J. W. Harden

• PhD
• Retired at Stanford University; U. S. Geological Survey

In the age of big data, soil data are more available and richer than ever, but – outside of a few large soil survey resources – they remain largely unusable for informing soil management and understanding Earth system processes beyond the original study. Data science has promised a fully reusable research pipeline where data from past studies are u...

Soil is the largest terrestrial reservoir of organic carbon and is central for climate change mitigation and carbon-climate feedbacks. Chemical and physical associations of soil carbon with minerals play a critical role in carbon storage, but the amount and global capacity for storage in this form remain unquantified. Here, we produce spatially-res...

One paradigm in biogeochemistry is that frequent disturbance tends to deplete carbon (C) in soil organic matter (SOM) by reducing biomass inputs and promoting losses. However, disturbance by fire has challenged this paradigm because soil C responses to frequent and/or intense fires are highly variable, despite observed declines in biomass inputs. H...

In the age of big data, soil data are more available than ever, but -outside of a few large soil survey resources- remain largely unusable for informing soil management and understanding Earth system processes outside of the original study. Data science has promised a fully reusable research pipeline where data from past studies are used to context...

It has been postulated that the amount of soil organic carbon (SOC) associated with soil minerals exhibits a threshold relationship in response to effective soil moisture (estimated as precipitation less evapotranspiration). To better characterize the role of moisture in influencing mechanisms of SOC storage during pedogenesis, we compare soils fro...

Ice-rich permafrost in the circum-Arctic and sub-Arctic (hereafter pan-Arctic), such as late Pleistocene Yedoma, are especially prone to degradation due to climate change or human activity. When Yedoma deposits thaw, large amounts of frozen organic matter and biogeochemically relevant elements return into current biogeochemical cycles. This mobiliz...

Large stocks of soil organic carbon (SOC) have accumulated in the Northern Hemisphere permafrost region, but their current amounts and future fate remain uncertain. By analyzing dataset combining >2700 soil profiles with environmental variables in a geospatial framework, we generated spatially explicit estimates of permafrost-region SOC stocks, qua...

Soils contain a large and dynamic fraction of global terrestrial carbon stocks. The distribution of soil carbon (SC) with depth varies among ecosystems and land uses and is an important factor in calculating SC stocks and their vulnerabilities. Systematic analysis of SC depth distributions across databases of SC profiles has been challenging due to...

Boreal ecosystems comprise one-tenth of the world's land surface and contain over 20 % of the global soil carbon (C) stocks. Boreal soil is unique in that its mineral soil is covered by what can be quite thick layers of organic soil. These organic soil layers, or horizons, can differ in their state of decomposition, source vegetation, and disturban...

Radiocarbon is a critical constraint on our estimates of the timescales of soil carbon cycling that can aid in identifying mechanisms of carbon stabilization and destabilization and improve the forecast of soil carbon response to management or environmental change. Despite the wealth of soil radiocarbon data that have been reported over the past 75...

Soil carbon has been measured for over a century in applications ranging from understanding biogeochemical processes in natural ecosystems to quantifying the productivity and health of managed systems. Consolidating diverse soil carbon datasets is increasingly important to maximize their value, particularly with growing anthropogenic and climate ch...

Boreal ecosystems comprise about one tenth of the world's land surface and contain over 20 % of the global soil carbon (C) stocks. Boreal soils are unique in that the mineral soil is covered by what can be quite thick layers of organic soil. These organic soil layers, or horizons, can differ in their state of decomposition, source vegetation, and d...

Radiocarbon is a critical constraint on our estimates of the timescales of soil carbon cycling that can aid in identifying mechanisms of carbon stabilization and destabilization, and improve forecast of soil carbon response to management or environmental change. Despite the wealth of soil radiocarbon data that has been reported over the past 75 yea...

Ecosystem shifts related to climate change are anticipated for the next decades to centuries based on a number of conceptual and experimentally derived models of plant structure and function. Belowground, the potential responses of soil systems are less well known. We used geochemical steady state models, soil density fractionation, and soil radioc...

Recent findings suggest that soil organic carbon mineralization and stabilization depend to a substantial degree on the soil geochemistry and the degree of weathering. We hypothesized that this dependence can be translated to decay rate modifiers in a model context, and used data from the Merced chronosequence (CA, U.S.A., 100 yr–3 Myr), representi...

Quantifying soil carbon dynamics is of utmost relevance in the context of global change because soils play an important role in land–atmosphere gas exchange. Our current understanding of both present and future carbon dynamics is limited because we fail to accurately represent soil processes across temporal and spatial scales, partly because of the...

