Emergent properties of organic matter decomposition by soil enzymes

Plant residues and soil organic matter are predominantly decomposed by exoenzymes. Many soil carbon models now represent enzymatic decomposition, but the mathematical formulation of this process has been debated over the last 15 years. Some models apply the traditional “forward” Michaelis-Menten equation to represent enzyme kinetics, whereas others apply the “reverse” Michaelis-Menten equation, which assumes that kinetic rates saturate at high enzyme concentrations. Recently the equilibrium chemistry approximation (ECA) has been proposed as an alternative to both Michaelis-Menten formulations. However, because of methodological limitations, in-situ enzyme kinetics—especially in the context of soil system heterogeneity—have been difficult to verify experimentally. Therefore, the overarching goal of our study was to evaluate different enzyme kinetic formulations using model-based evidence at microbial to ecosystem scales. We used a spatially explicit individual- and trait-based microbial model, DEMENT, to circumvent methodological challenges. Although DEMENT assumes forward Michaelis-Menten kinetics at local scales, at the grid scale we found saturating relationships between degradation rate and both substrate concentrations and enzyme concentrations that fit the forward and reverse Michaelis-Menten equations, respectively, at specific successional stages during decomposition. Although forward and reverse Michaelis-Menten equations emerged under some conditions, only the ECA adequately represented decay rates emerging from the spatial-temporal variation in substrate and enzyme concentrations throughout the decomposition process. Our results support a more widespread adoption of the ECA equation in soil biogeochemical modelling at ecosystem scales

Climate change feedbacks to microbial decomposition in boreal soils

Boreal ecosystems store 10-20% of global soil carbon and may warm by 4-7°C over the next century. Higher temperatures could increase the activity of boreal decomposers and indirectly affect decomposition through other ecosystem feedbacks. For example, permafrost melting will likely alleviate constraints on microbial decomposition and lead to greater soil CO2 emissions. However, wet boreal ecosystems underlain by permafrost are often CH4 sources, and permafrost thaw could ultimately result in drier soils that consume CH4, thereby offsetting some of the greenhouse warming potential of soil CO2 emissions. Climate change is also likely to increase winter precipitation and snow depth in boreal regions, which may stimulate decomposition by moderating soil temperatures under the snowpack. As temperatures and evapotranspiration increase in the boreal zone, fires may become more frequent, leading to additional permafrost loss from burned ecosystems. Although post-fire decomposition could also increase due to higher soil temperatures, reductions in microbial biomass and activity may attenuate this response. Other feedbacks such as soil drying, increased nutrient mineralization, and plant species shifts are either weak or uncertain. We conclude that strong positive feedbacks to decomposition will likely depend on permafrost thaw, and that climate feedbacks will probably be weak or negative in boreal ecosystems without permafrost. However, warming manipulations should be conducted in a broader range of boreal systems to validate these predictions. © 2011 Elsevier Ltd and The British Mycological Society

Decreased mass specific respiration under experimental warming is robust to the microbial biomass method employed

Hartley et al. question whether reduction in Rmass, under experimental warming, arises because of the biomass method. We show the method they treat as independent yields the same result. We describe why the substrate-depletion hypothesis may not solely explain observed responses, and urge caution in interpretation of the seasonal data. © 2009 Blackwell Publishing Ltd/CNRS

The detection of the imprint of filaments on cosmic microwave background lensing

Galaxy redshift surveys, such as 2dF, SDSS, 6df, GAMA and VIPERS, have shown that the spatial distribution of matter forms a rich web, known as the cosmic web. The majority of galaxy survey analyses measure the amplitude of galaxy clustering as a function of scale, ignoring information beyond a small number of summary statistics. Since the matter density field becomes highly non-Gaussian as structure evolves under gravity, we expect other statistical descriptions of the field to provide us with additional information. One way to study the non-Gaussianity is to study filaments, which evolve non-linearly from the initial density fluctuations produced in the primordial Universe. In our study, we report the first detection of CMB (Cosmic Microwave Background) lensing by filaments and we apply a null test to confirm our detection. Furthermore, we propose a phenomenological model to interpret the detected signal and we measure how filaments trace the matter distribution on large scales through filament bias, which we measure to be around 1.5. Our study provides a new scope to understand the environmental dependence of galaxy formation. In the future, the joint analysis of lensing and Sunyaev-Zel'dovich observations might reveal the properties of `missing baryons', the vast majority of the gas which resides in the intergalactic medium and has so far evaded most observations

