that animal impacts can be large enough to be included in regional assessments. Especially noteworthy is the Arctic, where approximately 500 Pg of carbon is currently bound up in organic carbon-rich permafrost known as yedoma (Zimov and others 2006). Large migrating mammalian grazers like caribou, muskoxen, horses, and bison can maintain the grasslands that have a high albedo and also reduce winter snow insulation through trampling that, depending on animal densities, could reduce permafrost temperatures and offset warming (Zimov and others 2009). But, declines of these vast herds can trigger large-scale shifts in the vegetation community. As grazer populations dwindle the grasslands that helped maintain the permafrost transform to mosses and shrubs leading to a growing risk of peat decomposition. The sustained annual CO2 and CH4 release from this 106 km2 region to the atmosphere, at the low end of the estimate (Table 1; see Appendix A in Supplemental Material), is equivalent to 10% of the fossil-fuel carbon emissions from China or USA. At the high end of the estimate, carbon release could rival annual emissions from China and USA and exceed Russia’s emissions by a factor of 4 (Figure 2). Modeling indicates that the reestablishment of abundant grazing herds could lead to carbon storage in these regions on the scale of tens of kg cm−2 under certain scenarios (Zimov and others 2009).
Figure 2

Quantification of animal contributions to regional carbon budgets and comparison with anthropogenic fossil fuel emissions from the same regions. The figure illustrates that the magnitudes of carbon uptake or release due to effects of individual animal species or groups of animals within their respective regional ecosystems can rival the magnitudes of carbon released in CO2 through anthropogenic fossil fuel emissions including solid and liquid fossil fuel burning, gas flaring, and cement production. Split bars for particular ecosystems show estimated ranges of flux estimates. Data for anthropogenic releases were obtained from for global countries and from for regions.

Other ecosystems may also depend on large grazers to maintain carbon sinks. Prior to the 1960s migrating wildebeest in the Serengeti-Mara grassland-savanna system in East Africa were decimated by disease and poaching, greatly reducing their numbers from about 1.2 million animals to 300,000 (Holdo and others 2009). Following the population reduction, ungrazed grasslands accumulated large amounts of aboveground organic matter fuel and consequently 80 % of the ecosystem (grasslands and savanna woodlands) burned annually by wildfire, leading to a net release of carbon to the atmosphere as CO2. Over many years this state change also led to the loss of organic carbon from soil carbon stocks. Wildebeest population recovery, due to disease management and anti-poaching enforcement, reversed the spatial extent of the wildfires: every increase of 100,000 animals translates into around 10 % less area burned (Holdo and others 2009). This shift in fire regime arose because grazers effectively divert a fraction of carbon from combustible aboveground standing biomass to dung that is incorporated by insect detritivores into soil reservoirs not prone to burning. The current grazing regime is estimated to have restored the Serengeti as a net CO2 sink by facilitating pumping of atmospheric carbon back into soil reservoirs and in savanna tree regrowth (Table 1; see Appendix A in Supplemental Material). Without this sink, carbon released from the Serengeti would equal East Africa’s current annual fossil fuel carbon emissions (Figure 2).

The boreal forest biome is a reservoir for 30% of terrestrial carbon (Houghton and others 2009; Pan and others 2011). Both vertebrate and invertebrate species within these systems may be instrumental drivers of biogeochemical processes (Pastor and others 1988; Dymond and others 2010). The moose is a dominant mammalian herbivore whose geographic range distribution is conterminous with the North American boreal forest. Experimental research has shown that moose can indirectly control rates of primary productivity and heterotrophic respiration of boreal ecosystems through selective browsing and by priming soil microbial decomposition. Moose do this by altering the release of nutrients for plant production through changes in the nutrient (carbon and nitrogen) content of litter and their dung (Pastor and others 1988; see Appendix A in Supplemental Material). Experimentation revealed that the influence of moose through these pathways leads to an inverse relationship between moose density and ecosystem uptake of CO2 in net primary production (NPP) and plant standing biomass. High moose densities can cause declines in CO2 uptake and storage in boreal ecosystems by altering the physical environment through direct browsing on photosynthetic tissue and indirectly through reduction of tree growth that leads to reductions in forest canopy height and closure. Canopy reductions of 12–50 % can result in lower humidity, warmer and drier soils. This leads to lower net productivity of boreal ecosystems and creates biophysical conditions that are more conducive to forest fires (Schmitz and others 2003). Management to keep moose populations in lower abundances (~0.5 km−2 vs. 1–1.5 km−2) across the entire North American boreal region, after accounting for CO2 released via moose and microbial respiration (see Appendix A in Supplemental Material), could lead, conservatively, to an estimated NPP of approximately 548–656 Tg C y-1 at high moose densities to approximately 689–722 Tg C y-1 at lower moose densities (see Appendix A in Supplemental Material). The net difference in NPP between higher and lower moose densities is equivalent to approximately 42–95% of all of Canada’s (globally, the 8th highest emitter) total annual CO2 release as fossil-fuel emissions (Table 1; see Appendix A in Supplemental Material). Part of this management effort could include ensuring that apex predators such as wolves attain natural levels that maintain moose populations below their carrying capacity.

