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DOE OSTI2023

Systematic comparison of local approaches for isotopically nonstationary metabolic flux analysis

Quantification of reaction fluxes of metabolic networks can help us understand how the integration of different metabolic pathways determine cellular functions. Yet, intracellular fluxes cannot be measured directly but are estimated with metabolic flux analysis (MFA) that relies on the patterns of isotope labeling of metabolites in the network. For metabolic systems, typical for plants, where all potentially labeled atoms effectively have only one source atom pool, only isotopically nonstationary MFA can provide information about intracellular fluxes. There are several global approaches that implement MFA for an entire metabolic network and estimate, at once, a steady-state flux distribution for all reactions with identifiable fluxes in the network. In contrast, local approaches deal with estimation of fluxes for a subset of reactions, with smaller data demand for flux estimation. Here we present a systematic comparative review and benchmarking of the existing local approaches for isotopically nonstationary MFA. The comparison is conducted with respect to the required data and underlying computational problems solved on a synthetic network example. Furthermore, we benchmark the performance of these approaches in estimating fluxes for a subset of reactions using data obtained from the simulation of nitrogen fluxes in the Arabidopsis thaliana core metabolism. The findings pinpoint practical aspects that need to be considered when applying local approaches for flux estimation in large-scale plant metabolic networks.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2003

Effects of Non-Sphericity on Mineral Dust Modeling

The dependency of non-sphericity on gravitational settling of mineral dust particles is parameterized for prolate ellipsoids and Reynolds number lower than 2. The settling speed is numerically solved from the momentum equation as a function of particle diameter and aspect ratio. The reduction of settling speed due to non-sphericity is included in the GO-CART model to simulate dust size distribution for April 2001. Two numerical schemes for solving sedimentation are compared. For particles of diameter greater than 5 micron the simulated size distribution is sensitive to the numerical sedimentation scheme. Changing the particle shape from spherical to non-spherical with lambda=2, makes little difference to the simulated surface concentration and size distribution except at the periphery of the dust sources. However, when very elongated particles (lambda=5) are simulated the differences between non-spherical and spherical particles are significant. With limited in-situ measurements reporting most frequent lambda around 1.5, the overall effects on global modeling is rather negligible and the essential benefit is to relax the CFL condition of Eulerian settling schemes.

Ginoux, Paul↗

NASA NTRS2023

Improving the MODIS LAI Compositing Using Prior Time-Series Information

The Moderate Resolution Imaging Spectroradiometer (MODIS) long-term leaf area index (LAI) products have significantly contributed to global energy fluxes, climate change, and biogeochemistry research. However, the maximum fraction of photosynthetically active radiation absorbed by vegetation (Max-FPAR) compositing strategy of the Collection 6 (C6) products dictates that the main or backup algorithm is always triggered by observations of different quality, which indirectly causes the observed instability in the LAI time-series. Based on MODIS daily LAI retrievals, this study develops a prior knowledge time-series compositing algorithm (PKA) using a linear kernel driven (LKD) model. Our results show that the newly proposed PKA can significantly improve the LAI composites compared to the Max-FPAR strategy using ground-based observations for validation. We found that the PKA performs better than Max-FPAR in various aspects (different sites, seasons, and retrieval index (RI) ranges), with R2 increasing from 0.69 to 0.76 and root means square error (RMSE) decreasing from 1.01 to 0.84 compared to GBOV ground truth. The same improvement was shown for the ground truth LAIs measured at the Honghe and Hailun sites in northeastern China, with R2 increasing from 0.23 to 0.41 and RMSE decreasing from 1.27 to 1.25. In addition, three newly proposed temporal uncertainty metrics (time-series stability, TSS and time-series anomaly, TSA and reconstruction error metric, RE (the proximity to the main RT-based retrievals)) were applied to compare the stability of LAI time-series before and after PKA implementation. We found that the time series stability of PKA LAI was improved, the time series anomalies were reduced, and the retrieval rates of the main algorithm were also greatly enhanced compared to Max-FPAR LAI. A case intercomparison for Max-FPAR-MODIS, Max-FPAR-VIIRS (Visible Infrared Imager Radiometer Suite), and PKA-MODIS LAIs in the Amazon Forest region showed that the PKA is also effective in improving the LAI retrieval over large regions with few qualified observations due to poor atmospheric conditions (RE decreased from 2.37/2.35 (Max-FPAR-MODIS/Max-FPAR-VIIRS) to 2.25 (PKA-MODIS) and RI increased from 61.94%/59.62% to 66.88%). The same improvement was seen in the BELMANIP 2.1 sites for almost all biomes except deciduous broadleaf forest, where the RE decreased from 1.85/2.13 to 1.15 overall. We note that the PKA has the potential to be easily implemented in the operational algorithms of subsequent MODIS and MODIS-like LAI Collections.

