David J. P. Moore

Increases in the flux of carbon belowground stimulate nitrogen uptake and sustain the long-term enhancement of forest productivity under elevated CO2

The earths future climate state is highly dependent upon changes in terrestrial C storage in response to rising concentrations of atmospheric CO₂. Here we show that consistently enhanced rates of net primary production (NPP) are sustained by a C-cascade through the root-microbe-soil system; increases in the flux of C belowground under elevated CO₂ stimulated microbial activity, accelerated the rate of soil organic matter decomposition and stimulated tree uptake of N bound to this SOM. This process set into motion a positive feedback maintaining greater C gain under elevated CO₂ as a result of increases in canopy N content and higher photosynthetic N-use efficiency. The ecosystem-level consequence of the enhanced requirement for N and the exchange of plant C for N belowground is the dominance of C storage in tree biomass but the preclusion of a large C sink in the soil.

Spatial and temporal variation in respiration in a young ponderosa pine forest during a summer drought

Respiration rates of heterogeneous forest canopies arise from needles, stems, roots and soil microbes. To assess the temporal and spatial variation in respiration rates of these components in a heterogeneous ponderosa pine forest canopy, and the processes that control these fluxes, we conducted an intensive field study during the summer of 2000. We employed a combination of biological and micrometeorological measurements to assess carbon respiratory fluxes at the soil surface, within and above a 4-m-tall ponderosa pine forest. We also conducted manipulation studies to examine the carbon fluxes from the roots and heteorotrophs. Spatial variation in soil CO2 efflux was large, averaging 40% of the mean, which varied by nearly a factor of two between minima for bare soil to maxima beneath dense patches of understorey vegetation. The estimated vertical profile of respiration from chamber data, and the profile of nocturnal fluxes measured by the three eddy flux systems suggested that >70% of the ecosystem respiration was coming from below the 1.75-m measurement height of one of the flux systems, and 71% of photosynthetic carbon uptake in July was released by soil processes, thus there was a strong vertical gradient in respiration relatively close to the soil surface in this young forest. These results stress the importance of understanding spatial and temporal variation in soil processes when interpreting nocturnal eddy covariance data.

A Cell Cycle-Specific Requirement for the XRCC1 BRCT II Domain during Mammalian DNA Strand Break Repair

ABSTRACT XRCC1 protein is essential for viability in mammals and is required for efficient DNA single-strand break repair and genetic stability following DNA base damage. We report here that XRCC1-dependent strand break repair in G1 phase of the cell cycle is abolished by mutations created within the XRCC1 BRCT domain that interact with DNA ligase III. In contrast, XRCC1-dependent DNA strand break repair in S phase is largely unaffected by these mutations. These data describe a cell cycle-specific role for a BRCT domain, and we conclude that the XRCC1-DNA ligase III complex is required for DNA strand break repair in G1 phase of the cell cycle but is dispensable for this process in S phase. The S-phase DNA repair process can remove both strand breaks induced in S phase and those that persist from G1 and can in part compensate for lack of repair in G1. This process correlates with the appearance of XRCC1 nuclear foci that colocalize with Rad51 and may thus function in concert with homologous recombination.

Isoprene emission from terrestrial ecosystems in response to global change: minding the gap between models and observations

Coupled surface–atmosphere models are being used with increased frequency to make predictions of tropospheric chemistry on a ‘future’ earth characterized by a warmer climate and elevated atmospheric CO2 concentration. One of the key inputs to these models is the emission of isoprene from forest ecosystems. Most models in current use rely on a scheme by which global change is coupled to changes in terrestrial net primary productivity (NPP) which, in turn, is coupled to changes in the magnitude of isoprene emissions. In this study, we conducted measurements of isoprene emissions at three prominent global change experiments in the United States. Our results showed that growth in an atmosphere of elevated CO2 inhibited the emission of isoprene at levels that completely compensate for possible increases in emission due to increases in aboveground NPP. Exposure to a prolonged drought caused leaves to increase their isoprene emissions despite reductions in photosynthesis, and presumably NPP. Thus, the current generation of models intended to predict the response of isoprene emission to future global change probably contain large errors. A framework is offered as a foundation for constructing new isoprene emission models based on the responses of leaf biochemistry to future climate change and elevated atmospheric CO2 concentrations.