Insects have also not been explicitly considered in most continental-to-global scale carbon models and budget estimates because, until recently, there was a lack of appreciation of the spatial scale over which impacts may occur or have occurred (Kurz and others 2008b). Insects, both defoliators and bark beetles, can alter the carbon budget of ecosystems in outbreak years by consuming and respiring foliage biomass, reducing plant growth, and causing wide-spread plant mortality especially during severe, multi-year outbreak episodes. These die-offs cause large quantities of carbon to be transferred from live biomass to dead organic matter pools from which CO2 is released either through heterotrophic respiration during invertebrate and microbial decomposition, or through wildfires promoted by high fuel loads (Kurz and others 2008b; Dymond and others 2010; Hicke and others 2012). The current climate-change mediated bark beetle outbreak in western North America, especially British Columbia, Canada, is of unprecedented scale. Estimates (Kurz and others 2008a) indicate that the net carbon balance is decreased by 16.4 Tg C y-1 through reduced net primary production (NPP) resulting from increased beetle-induced tree mortality and increased decomposition losses from killed trees (Table 1; see Appendix A in Supplemental Material). This amount is equivalent to British Columbia’s current fossil-fuel carbon emissions (Figure 2). As the outbreak abates, the forest carbon balance is unlikely to recover to its pre-disturbance state for at least 20 years if not more (Kurz and others 2008a). The CO2 impact on the atmosphere over the 21-year period of analysis was estimated at 270 Tg C (Kurz and others 2008a), about 1.8 times the average annual fossil fuel emissions in Canada over the last decade.

Animals can also be quantitatively important in marine ecosystems, which have stored approximately half of anthropogenic carbon emissions since 1800 (Sabine and others 2004). In particular, the inorganic component of the marine carbon cycle is based on biogenic calcification, that is, organismal precipitation of carbonate minerals. Their dissolution near the surface ocean is important as it raises alkalinity that enhances absorption of atmospheric CO2 and buffers the effects of ocean acidification. Previously, microscopic plankton, especially coccolithophorids, were considered the only quantitatively important sources. But, fish and echinoderms can be significant contributors to the pelagic and benthic carbonate inventories (Wilson and others 2009; Lebrato and others 2010; Perry and others 2011). Marine teleost fish precipitate carbonates (in the mineral form “high Mg–calcite”) within their intestine (Wilson and others 2009) and release these at high rates as a by-product of a variety of physiological processes (Cooper and others 2010; Whittamore and others 2010). Conservative estimates that combine this physiological understanding with recent models of global fish biomass suggest fish calcite production amounts to 40–110 Tg C y-1 (Table 1; see Appendix A in Supplemental Material). In addition, the global production of CaCO3 by echinoderms (primarily by sea urchins, brittle stars, and sea stars) is estimated (Lebrato and others 2010) to be 102 Tg C y-1 across three marine zones (Table 1; see Appendix A in Supplemental Material). The global carbon bound up in calcite produced by each of fish and echinoderms is equivalent to the amount of carbon released in fossil fuel emissions by countries like Brazil, the UK, and Australia (Figure 2). Fish populations are also highly altered by anthropogenic activities and thus these rates have presumably been altered over past decades.

The biotic component of the marine carbon cycle is typically viewed as involving primarily CO2 uptake by algae. As in terrestrial forest ecosystems, animals can mediate that photosynthetic uptake. For example, coastal kelp forests are recovering in areas along the western seacoast of North America where sea otter numbers are rebounding after being hunted to the brink of extinction. Similar to wolves in the boreal, sea otters indirectly benefit kelp by regulating herbivorous sea urchins, which if left unchecked have devastating grazing impacts on kelp (Wilmers and others 2012). Restoring sea otters to historic densities throughout their 12,000 km2 range, from Vancouver Island to the western edge of the Aleutian Island can lead to a 0.9–1.3 Tg y-1 increase in NPP, which is equivalent to 6–10 % of the annual carbon released in British Columbia, Canada’s fossil-fuel emissions (Figure 2).