The International Soil Radiocarbon Database (ISRaD) is an open-source, community resource intended to improve constraints on global carbon models and provide a centralized repository for soil fraction data, including incubations and interstitial measurements.

Stabilization of SOM (soil organic matter) is regulated in part by sorption and desorption reactions happening at mineral surfaces, as well as precipitation and dissolution of organo-metal complexes. Fe and Al hydroxides play a particularly significant role in SOM stabilization in soils due to their ubiquitous distribution and their highly reactive...

Soil organic matter (SOM) supports the Earth's ability to sustain terrestrial ecosystems, provide food and fiber, and retains the largest pool of actively cycling carbon. Over 75% of the soil organic carbon (SOC) in the top meter of soil is directly affected by human land use. Large land areas have lost SOC as a result of land use practices, yet th...

Soils currently store more than twice as much carbon as our current atmosphere and can sequester or release carbon dioxide (CO 2 ) through their capacity to store organic matter. This CO 2 exchange provides a service to the atmosphere through the regulation of CO 2 levels and their warming potential and to our ecosystems through the regulation of o...

Rich fens are common boreal ecosystems with distinct hydrology, biogeochemistry and ecology that influence their carbon (C) balance. We present growing season soil chamber methane emission (FCH4), ecosystem respiration (ER), net ecosystem exchange (NEE), and gross primary production (GPP) fluxes from a nine year water table manipulation experiment...

Soil is the largest terrestrial carbon reservoir and may influence the sign and magnitude of carbon cycle–climate feedbacks. Many Earth system models (ESMs) estimate a significant soil carbon sink by 2100, yet the underlying carbon dynamics determining this response have not been systematically tested against observations. We used 14C data from 157...

Boreal soils play a critical role in the global carbon (C) cycle; therefore, it is important to understand the mechanisms that control soil C accumulation and loss for this region. Examining C & nitrogen (N) accumulation rates over decades to centuries may provide additional understanding of the dominant mechanisms for their storage, which can be m...

Heterotrophic respiration (HR), the aerobic and anaerobic processes mineralizing organic matter, is a key carbon flux but one impossible to measure at scales significantly larger than small experimental plots. This impedes our ability to understand carbon and nutrient cycles, benchmark models, or reliably upscale point measurements. Given that a ne...

Permafrost peatlands store one-third of the total carbon (C) in the atmosphere and are increasingly vulnerable to thaw as high-latitude temperatures warm. Large uncertainties remain about C dynamics following permafrost thaw in boreal peatlands. We used a chronosequence approach to measure C stocks in forested permafrost plateaus (forest) and thawe...

Boreal soils play a critical role in the global carbon (C) cycle; therefore, it is important to understand the mechanisms that control soil C accumulation and loss for this region. Examining C & nitrogen (N) accumulation rates averaged over decades to centuries may provide additional understanding of the dominant mechanisms for their storage, which...

Permafrost dynamics play an important role in high-latitude peatland carbon balance and are key to understanding the future response of soil carbon stocks. Permafrost aggradation can control the magnitude of the carbon feedback in peatlands through effects on peat properties. We compiled peatland plant macrofossil records for the northern permafros...

Soil carbon (C) is a critical component of Earth system models (ESMs) and its diverse representations are a major source of the large spread across models in the terrestrial C sink from the 3rd to 5th assessment reports of the Intergovernmental Panel on Climate Change (IPCC). Improving soil C projections is of a high priority for Earth system model...

Vast portions of Arctic and sub-Arctic Siberia, Alaska and the Yukon Territory are covered by ice-rich silts that are penetrated by large ice wedges, resulting from syngenetic sedimentation and freezing. Accompanied by wedge-ice growth, the sedimentation process was driven by cold continental climatic and environmental conditions in unglaciated reg...

Soil carbon dynamics of terrestrial ecosystems play a significant role in the global carbon cycle. Microbial-based decomposition models have seen much growth recently for quantifying this role, yet dormancy as a common strategy used by microorganisms has not usually been represented and tested in these models against field observations. Here we dev...

We present an approach to estimate the feedback from large-scale thawing of permafrost soils using a simplified, data-constrained model that combines three elements: soil carbon (C) maps and profiles to identify the distribution and type of C in permafrost soils; incubation experiments to quantify the rates of C lost after thaw; and models of soil...

Over timescales of soil development (millennia), the capacity of soils to stabilize soil organic carbon (SOC) is linked to soil development through changes in soil mineralogy and other soil properties. In this study, an extensive dataset of soil profile chemistry and mineralogy is compiled from the Cowlitz River Chronosequence (CRC), WA USA. The CR...