Estimating parameters of a forest ecosystem C model with measurements of stocks and fluxes as joint constraints.

We conducted an inverse modeling analysis, using a variety of data streams (tower-based eddy covariance measurements of net ecosystem exchange, NEE, of CO2, chamber-based measurements of soil respiration, and ancillary ecological measurements of leaf area index, litterfall, and woody biomass increment) to estimate parameters and initial carbon (C) stocks of a simple forest C-cycle model, DALEC, using Monte Carlo procedures. Our study site is the spruce-dominated Howland Forest AmeriFlux site, in central Maine, USA. Our analysis focuses on: (1) full characterization of data uncertainties, and treatment of these uncertainties in the parameter estimation; (2) evaluation of how combinations of different data streams influence posterior parameter distributions and model uncertainties; and (3) comparison of model performance (in terms of both predicted fluxes and pool dynamics) during a 4-year calibration period (1997–2000) and a 4-year validation period (“forward run”, 2001–2004). We find that woody biomass increment, and, to a lesser degree, soil respiration, measurements contribute to marked reductions in uncertainties in parameter estimates and model predictions as these provide orthogonal constraints to the tower NEE measurements. However, none of the data are effective at constraining fine root or soil C pool dynamics, suggesting that these should be targets for future measurement efforts. A key finding is that adding additional constraints not only reduces uncertainties (i.e., narrower confidence intervals) on model predictions, but at the same time also results in improved model predictions by greatly reducing bias associated with predictions during the forward run.

Climatic versus biotic constraints on carbon and water fluxes in seasonally drought‐affected ponderosa pine ecosystems

We investigated the relative importance of climatic versus biotic controls on gross primary production (GPP) and water vapor fluxes in seasonally drought-affected ponderosa pine forests. The study was conducted in young (YS), mature (MS), and old stands (OS) over 4 years at the AmeriFlux Metolius sites. Model simulations showed that interannual variation of GPP did not follow the same trends as precipitation, and effects of climatic variation were smallest at the OS ( 50%), and intermediate at the YS (<20%). In the young, developing stand, interannual variation in leaf area has larger effects on fluxes than climate, although leaf area is a function of climate in that climate can interact with age-related shifts in carbon allocation and affect whole-tree hydraulic conductance. Older forests, with well-established root systems, appear to be better buffered from effects of seasonal drought and interannual climatic variation. Interannual variation of net ecosystem exchange (NEE) was also lowest at the OS, where NEE is controlled more by interannual variation of ecosystem respiration, 70% of which is from soil, than by the variation of GPP, whereas variation in GPP is the primary reason for interannual changes in NEE at the YS and MS. Across spatially heterogeneous landscapes with high frequency of younger stands resulting from natural and anthropogenic disturbances, interannual climatic variation and change in leaf area are likely to result in large interannual variation in GPP and NEE.

Cultivation of Gracilaria parvispora (Rhodophyta) in shrimp-farm effluent ditches and floating cages in Hawaii : a two-phase polyculture system

Abstract A culture system for the commercial production of the seaweed Gracilaria parvispora using shrimp-farm effluents for fertilization and floating cage-culture for grow-out has been developed on Molokai, HI. This two-phase system produces high-quality products for direct human consumption. The mean relative growth rates (RGRs) of effluent-enriched thalli in the cage system ranged from 8.8% to 10.4% day−1, a significant increase over the growth (4.6% day−1) of thalli fertilized with inorganic fertilizer. Thalli were also grown directly in the effluent ditch, where mean growth rates of 4.7% day−1 were obtained, less than in cage-culture. In the cage-culture system, thallus nitrogen content declined without fertilization. Effluent-enriched thalli grown in the cages steadily declined in nitrogen content, to about 1%, and their C:N ratios increased to between 20 and 30. However, when nitrogen-depleted thalli were transferred to the effluent ditch for enrichment, N content rapidly increased over 5 days to approximately 3%, with a C:N ratio near 10. Benefits of this two-phase polyculture system include enhanced growth of G. parvispora and the use of effluent from commercial shrimp farms as a resource.