MODIS↗

NASA NTRS1977

Theoretical aspects of tidal and planetary wave propagation at thermospheric heights

A simple semiquantitative model is presented which allows analytic solutions of tidal and planetary wave propagation at thermospheric heights. This model is based on perturbation approximation and mode separation. The effects of viscosity and heat conduction are parameterized by Rayleigh friction and Newtonian cooling. Because of this simplicity, one gains a clear physical insight into basic features of atmospheric wave propagation. In particular, we discuss the meridional structures of pressure and horizontal wind (the solutions of Laplace's equation) and their modification due to dissipative effects at thermospheric heights. Furthermore, we solve the equations governing the height structure of the wave modes and arrive at a very simple asymptotic solution valid in the upper part of the thermosphere. That 'system transfer function' of the thermosphere allows one to estimate immediately the reaction of the thermospheric wave mode parameters such as pressure, temperature, and winds to an external heat source of arbitrary temporal and spatial distribution. Finally, the diffusion effects of the minor constituents due to the global wind circulation are discussed, and some results of numerical calculations are presented.

Volland, H.↗

NASA NTRS1992

A history of the Lonar crater, India: An overview

The origin of the circular structure at Lonar, India, described variously as cauldron, pit, hollow, depression, and crater, has been a controversial subject since the early nineteenth century. A history of its origin and other aspects from 1823 to 1990 are overviewed. The structure in the Deccan Trap Basalt is nearly circular with a breach in the northeast, 1830 m in diameter, 150 m deep, with a saline lake in the crater floor. Over the years, the origin of the Lonar structure has risen from volcanism, subsidence, and cryptovolcanism to an authentic meteorite impact crater. Lonar is unique because it is probably the only terrestrial crater in basalt and is the closest analog with the Moon's craters. Some unresolved questions are suggested. The proposal is made that the young Lonar impact crater, which is less than 50,000 years old, should be considered as the best crater laboratory analogous to those of the Moon, be treated as a global monument, and preserved for scientists to comprehend more about the mysteries of nature and impact cratering, which is now emerging as a fundamental ubiquitous geological process in the evolution of the planets.

Nayak, V. K.↗

DOE OSTI2025

Impact of Microphysics and Convection Schemes on the Mean‐State and Variability of Clouds and Precipitation in the E3SM Atmosphere Model

Skillful representation of tropical variability and diurnal cycle of precipitation has remained a challenge in global atmosphere models, and often improvements in the variability lead to degradation in the mean‐state. Here, we introduce a configuration of the E3SM Atmosphere Model with a new large‐scale microphysics scheme and several enhancements to the deep convective scheme that improves the variability. The new configuration improves various modes of convectively‐coupled equatorial waves, with increased strength of Kelvin waves and more coherent eastward propagation of the Madden‐Julian Oscillation from the Indian Ocean to the central Pacific Ocean. The same configuration also improves the phase of the diurnal cycle of precipitation, particularly over the continental United States in the boreal summer and over Tropical land regions. Previous studies have shown that, individually taken, some of the deep convective enhancements can improve certain aspects of the variability, and here we show that combining their effects can lead to robust improvements in the variability. This model configuration can form the basis for future studies to examine the response of tropical and diurnal variability under various climate states and their relationships with other modes of variability.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2000