One group of animals that are potentially important to consider but are not discussed at length here are soil fauna. This is because more science is required before their effects on carbon flows are elucidated in a manner that informs detailed management of their populations to achieve net carbon storage. Soil fauna are undoubtedly important in regulating the activities of soil microorganisms (Crowther and others 2012), which are primary agents of both the mineralization and formation of soil organic matter (SOM) (Schmidt and others 2011). This carbon store, to 3-m depth, is approximately triple the size of the atmospheric store (Jobbágy and Jackson 2000) and so management of soil animals has huge potential to mitigate rising atmospheric CO2 concentrations. Yet synthesis of experiments quantifying effects of soil fauna, such as earthworms, on soil carbon stores suggests they may be negligible over the long-term even though their short-term activities may promote CO2 emissions by 33 % (Lubbers and others 2013). Further, in an observational study across four European countries and across a gradient of agricultural land use, de Vries and others (2013) showed that earthworm biomass correlated positively with both CO2 emissions and soil carbon contents, highlighting that CO2 fluxes may provide a poor proxy for organismal effects on soil carbon stocks (Conant and others 2011). Clearly, then, soil fauna exert strong controls on carbon fluxes but their effects on carbon stores are uncertain. Changing land management, such as a move toward organic fertilizers, will change the structure of soil food webs by enhancing the abundance of fauna such as earthworms (Lubbers and others 2013), highlighting a need to understand better the net effect of soil fauna on carbon stocks and how these fauna might be managed to promote carbon sequestration.

Compensatory Effects

Compensatory effects arise when an increase in abundance or process rate of one component of an ecosystem is compensated by a decrease in abundance or process rates of other components, potentially resulting in limited net change in ecosystem structure or functioning. Within animal populations and communities, compensatory effects may arise from feedbacks, such as when animal populations reach abundances where population growth rate declines due to within-population competition for limiting resources or when increases in the abundance of one species causes a decline in another species due to predator-prey or between species competitive interactions. Hence there could be limits on the extent to which management can manipulate animal populations to effect changes in carbon flux and storage because of the interaction between animal population dynamics and ecosystem processes. The magnitudes of these limitations also need to be quantified.

As a case in point, benthic-associated animals influence carbon cycling and fate by consuming deposited organic matter and bioturbating (re-suspending) lake sediments and redistributing nutrients into the water column. These processes mediate the degree of sediment organic carbon uptake into animal biomass and microbial respiration in surface sediments and in re-suspended material in the water column ultimately reducing the amount of carbon buried and protected in sediments (Vanni and others 2011; Knoll and others 2013). In some lakes, microbial CO2 release can be counterbalanced by a parallel nutrient cycle involving excretion into the water column of nutrients consumed from benthic detritus. This excretion stimulates algal growth, carbon uptake, and subsequent organic carbon deposition back to the sediments (Vanni and others 2011; Knoll and others 2013). Bioturbation effects on carbon fate can be substantial in freshwater lake systems. For instance, approximately 50–60 % of the deposited organic carbon in Ohio reservoirs remains buried, 1–2 % is respired by sediment microbes, 10–15 % is consumed by detritivorous fish (gizzard shad, Dorosoma cepedianum), 25–30 % is directly re-suspended by shad, and 2–3 % is re-suspended by wind (Vanni and others 2011; Knoll and others 2013). Simulated reductions in shad population size resulted in relatively modest effects on sediment organic carbon burial. Specifically, lowering shad abundance also lowers fish-driven nutrient cycling and primary production and, thus, algal inputs to the sediments, countering their effects on burial mediated by sediment re-suspension and microbial respiration, described above (Vanni and others 2011; Knoll and others unpublished).

Compensating effects may also arise from interactions between different ecosystem processes. For example, the build-up of biomass carbon consequent to animal management could be vulnerable to other disturbances that could result in carbon being released back to the atmosphere. Boreal forests, which are subject to annual wildfires are especially notable (Kasischke and others 1995) because the carbon released could mitigate any gains in storage due to animal (moose) effects. Wildfires burn 28,000 km2 of Canadian boreal forests annually releasing approximately 1.2–1.6 kg cm−2 to the atmosphere (Kasischke and others 1995; Canadian Forest Service 2005). The total estimated release for the entire Canadian boreal region is 0.33–0.44 Tg C y-1. But, this is only around 0.2–0.5 % of the additional NPP obtained by managing moose populations. This reinforces the potential value of restoring or managing wolves, which can limit the abundance and distribution of moose and other ungulates, for carbon management (McLaren and Peterson 1994; Ripple and others 2010).