Persistent reduced ecosystem respiration after insect disturbance in high elevation forests

Amid a worldwide increase in tree mortality, mountain pine beetles (Dendroctonus ponderosae Hopkins) have led to the death of billions of trees from Mexico to Alaska since 2000. This is predicted to have important carbon, water and energy balance feedbacks on the Earth system. Counter to current projections, we show that on a decadal scale, tree mortality causes no increase in ecosystem respiration from scales of several square metres up to an 84 km2 valley. Rather, we found comparable declines in both gross primary productivity and respiration suggesting little change in net flux, with a transitory recovery of respiration 6–7 years after mortality associated with increased incorporation of leaf litter C into soil organic matter, followed by further decline in years 8–10. The mechanism of the impact of tree mortality caused by these biotic disturbances is consistent with reduced input rather than increased output of carbon.

A tree-ring perspective on the terrestrial carbon cycle

Tree-ring records can provide valuable information to advance our understanding of contemporary terrestrial carbon cycling and to reconstruct key metrics in the decades preceding monitoring data. The growing use of tree rings in carbon-cycle research is being facilitated by increasing recognition of reciprocal benefits among research communities. Yet, basic questions persist regarding what tree rings represent at the ecosystem level, how to optimally integrate them with other data streams, and what related challenges need to be overcome. It is also apparent that considerable unexplored potential exists for tree rings to refine assessments of terrestrial carbon cycling across a range of temporal and spatial domains. Here, we summarize recent advances and highlight promising paths of investigation with respect to (1) growth phenology, (2) forest productivity trends and variability, (3) CO2 fertilization and water-use efficiency, (4) forest disturbances, and (5) comparisons between observational and computational forest productivity estimates. We encourage the integration of tree-ring data: with eddy-covariance measurements to investigate carbon allocation patterns and water-use efficiency; with remotely sensed observations to distinguish the timing of cambial growth and leaf phenology; and with forest inventories to develop continuous, annually-resolved and long-term carbon budgets. In addition, we note the potential of tree-ring records and derivatives thereof to help evaluate the performance of earth system models regarding the simulated magnitude and dynamics of forest carbon uptake, and inform these models about growth responses to (non-)climatic drivers. Such efforts are expected to improve our understanding of forest carbon cycling and place current developments into a long-term perspective.

Integration of process-based soil respiration models with whole-ecosystem CO2 measurements

We integrated soil models with an established ecosystem process model (SIPNET, simplified photosynthesis and evapotranspiration model) to investigate the influence of soil processes on modelled values of soil CO2 fluxes (RSoil). Model parameters were determined from literature values and a data assimilation routine that used a 7-year record of the net ecosystem exchange of CO2 and environmental variables collected at a high-elevation subalpine forest (the Niwot Ridge AmeriFlux site). These soil models were subsequently evaluated in how they estimated the seasonal contribution of RSoil to total ecosystem respiration (TER) and the seasonal contribution of root respiration (RRoot) to RSoil. Additionally, these soil models were compared to data assimilation output of linear models of soil heterotrophic respiration. Explicit modelling of root dynamics led to better agreement with literature values of the contribution of RSoil to TER. Estimates of RSoil/TER when root dynamics were considered ranged from 0.3 to 0.6; without modelling root biomass dynamics these values were 0.1–0.3. Hence, we conclude that modelling of root biomass dynamics is critically important to model the RSoil/TER ratio correctly. When soil heterotrophic respiration was dependent on linear functions of temperature and moisture independent of soil carbon pool size, worse model-data fits were produced. Adding additional complexity to the soil pool marginally improved the model-data fit from the base model, but issues remained. The soil models were not successful in modelling RRoot/RSoil. This is partially attributable to estimated turnover parameters of soil carbon pools not agreeing with expected values from literature and being poorly constrained by the parameter estimation routine. We conclude that net ecosystem exchange of CO2 alone cannot constrain specific rhizospheric and microbial components of soil respiration. Reasons for this include inability of the data assimilation routine to constrain soil parameters using ecosystem CO2 flux measurements and not considering the effect of other resource limitations (for example, nitrogen) on the microbe biomass. Future data assimilation studies with these models should include ecosystem-scale measurements of RSoil in the parameter estimation routine and experimentally determine soil model parameters not constrained by the parameter estimation routine.