Large quantities of organic carbon are stored in frozen soils (permafrost) within Arctic and sub-Arctic regions. A warming climate can induce environmental changes that accelerate the microbial breakdown of organic carbon and the release of the greenhouse gases carbon dioxide and methane. This feedback can accelerate climate change, but the magnitu...

Over 20% of Earth's terrestrial surface is underlain by permafrost with vast stores of carbon that, once thawed, may represent the largest future transfer of carbon from the biosphere to the atmosphere. This process is largely dependent on microbial responses, but we know little about microbial activity in intact, let alone in thawing, permafrost....

Soils and other unconsolidated deposits in the northern circumpolar permafrost region store large amounts of soil organic carbon (SOC). This SOC is potentially vulnerable to remobilization following soil warming and permafrost thaw, but SOC stock estimates were poorly constrained and quantitative error estimates were lacking. This study presents re...

The residence time of ice in permafrost is an indicator of past climate history, and of the resilience and vulnerability of high-latitude ecosystems to global change. Development of geochemical indicators of ground-ice residence times in permafrost will advance understanding of the circumstances and evidence of permafrost formation, preservation, a...

The large amount of soil carbon in boreal forest ecosystems has the potential to influence the climate system if released in large quantities in response to warming. Thus, there is a need to better understand and represent the environmental sensitivity of soil carbon decomposition. Most soil carbon decomposition models rely on empirical relationshi...

Biological inputs and organic matter cycling have long been regarded as important factors in the physical and chemical development of soils. In particular, the extent to which low molecular weight organic acids, such as oxalate, influence geochemical reactions has been widely studied. Although the effects of organic acids are diverse, there is stro...

Changes in vegetation and soil properties following permafrost degradation and thermokarst development in peatlands may cause changes in net carbon storage. To better understand these dynamics, we established three sites in Alaska that vary in permafrost regime, including a black spruce peat plateau forest with stable permafrost, an internal collap...

Permafrost soils store over half of global soil carbon (C), and northern frozen peatlands store about 10% of global permafrost C. With thaw, inundation of high latitude lowland peatlands typically increases the surface-atmosphere flux of methane (CH4), a potent greenhouse gas. To examine the effects of lowland permafrost thaw over millennial timesc...

The intermittent presence of large Pleistocene lakes in the southwestern interior of North America, a region that is now a semi-arid desert, suggests repeated oscillations between profoundly different climatic conditions. The origin of these shifts is still unresolved due to inconsistencies in existing climate proxy data (for example, pollen, lake...

Soils and other unconsolidated deposits in the northern circumpolar permafrost region store large amounts of soil organic carbon (SOC). This SOC is potentially vulnerable to remobilization following soil warming and permafrost thaw, but stock estimates are poorly constrained and quantitative error estimates were lacking. This study presents revised...

thaw in peat plateaus leads to the flooding of surface soils and the formation of collapse scar bogs, which have the potential to be large emitters of methane (CH4) from surface peat as well as deeper, previously frozen, permafrost carbon (C). We used a network of bubble traps, permanently installed 20 cm and 60 cm beneath the moss surface, to exam...

The influence of permafrost growth and thaw on the evolution of ice‐rich lowland terrain in the Koyukuk‐Innoko region of interior Alaska is fundamental but poorly understood. To elucidate this influence, the cryostratigraphy and properties of perennially frozen sediments from three areas in this region are described and interpreted in terms of perm...

The large magnitudes of soil carbon stocks provide potentially large feedbacks to climate changes, highlighting the need to better understand and represent the environmental sensitivity of soil carbon decomposition. Most soil carbon decomposition models rely on empirical relationships omitting key biogeochemical mechanisms and their response to cli...

High-latitude terrestrial ecosystems are key components in the global carbon cycle. The Northern Circumpolar Soil Carbon Database (NCSCD) was developed to quantify stocks of soil organic carbon (SOC) in the northern circumpolar permafrost region (a total area of 18.7 × 106 km2). The NCSCD is a geographical information system (GIS) data set that has...

Persistence of soil organic matter in eroding vs. depositional landform positions, A.A. Berhe, J.W. Harden, M.S. Torn, Markus Kleber, Sarah D. Burton, J. Harte Journal of Geophysical Research-Biogeosciences 06/2012; doi:10.1029/2011JG001790. DOI:10.1029/2011JG001790 ABSTRACT Soil organic matter (SOM) processes in dynamic landscapes are strongly...