Because outbreaks of bark beetles and defoliating insects tend to be episodic, the large, short-term release of CO2 following insect outbreaks could presumably be compensated by biomass uptake as the forest ecosystem recovers through new tree growth. However, simulation analysis modeling the aftermath of the British Columbia, Canada pine beetle outbreak, relative to simulated non-outbreak conditions, reveals that recovery is likely to progress very slowly (Kurz and others 2008a). Even after 20 years there would still be approximately 10 Tg C y−1 (63 % of peak) reduction in carbon sinks. The compromised ability of forest ecosystems to be long-term carbon sinks due to episodic insect outbreaks has also been observed in analyses of spruce budworm and gypsy moth outbreaks in Eastern North America (Kurz and others 2008b; Dymond and others 2010; Medvigy and others 2012).

The existence of compensating effects should not, however, become a barrier to future research because compensating effects exist when considering any alteration of biogeochemical cycles and budgets. Thus although we have demonstrated the importance of animals through empirical and experimental evidence, understanding compensating effects will need to become a key part of a complete quantification of the effect of animals on the carbon cycle.

Fluxes Versus Long-term Storage

If further research demonstrates that animals more broadly can make significant contributions to carbon fluxes, then land and wildlife managers have much potential opportunity to manipulate animal populations in ways that can help mitigate carbon emissions to the atmosphere. But, will such effects be lasting? Estimates suggest that animals could influence long-term carbon storage in terrestrial and aquatic reservoirs.

Management of arctic mammalian grazing herds to maintain permafrost conditions could certainly protect carbon in soils and delay or prevent carbon release from millions of km2 of global arctic regions (Zimov and others 2009). Management of other grazing systems also has long-term storage potential. A majority of the world’s grasslands have been degraded by overgrazing or cultivation, and another significant fraction experiences a hyper-frequency of fires and ongoing losses of soil carbon. A simple model of a grassland carbon budget based on insights from the Serengeti grazing system (Ritchie and others 2013) suggests that excessive fire or overgrazing can reduce soil carbon stocks by 50–100 Mg ha-1 over a 20–50 year period. Using sustainable grazing practices to recover most of the regionally overgrazed or overburned grasslands and savannas which, at 2.7 × 109 ha, cover more than 10 % of the Earth’s land surface (Houghton and others 2009), could theoretically sequester in soils 1–2 Pg of the annual 9 Pg of annual CO2 emissions. Although these estimates show promise, an important research priority is to provide broader quantitative understanding of the fate of new NPP in terrestrial and aquatic ecosystems attendant to managing animal populations. Clearly, a significant portion of photosynthetically-fixed carbon undoubtedly becomes lost via the fast carbon cycle through plant and animal respiration and microbial decomposition. However some fraction of NPP will evade loss and be stored in plant biomass (Houghton and others 2009), and in soils, deep ocean and coastal sediments (Pastor and others 1988; Wilmers and others 2012).

Quantitative understanding of the implications of animal effects on inorganic carbon production is also needed. In the process of biogenic calcification in seawater, approximately 0.6 mol of CO2 are released for every mole CaCO3 fixed (Ware and others 1992). On human societal timescales, calcification reduces the buffering capacity of the oceans and results in higher atmospheric CO2 concentrations. However, high Mg calcite produced by fish and echinoderms (Wilson and others 2009; Lebrato and others 2010; Woosley and others 2012) is more prone to rapid dissolution and thus potentially restores surface ocean alkalinity and CO2 levels compared to carbonates from other sources. There are conflicting data on whether carbonate production by echinoderms will increase or decrease in response to ocean warming and acidification (Lebrato and others 2010), and no data yet on how these combined factors will affect fish carbonate production. It will be important to establish whether these two animal sources will act as negative or positive feedback controls on ocean carbonate chemistry under future climate conditions.

Moving Forward

Exploring Mechanisms of Animal Effects

The above examinations of case studies help to demonstrate that animal effects can be quantitatively important within regions. Yet, fully resolving animal effects requires more detailed examinations of mechanisms that link changes in animal abundances with changes in amounts of carbon taken up, released and transported within ecosystems. This requires expanded use of ecosystem experimentation that systematically measures carbon storage and flux between areas where focal animal species abundances vary naturally or are manipulated through experimentation or management (Schmitz and others 2010). Experience shows that such experimentation is possible at spatial scales relevant to management ranging from large fields (Hawlena and Schmitz 2010) to whole lakes (Schindler and others 1997) or terrestrial islands (Pastor and others 1988) to 10’s–100’s of km2 of open-ocean (Smetacek and others 2012). Such efforts have provided fresh insights about the integral role of animals in governing local and regional carbon cycling. Although, some of these studies may circumscribe subsets of species comprising whole ecosystems, we present them here to illustrate the kinds of generalizable and scalable principles about the way animals mediate carbon cycling that can be explored in future research. Broadly speaking, animal mediation of carbon cycling arises when their population abundances change or when their interactions with other species in food webs change.