Why I tense up when you watch me: inferior parietal cortex mediates an audience’s influence on motor performance

The presence of an evaluative audience can alter skilled motor performance through changes in force output. To investigate how this is mediated within the brain, we emulated real-time social monitoring of participants’ performance of a fine grip task during functional magnetic resonance neuroimaging. We observed an increase in force output during social evaluation that was accompanied by focal reductions in activity within bilateral inferior parietal cortex. Moreover, deactivation of the left inferior parietal cortex predicted both inter- and intra-individual differences in socially-induced change in grip force. Social evaluation also enhanced activation within the posterior superior temporal sulcus, which conveys visual information about others’ actions to the inferior parietal cortex. Interestingly, functional connectivity between these two regions was attenuated by social evaluation. Our data suggest that social evaluation can vary force output through the altered engagement of inferior parietal cortex; a region implicated in sensorimotor integration necessary for object manipulation, and a component of the action-observation network which integrates and facilitates performance of observed actions. Social-evaluative situations may induce high-level representational incoherence between one’s own intentioned action and the perceived intention of others which, by uncoupling the dynamics of sensorimotor facilitation, could ultimately perturbe motor output

Phylogenetic organization of bacterial activity.

Phylogeny is an ecologically meaningful way to classify plants and animals, as closely related taxa frequently have similar ecological characteristics, functional traits and effects on ecosystem processes. For bacteria, however, phylogeny has been argued to be an unreliable indicator of an organism\u27s ecology owing to evolutionary processes more common to microbes such as gene loss and lateral gene transfer, as well as convergent evolution. Here we use advanced stable isotope probing with (13)C and (18)O to show that evolutionary history has ecological significance for in situ bacterial activity. Phylogenetic organization in the activity of bacteria sets the stage for characterizing the functional attributes of bacterial taxonomic groups. Connecting identity with function in this way will allow scientists to begin building a mechanistic understanding of how bacterial community composition regulates critical ecosystem functions.The ISME Journal advance online publication, 4 March 2016; doi:10.1038/ismej.2016.28

Reliability in the Identification of Midbrain Dopamine Neurons

Brain regions typically contain intermixed subpopulations of neurons with different connectivity and neurotransmitters. This complicates identification of neuronal phenotypes in electrophysiological experiments without using direct detection of unique molecular markers. A prime example of this difficulty is the identification of dopamine (DA) neurons in the midbrain ventral tegmental area (VTA). Although immunocytochemistry (ICC) against tyrosine hydroxylase (TH) is widely used to identify DA neurons, a high false negative rate for TH ICC following ex vivo electrophysiology experiments was recently reported, calling into question the validity of comparing DA and non-DA VTA neurons based on post-hoc ICC. However, in whole cell recordings from randomly selected rat VTA neurons we have found that TH labeling is consistently detected in ∼55% of neurons even after long recording durations (range: 2.5–150 min). This is consistent with our prior anatomical finding that 55% of VTA neurons are TH(+). To directly estimate a false negative rate for our ICC method we recorded VTA neurons from mice in which EGFP production is driven by the TH promoter. All 12 EGFP(+) neurons recorded with a K-gluconate internal solution (as used in our rat recordings) were strongly labeled by TH ICC (recording duration 16.6±1.8 min). However, using recording electrodes with an internal solution with high Cl− concentration reduced the intensity of TH co-labeling, in some cases to background (recording duration 16.7±0.9 min; n = 10). Thus TH is a highly reliable molecular marker for DA neurons in VTA patch clamp recordings provided compatible microelectrode solutions are used