Magnetic Field Suppression of Flow in Semiconductor Melt

One of the most promising approaches for the reduction of convection during the crystal growth of conductive melts (semiconductor crystals) is the application of magnetic fields. Current technology allows the experimentation with very intense static fields (up to 80 KGauss) for which nearly convection free results are expected from simple scaling analysis in stabilized systems (vertical Bridgman method with axial magnetic field). However, controversial experimental results were obtained. The computational methods are, therefore, a fundamental tool in the understanding of the phenomena accounting during the solidification of semiconductor materials. Moreover, effects like the bending of the isomagnetic lines, different aspect ratios and misalignments between the direction of the gravity and magnetic field vectors can not be analyzed with analytical methods. The earliest numerical results showed controversial conclusions and are not able to explain the experimental results. Although the generated flows are extremely low, the computational task is a complicated because of the thin boundary layers. That is one of the reasons for the discrepancy in the results that numerical studies reported. Modeling of these magnetically damped crystal growth experiments requires advanced numerical methods. We used, for comparison, three different approaches to obtain the solution of the problem of thermal convection flows: (1) Spectral method in spectral superelement implementation, (2) Finite element method with regularization for boundary layers, (3) Multiquadric method, a novel method with global radial basis functions, that is proven to have exponential convergence. The results obtained by these three methods are presented for a wide region of Rayleigh and Hartman numbers. Comparison and discussion of accuracy, efficiency, reliability and agreement with experimental results will be presented as well.

Fedoseyev, A. I.↗

NASA NTRS1999

Consistency Between Tropical Divergent Circulations from Reanalysis Data Sets and Satellite-Derived Precipitation, Radiation, and Surface Fluxes

Large-scale divergent circulations are part of the atmospheric dynamic response to diabatic heating from condensation, radiative processes, and surface heat fluxes. Vertical motion and the associated divergent wind is thus intimately tied to the hydrologic cycle and the global heat balance. Vertical motions are recovered diagnostically from reanalyses and, as such, are subject to shortcommings in model physics, numerics, and data availability. We use several Global Energy and Water Cycle Experiment (GEWEX) Earth Observation System (EOS) data sets derived from satellite data to assess interannual divergent flow anomalies in the National Centers for Environmental Prediction (NCEP), Goddard Space Flight Center (GSFC), and GSFC Data Assimilation Office (DAO) analyses. Among the data sets are monthly, 2.5 degree gridded precipitation (Microwave Sounding Unit (MSU) and Special Sensor Microwave Imager (SSM/I-based)), Top or the atmosphere (TOA) radiative fluxes from ERBS, surface radiative fluxes from the SRB project, and surface latent and sensible flux estimates from SSM/I. These data sets can be considered as independent of the reanalysis fields. We focus largely on the period 1987-1989 encompassing a strong El Nino / la Nina couplet. Consequently we emphasize interannual changes as well as climatological aspects of the reanalyses. In the processes of this study we use simple integral constraints enforced through the satellite-derived data sets to derive corrections to the divergent circulation produced from the reanalyses. We examine the implications of these corrections in describing how perturbations to the tropical heat balance evolve during a warm / cool couplet. In particular the perturbations to the planetary scale water vapor transport, and the resulting changes in TOA and surface radiative fluxes are considered.

Robertson, Franklin R.↗

NASA NTRS2004

Time Changes of the European Gravity Field from GRACE: A Comparison with Ground Measurements from Superconducting Gravimeters and with Hydrology Model Predictions

We investigate the time-variable gravity changes in Europe retrieved from the initial GRACE monthly solutions spanning a 18 month duration from April 2002 to October 2003. Gravity anomaly maps are retrieved in Central Europe from the monthly satellite solutions we compare the fields according to various truncation levels (typically between degree 10 and 20) of the initial fields (expressed in spherical harmonics to degree 120). For these different degrees, an empirical orthogonal function (EOF) decomposition of the time-variable gravity field leads us to its main spatial and temporal characteristics. We show that the dominant signal is found to be annual with an amplitude and a phase both in agreement with predictions in Europe modeled using snow and soil-moisture variations from recent hydrology models. We compare these GRACE gravity field changes to surface gravity observations from 6 superconducting gravimeters of the GGP (Global Geodynamics Project) European sub-network, with a special attention to loading corrections. Initial results suggest that all 3 data sets (GRACE, hydrology and GGP) are responding to annual changes in near-surface water in Europe of a few microGal (at length scales of approx.1000 km) that show a high value in winter and a summer minimum. We also point out that the GRACE gravity field evolution seems to indicate that there is a trend in gravity between summer 2002 and summer 2003 which can be related to the 2003 heatwave in Europe and its hydrological consequences (drought). Despite the limited time span of our analysis and the uncertainties in retrieving a regional solution from the network of gravimeters, the calibration and validation aspects of the GRACE data processing based on the annual hydrology cycle in Europe are in progress.