The cases already presented show animal-mediated carbon exchange through actions such as significant consumption of plant matter by grazers, pests killing large tracts of live plant biomass, stimulation of decay and microbial decomposition, disturbance, and changes in the physical environment (for example, snow cover, which affects soil temperature and in northern latitudes permafrost processes), and excretion or production of organic and inorganic compounds that alter biogeochemical cycles. Other mediating impacts include disturbing sediments (bioturbation) and translocating nutrients.

Animal mediated nutrient and organic matter transport and translocation is a well-known process in aquatic ecosystems (Vanni 2002). It has also recently been proposed as a major driver of primary production of Amazonian forests. Modeling suggests that extinctions of large bodied animal fauna may have caused up to a 98 % decrease in lateral flow of phosphorus that in turn now exacerbates phosphorus limitation of forest production (Doughty and others 2013). Whales also historically cultivated the ocean by their unique feeding on mesopelagic and deep-water prey such as krill and squid and defecating liquid feces at the surface, thereby translocating nutrients to surface waters to fuel phytoplankton production (Kanwisher and Ridgway 1983; Nicol and others 2010). Because inorganic iron is highly insoluble in oxic seawater, there can be much more iron within living biomass than in the dissolved phase (Lavery and others 2010). However, the living iron reservoir of Antarctic krill has declined after the great baleen whales were reduced to a small fraction of their historic abundance (Atkinson and others 2004) possibly because large-scale recycling of iron was interrupted. Estimates suggest that the 12,000 sperm whales in the Southern Ocean alone could eat 2 Tg of squid in the deep ocean per year, the iron of which when released at the surface would fuel an additional new production of 0.4 Tg C·y-1 (Atkinson and others 2004). The estimated respiration of these whales is only 0.16 Tg C·y−1, resulting in a net annual sink of 0.24 Tg C by this whale pump (Roman and McCarthy 2010). Without predation by surface-defecating whales, the iron in their prey (krill and deep-sea squid) would sink to the deep sea and floor at lower carbon:iron ratios typical of animal carcasses than the higher ratios in plankton in the upper surface pelagic ecosystems maintained by whale fertilization (Roman and McCarthy 2010). Whales can supply other important nutrients to stimulate production and biotic carbon uptake. Based on ammonia concentration in whale fecal plumes, whales in the Gulf of Maine replenish an estimated 0.24 Tg·y−1 of nitrogen to support production, an amount that exceeds the total river input of nitrogen to the gulf (Roman and McCarthy 2010).

Another example is the translocation of organic matter by giant filter-feeding tunicate larvaceans living within the middle depths of the ocean. These filter-feeders consume suspended particles by pumping them through carbon rich mucopolysaccharide filtering structures that can exceed 60 mm thickness × 1 m diameter (Robison and others 2005). These structures are discarded regularly (as often as daily) once they become clogged. Discarded structures collapse and sink rapidly to the deep ocean, thereby avoiding microbial decomposition in surface waters (Robison and others 2005). The discarded structures of one species, Bathochordaeus charonalone, alone can account for 5 % of the sinking particulate carbon in the water column above the Monterey Canyon region off of California that eventually reaches 1,000 m depth to become part of long-term (geological time scale) carbon stores (Robison and others 2005). Many freshwater fish and invertebrates also function as nutrient translocators, consuming nutrient-containing resources in the benthos and excreting dissolved nitrogen and phosphorus into the water column. This stimulates phytoplankton primary production, which can draw CO2 into the water column from the atmosphere, and lead to increased organic carbon burial rates in sediments.

Animals can influence carbon cycling via food web interactions, such as when predators alter the species composition and elemental stoichiometry of entire food webs and storage pools (Schmitz and others 2010). Predators can also cause the induction of physiological changes in their prey that have cascading, multiplier effects on carbon exchange through changes in herbivore impacts on the composition and biomass of plant species, and microbial functioning (Schmitz and others 2010). Many insights about food web effects are derived from experiments within mesocosms that control for biophysical conditions such as nutrient supplies and temperatures of the experimental environment to test hypotheses about focal mechanisms. Such studies have revealed that the presence of top predators in artificial experimental streams and ponds has cascading effects on prey and plant abundances. Both vertebrate and invertebrate aquatic predators consistently reduced prey biomass that in turn indirectly increased the abundance of algae (Atwood and others 2013). The enhanced algal abundance due to changes in food web structure led to a 42 % reduction in dissolved CO2 in the water column and a 93 % reduction in CO2 emitted from the mesocosms to the atmosphere (Atwood and others 2013). These cascades are similar to that described for marine kelp forests in the presence and absence of sea otters, providing proof-of-concept for the scalability and generalization of mechanistic insights from small-scale controlled experiments for informing understanding of functioning of regional ecosystems.