Permafrost is common to many northern wetlands given the insulation of thick organic soil layers, although soil saturation in wetlands can lead to warmer soils and increased thaw depth. We analyzed five years of soil CO2 fluxes along a wetland gradient that varied in permafrost and soil moisture conditions. We predicted that communities with permaf...

Stand-replacing fires are the dominant fire type in North American boreal forests. They leave a historical legacy of a mosaic landscape of different aged forest cohorts. This forest age dynamics must be included in vegetation models to accurately quantify the role of fire in the historical and current regional forest carbon balance. The present stu...

The diversity of ecosystems across boreal landscapes, successional changes after disturbance and complicated permafrost histories, present enormous challenges for assessing how vegetation, water and soil carbon may respond to climate change in boreal regions. To address this complexity, we used a chronosequence approach to assess changes in vegetat...

The vast amount of organic carbon (OC) stored in soils of the northern circumpolar permafrost region is a potentially vulnerable component of the global carbon cycle. However, estimates of the quantity, decomposability, and combustibility of OC contained in permafrost-region soils remain highly uncertain, thereby limiting our ability to predict the...

Permafrost is tightly coupled to the organic soil layer, an interaction that mediates permafrost degradation in response to regional warming. We analyzed changes in permafrost occurrence and organic layer thickness (OLT) using more than 3000 soil pedons across a mean annual temperature (MAT) gradient. Cause and effect relationships between permafro...

This digital database is the product of collaboration between the U.S. Geological Survey, the Geophysical Institute at the University of Alaska, Fairbanks; the Los Altos Hills Foothill College GeoSpatial Technology Certificate Program; the Alfred Wegener Institute for Polar and Marine Research, Potsdam, Germany; and the Institute of Physical Chemic...

Approximately 1700 Pg of soil carbon (C) are stored in the northern circumpolar permafrost zone, more than twice as much C than in the atmosphere. The overall amount, rate, and form of C released to the atmosphere in a warmer world will influence the strength of the permafrost C feedback to climate change. We used a survey to quantify variability i...

Soil temperature and moisture are important factors that control many ecosystem processes. However, interactions between soil thermal and hydrological processes are not adequately understood in cold regions, where the frozen soil, fire disturbance, and soil drainage play important roles in controlling interactions among these processes. These inter...

Stand-replacing fires are the dominant fire type in North American boreal forest and leave a historical legacy of a mosaic landscape of different aged forest cohorts. To accurately quantify the role of fire in historical and current regional forest carbon balance using models, one needs to explicitly simulate the new forest cohort that is establish...

High latitude terrestrial ecosystems are key components in the global carbon (C) cycle. The Northern Circumpolar Soil Carbon Database (NCSCD) was developed to quantify stocks of soil organic carbon (SOC) in the northern circumpolar permafrost region (18.7 × 106 km2). The NCSCD is a digital Geographical Information systems (GIS) database compiled fr...

The current estimate of the soil organic carbon (SOC) pool in the northern permafrost region of 1672 Petagrams (Pg) C is much larger than previously reported and needs to be incorporated in global soil carbon (C) inventories. The Northern Circumpolar Soil Carbon Database (NCSCD), extended to include the range 0–300 cm, is now available online for w...

It is important to understand the fate of carbon in boreal peatland soils in response to climate change because a substantial change in release of this carbon as CO2 and CH4 could influence the climate system. The goal of this research was to synthesize the results of a field water table manipulation experiment conducted in a boreal rich fen into a...

Carbon (C) dynamics of boreal forest ecosystems have substantial implications for efforts to mitigate the rise of atmospheric CO2 and may be substantially influenced by warming and changing wildfire regimes. In this study we applied a large-scale ecosystem model that included dynamics of organic soil horizons and soil organic matter characteristics...

Soil represents the largest reservoir of terrestrial organic C, and plays a critical role in global C cycling. In light of predicted climate change and a more unified approach to mitigate greenhouse gas emissions, the soil's ability to sequester C, and thus to act as a sink or a source for atmospheric CO2 has received growing interest. Organominera...

1] Deep soil profiles containing permafrost (Gelisols) were characterized for organic carbon (C) and total nitrogen (N) stocks to 3 m depths. Using the Community Climate System Model (CCSM4) we calculate cumulative distribu-tions of active layer thickness (ALT) under current and future climates. The difference in cumulative ALT distribu-tions over...

Background/Question/Methods Approximately 1700 Pg of soil carbon are stored in the northern circumpolar permafrost zone, more than twice as much carbon than currently contained in the atmosphere. Permafrost thaw, and the microbial decomposition of previously frozen organic carbon, is considered one of the likely positive feedbacks from terrestria...