There is now growing recognition that the cascading effects of carnivores may also arise through modulation of herbivore foraging impacts (Schmitz and others 2010). In addition to altering total plant abundance available for carbon uptake, herbivory can trigger physiological adjustments in the remaining damaged plants including reduction in photosynthetic rates and increased respiration (Strickland and others 2013). Thus, carnivores could increase plant community carbon fixation and reduce respiration, thereby increasing carbon retention, by causing herbivores to reduce their foraging impacts on plants. This mechanism was demonstrated with a 13CO2 pulse-chase field experiment in a grassland ecosystem comprised of herbs and grasses, grasshopper herbivores and spider predators in northeastern Connecticut, USA (Strickland and others 2013). Experimentally manipulating the presence of herbivores and predators in the ecosystem resulted in alteration of fixation of carbon by plants, even without an initial change in total plant or herbivore biomass. Prolonged cascading effects of top predators on plants lead to slowing of carbon loss via ecosystem respiration and reallocation of carbon among plant aboveground and belowground tissues (Strickland and others 2013). As a result, up to 1.4-times more carbon was retained in plant biomass when carnivores were present in the experimental ecosystem compared to when they were absent. This outcome was primarily due to greater carbon storage in grass and belowground plant biomass driven largely by reduction in foraging effort of herbivores due to the need to become vigilant and reduce predation risk, rather than a reduction in herbivore abundance due to direct predation (Strickland and others 2013).

The scalability of experiments also provides a basis for understanding greater complexity of natural ecosystems because the biophysical environment can be more variable and the species composition of the food webs can be more diverse. For example, experiments within whole freshwater lake ecosystems have demonstrated that species composition and size structure can control CO2 storage and release, but this varies with nutrient loading (Schindler and others 1997). When planktivorous fish are the top predator in lakes (that is, with three trophic levels), they control the abundance of large-bodied zooplankton and the remaining small-bodied zooplankton are ineffective at controlling algal production. When piscivorous fish are the top predator (four trophic levels), they suppress the abundance of planktivorous fish, which releases zooplankton from heavy predation (Schindler and others 1997). Consequently, there is a proliferation of large-bodied zooplankton grazers that are effective at suppressing algal production. As limiting nutrients are added, primary production increases and the lake can turn from a net carbon source to a carbon sink. At the same nutrient addition, however, lakes with planktivorous top predators can have from 1.2 to 2.9 times higher primary production than lakes with piscivorous top predators (Schindler and others 1997). Thus, the kind of top predator effect on food web composition can be an important driver of carbon dynamics in lakes, as algae in lakes with planktivorous top predators take up 3.4–4.6 times more carbon than in lakes with piscivorous top predators (Schindler and others 1997). The direct management and exploitation of fish in inland waters therefore has likely altered biogeochemical cycles and impacted regional carbon budgets.

Similar effects due to compositional changes within food webs can be inferred for the entire extratropical North Atlantic Ocean region. Environmental warming has resulted in pronounced latitudinal changes in phytoplankton and zooplankton within this region, due to a greater representation of smaller-sized zooplankton (Beaugrand and others 2010). This reorganization of the planktonic food web may influence the fate of carbon in the ocean by shifting the phytoplankton community from diatoms (major exporters of carbon to non-reactive reservoirs in the deep ocean) to coccolithophorid algal species that reside in surface waters. There is also emerging evidence that active management of species such as the North Atlantic cod can alter food web connections and carbon fluxes. The overfishing of cod changes food web composition, especially phytoplankton species composition. This change, coupled with reduced upwelling of nutrient rich water under climate warming, could reduce carbon fluxes into and storage within the marine reservoir not only because of lower nutrient inputs to phytoplankton into the euphotic zone, but also because organic carbon would reside longer in the reactive surface water reservoir (Beaugrand and others 2010).

One of the best representations of animals in current global carbon models is zooplankton in the world’s oceans (Falkowski and others 2000). Zooplankton consume large amounts of primary production in the surface ocean and can have direct impacts on algal biomass and carbon fluxes. Zooplankton also have indirect effects because they forage selectively on certain sizes of phytoplankton. This in turn changes the species composition which can affect the rate of aggregate formation, sinking rate, and elemental ratios of exported material and ultimately movement of carbon and nutrients from the reactive surface ocean to non-reactive pools at depth (Smetacek and others 2004). This mechanism of top down control is particularly strong in response to iron enrichment (Smetacek and others 2004).

Traditional concepts of trophic pyramids in terrestrial ecosystems highlight that inputs from plants to soils are more important for regulating belowground processes than inputs from herbivores or predators, because the plant inputs constitute the greatest biomass and carbon flux. Predators are then presumed to regulate ecosystem processes mainly by altering the quality and quantity of plant materials entering soil, via control of herbivore density and foraging behavior (Hawlena and Schmitz 2010). However, the threat of predation can elevate herbivore stress, and consequently metabolism, causing shifts in their body carbon and nitrogen content as herbivores seek out carbohydrate, for energy to fuel heightened metabolism, instead of protein for growth and reproduction (Hawlena and Schmitz 2010). Experiments in field plots within a grassland ecosystem revealed that the threat-induced shift in herbivore body chemistry (~4 % higher carbon:nitrogen ratio in predator-stressed herbivores) causes up to a 1.25-fold reduction in subsequent mineralization rates of plant-litter inputs. This difference arises because stressed herbivore carcasses were a poorer quality resource, given the lower relative nitrogen content, for soil microbes that use the nitrogen to manufacture enzymes that degrade more recalcitrant plant-litter inputs (Hawlena and others 2012). Predator-induced changes in herbivore body chemistry can thus have surprising multiplier effects on ecosystem carbon cycling by reducing microbial-mediated decomposition of plant inputs and hence the rate of CO2 released from the soil (Hawlena and others 2012).

Invasive predator species can have large cascading effects on ecosystems via systematic elimination of prey species, in turn reducing potential carbon uptake via ecosystem productivity (Schmitz and others 2010; Estes and others 2011; Wardle and others 2012). This mechanism can be seen operating on islands harboring breeding colonies of seabirds. Seabirds are important vectors of nutrients from the marine realm to terrestrial islands on which they breed. Inorganic nitrogen in seabird guano is vital for terrestrial plant production (Wardle and others 2012). Invasive rats can drive the seabird colonies to local extinction thereby completely eliminating the influx of new guano nutrients and causing a sharp decline in CO2 uptake by lowering island plant production (Wardle and others 2012).

Clearly, the accumulating evidence supports further consideration and quantification of animal effects on ecosystem function through mediation of carbon fluxes. Moreover, animal populations have been and will continue to be altered. The global scale impact of animals still remains difficult to model or assess due to the spatial distribution of animal species, the different natures of animal effects on ecosystem processes in different regions, and currently unexplored quantitative means to scale up local and regional carbon dynamics for accounting in a global budget. At the very least, it is becoming evident that ignoring animal effects at regional scales could result in potential misdiagnosis or mismanagement of factors that determine regional carbon budgets.


The evidence that we present illustrates how changing animal presence or abundances can alter carbon flux rates as well as the fate of carbon among different reservoirs. In as much as ecosystem management involves deliberate environmental manipulations, we suggest that there is further opportunity to test for animal effects on carbon cycling through experimental management activities that include manipulating animal abundances or presence. In some cases, management to enhance animal presence or abundance is desirable (for example, enhancing grazer abundances in tundra or grasslands). In other cases, management should avoid having high animal abundances within ecosystems (for example, herbivorous mammals and insect pests in terrestrial forests, urchins in kelp forests) either through integrated pest management, population harvesting, or ensuring that the trophic structure of ecosystems remains intact by maintaining or restoring predators to ecosystems. The lesson here is that there may be potential for unrealized gains or unintended pitfalls if animal effects are not included in budget calculations on which ecosystem management programs for carbon sequestration are based.

Moreover, policy makers, out of necessity, tend to target energy technology and reductions in energy use to regulate carbon emissions to the atmosphere (Pacala and Sokolow 2004; Peters and others 2012). This is an expensive prospect and, for the largest CO2 emitters, requires decade-long alterations in capital investment that have thus far proven insufficient to achieve reductions in global carbon emissions (Peters and others 2012). Further mitigation options are therefore needed, and so there is much value in exploring other means of controlling net emissions via natural sequestration at country or regional-level scales (for example, carbon emission reduction from deforestation and degradation or REDD + projects). Ignoring animal effects in such sequestration projects could lead to under- or over-valuation of sequestration potential. Yet, ironically humans already manage populations of many of the animals for other purposes (for example, fisheries or grazers for food production), so expanding consideration to carbon dynamics would not present a radical shift in approach. We show above that there is promise for such management activities to reduce annual release of CO2 to the atmosphere. The magnitudes of effect are on the same order as more established land management activities, such as land conversion to forest. For example, in the United States afforestation and forest aggradation activities aim to sequester approximately 225 Tg C y-1 (USEPA 2013), magnitudes that compare with those of animal effects within forested regions (Table 1). Moreover, many of the examples we present here involve vast regions in which human population densities are low, thereby potentially minimizing conflict between human development goals and management of ecosystem functioning for carbon sequestration.