Boreal wetlands are characterized by a mosaic of plant communities, including forests, shrublands, grasslands, and fens, which are structured largely by changes in topography and water table position. The soil associated with these plant communities contain quantitatively and qualitatively different forms of soil organic matter (SOM) and nutrient a...

Soil organic matter (SOM) processes in dynamic landscapes are strongly influenced by soil erosion and sedimentation. We determined the contribution of physical isolation of organic matter (OM) inside aggregates, chemical interaction of OM with soil minerals, and molecular structure of SOM in controlling storage and persistence of SOM in different t...

Recent warming at high-latitudes has accelerated permafrost thaw in northern peatlands, and thaw can have profound effects on local hydrology and eco-system carbon balance. To assess the impact of per-mafrost thaw on soil organic carbon (OC) dynamics, we measured soil hydrologic and thermal dynamics and soil OC stocks across a collapse-scar bog chr...

1] Post-fire storage of carbon (C) in organic-soil horizons was measured in one Canadian and three Alaskan chronosequences in black spruce forests, together spanning stand ages of nearly 200 yrs. We used a simple mass balance model to derive estimates of inputs, losses, and accumulation rates of C on timescales of years to centuries. The model perf...

Sunlight has been shown to enhance loss of organic matter from aquatic sediments and terrestrial plant litter, so we tested for similar reactions in mineral soil horizons. Losses of up to a third of particulate organic carbon occurred after continuous exposure to full-strength sunlight for dozens of hours, with similar amounts appearing as photodis...

Modeling the production and transport of methane in boreal peatlands is challenging because 1) high-quality field experimental data are limited, and 2) interactions among biophysical, biogeochemical, and vegetation dynamics need to be better represented in ecosystem models. In this study, we developed a process-based model to simulate the productio...

Knowledge of the magnitude and frequency of methane release through ebullition (bubbling) in water saturated ecosystems such as bogs, fens and lakes is important to both the atmospheric and ecosystems science community. The controls on episodic bubble releases must be identified in order to understand the response of these ecosystems to future clim...

Boreal ecosystems cover 14% of the vegetated surface on earth and account for 25-30% of the world's soil carbon (C), mainly due to large carbon stocks in deep peat and frozen soil layers. While peatlands have served as historical sinks of carbon, global climate change may trigger release of C to the atmosphere and may turn these ecosystems into net...

Changes in the physical and chemical characteristics of soils control the form and extent of mechanisms of organic carbon stabilization. Evolution of soil geochemistry, and the resulting influence on soil carbon storage, is manifested over the timescales of soil development (millennial). However, these dynamics may still be relevant for understandi...

Stand replacing fires are the dominant disturbance of black spruce-dominated boreal forests. A previous study (Manies et al. 2005) determined that fire-killed wood is the source of between 10% and 60% of the carbon (C) found in the deeper, more recalcitrant soil layers of these ecosystems, although these inputs vary spatially and temporally. In tha...

The interaction between plants and minerals in soils is hugely important and poorly understood as it relates to the fate of soil carbon. Plant roots, fungi and bacteria inhabit the mineral soil and work symbiotically to extract nutrients, generally through low molecular weight exudates (organic acids, extracelluar polysachrides (EPS), siderophores,...

Permafrost and peatland systems generally accumulate carbon (C ) upward as the carbon also turns over. This turnover-accumulation paradigm sets these systems apart from other soils partially because C pools and their average ages have a vertical rather than mixed structure. Past rates of C exchange in permafrost and peatland soils are more common t...

Yedoma, or the ice-rich syngenetic permafrost with large ice wedges, widely occurs in parts of Alaska that were unglaciated during the last glaciation including Interior Alaska, Foothills of Brooks Range and Seward Peninsula. A thick layer of syngenetic permafrost was formed by simultaneous accumulation of silt and upward permafrost aggradation. Un...

Carbon loss in the form of methane emissions is an important consequence of permafrost degradation in sub-arctic lowland basin settings that host ice-rich peat deposits. Under these circumstances, thaw leads to accumulation of water and anaerobic conditions, with trace gas production as a dominant mechanism of carbon loss. We use a chronosequence o...

In boreal and subarctic regions, permafrost is often associated with peatlands due to the insulating properties of saturated peat. Recent studies, however, have identified widespread degradation of permafrost in peatlands, which often results in inundated collapse scars due to thermokarst and subsidence of surface peat. Deeper active layers may acc...