The regional-scale perspective of animal effects we present here also aligns with the scale of carbon management. REDD + projects, while negotiated at the global to regional scales, are implemented at scales from the country down to individual land-owners (Dulal and others 2012; Venter and Koh 2012). The 92 UN-certified Clean Development Mechanism (CDM) carbon reforestation or afforestation offset projects (average size of 7,800 ha) collectively cover 7,176 km2. One concern about natural carbon management policies is that carbon is sequestered over long time scales but may be lost very quickly following disturbances (Körner 2003). As our case studies demonstrate, animals can cause some of these disturbances and thus drive the rapid loss of carbon. They can also enhance carbon storage and mitigate release. Therefore management could be much more strategic about including the role of animals in their accounting and thereby control their impacts (Brodie and Gibbs 2009; Tanentzap and Coomes 2012).

There are also trade-offs that need to be reconciled between animal management for carbon mitigation and animal management to protect biodiversity and other ecosystem services (Thomas and others 2013). For example, it is typically held that human activities degrade many services provided by freshwater ecosystems. Eutrophication of lakes and coastal oceans is viewed as a notorious global problem where primary productivity and associated noxious algae blooms are enhanced by anthropogenic nutrient loading (Smith and Schindler 2009). Freshwater fish communities are also widely affected by fisheries that tend to selectively harvest large piscivorous species (Post and others 2002). The interaction between excessive nutrient loading and removal of piscivorous species is often thought to jeopardize many important ecosystem services that less productive ecosystems provide to society (Wilson and Carpenter 1999). Ironically, these human impacts may increase carbon fixation and burial in lakes and reservoirs and thus increase regional capacity to sequester atmospheric CO2. Although the effects of fish and fisheries in pelagic marine food webs is more poorly understood, evidence is accumulating (Essington 2010; Steneck 2010) that alteration of top predator abundances may be linked to carbon sequestration in the sea via effects on the biological pump. Many harvested fish are also highly migratory and, like whales, transport substantial amount of nutrients and organic matter across ecosystem boundaries, in some cases increasing carbon fixation in receiving ecosystems (Naiman and others 2002) and releasing carbon in others (Holtgrieve and Schindler 2011). The management of most industrialized marine fisheries is tending towards avoiding serial depletion of top predators (Worm and others 2009), which could limit the ocean’s ability to sequester carbon. Thus, in freshwater and marine ecosystems, managing animals to enhance carbon sequestration may be in direct conflict with maintaining other valued ecosystem functions and services. So, the role of animals in a future world is a double-edged sword. In some cases moving forward with current plans to manage ecosystems without taking the impact of animals into account might cause projects to overestimate the storage returns of a management activity. Alternatively, opportunities exist to use the multiplying indirect effect of animals to allow them to play a positive role in CO2 sequestration while providing other services. These tradeoffs need to be explicitly quantified and taken into account as strategies for carbon management unfold. Consideration of animal management within a multiple-objective framework that includes carbon balance as an objective can provide a basis for identifying additional, cost-effective CO2 mitigation wedges (Pacala and Sokolow 2004).


Our synthesis offers plausible first approximations merely to encourage further evaluations of animal effects in support of managing carbon dynamics. Where, when, and how animals are important drivers and mediators of carbon storage and exchange still needs to be comprehensively determined to derive a broader, quantitative understanding of their roles. Efforts that have begun to explore animal effects have provided fresh insights about mechanisms that mediate local and regional carbon cycling. Further examination may reveal altogether new insights about ways to manage animal abundances that may lead to value-added situations. This is because management to sequester carbon is often the choice that promotes greater sustainable use and production (for example, Serengeti grazers, overgrazed grasslands, sea otters and kelp forests, mixed-species forestry to minimize pest impacts on productivity). For this reason, land-use management, and management of key animal species or food webs in ecosystems, may offer opportunities for critical early action enabling policy makers to significantly reduce emissions within the context of local and regional carbon budgets. Management of regional animal effects may also scale up substantially across the globe and thus contribute new options in a global climate change mitigation portfolio (Figure 2).


This paper resulted from the Yale Climate and Energy Institute (YCEI) 2012 conference and workshop “Managing species for regulating the carbon cycle”. We thank YCEI for its sponsorship and funding. Regular and OPUS grants from US National Science Foundation (DEB 0543398, DEB 0816504, DEB 0842230), grants from the UK Natural Environmental Research (NE/H010041/1) Council and UK Biotechnology and Biological Sciences Research Council (BB/F009364/1), and funding from the Nippon Foundation - UBC Nereus Program, also supported our work.

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