Hinderer, J.↗

DOE OSTI2020

Arctic Coastal Erosion: Modeling and Experimentation

Increasing Arctic coastal erosion rates have put critical infrastructure and native communities at risk while also mobilizing ancient organic carbon into modern carbon cycles. Although the Arctic comprises one-third of the global coastline and has some of the fastest eroding coasts, current tools for quantifying permafrost erosion are unable to explain the episodic, storm-driven erosion events. Our approach, mechanistically coupling oceanographic predictions with a terrestrial model to capture the thermo-mechanical dynamics of erosion, enables this much needed treatment of transient erosion events. The Arctic Coastal Erosion Model consists of oceanographic and atmospheric boundary conditions that force a coastal terrestrial permafrost environment in Albany (a multi-physics based finite element model). An oceanographic modeling suite (consisting of WAVEWATCH III, Delft3D-FLOW, and Delft3D-WAVE) produced time-dependent surge and run-up boundary conditions for the terrestrial model. In the terrestrial model, a coupling framework unites the mechanical and thermal aspects of erosion. 3D stress/strain fields develop in response to a plasticity model of the permafrost that is controlled by the frozen water content determined by modeling 3D heat conduction and solid-liquid phase change. This modeling approach enables failure from any allowable deformation (block failure, slumping, etc.). Extensive experimental work has underpinned the ACE Model development including field campaigns to measure in situ ocean and erosion processes, strength properties derived from thermally driven geomechanical experiments, as well as extensive physical composition and geochemical analyses. Combined, this work offers the most comprehensive and physically grounded treatment of Arctic coastal erosion available in the literature. The ACE model and experimental results can be used to inform scientific understanding of coastal erosion processes, contribute to estimates of geochemical and sediment land-to-ocean fluxes, and facilitate infrastructure susceptibility assessments.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Fundamental aspects of Spacetime and Quantum Fields

The proposal contained two goals: firstly, placing fundamental bound on thermalization in Quantum Field Theories (QFTs) and, secondly, developing our understanding of emergent spacetime from matrices through concrete models. Since the previous reporting period, in collaboration with Sean Hartnoll we have continued our study of entanglement edge modes in matrix quantum mechanics (MQM). This has resulted in two papers. The first applies our construction for the Matrix Quantum Hall system first to fuzzy sphere states known to correspond to stringy M2-branes in MQM. Entanglement in these states using machine learning methods have also been studied by Sean Hartnoll and Xizhi Han in previous work done under this grant. Our construction builds on this work, and further demonstrates how area laws on fuzzy geometries emerge from strongly coupled systems. The second paper generalizes this construction to all noncommutative geometries with curvature much larger than the noncommutativity parameter. We demonstrate that despite UV/IR mixing effects, the structure of entanglement edge mode irreducible representations is determined by the boundary area of subsystems. On manifolds without global symmetries, we have demonstrated that nonlocal effects inherent to noncommutative geometries resum into a change of frame of the metric structure, similar to the change from string frame to Einstein frame for entanglement entropies calculated in string theory. These advancements lay the groundwork for future progress in the understanding of emergent geometry from large-N theories. Using these techniques, we are currently working on applying our methods to noncom mutative geometries whose construction is not so well understood, such as the fuzzy 5-sphere. Despite their opacity these objects are quite important, as string physics in the bulk of holographic systems bears many features of noncommutative geometry. We have also laid the groundwork of applying our methods to tensor networks, one of the most powerful models for understanding how geometry emerges from entanglement.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

NASA NTRS1987

A comparative study of rapidly and slowly rotating dynamical regimes in a terrestrial general circulation model

As a preliminary step in the development of a general circulation model for general planetary use, a simplified vesion of thef GISS Model I GCM has been run at various rotation periods to investigate differences between the dynamical regimes of rapidly and slowly rotating planets. To isolate the dynamical processes, the hydrologic cycle is suppressed and the atmosphere is forced with perpetual annual mean solar heating. All other parameters except the rotation period remain fixed at their terrestrial values. Experiments were conducted for rotation periods of 2/3, 1, 2, 4, 8, 16, 64 and 256 days. The results are in qualitative agreement with similar experiments carried out previously with other GCMs and with certain aspects of one Venus GCM simulation. As rotation rate decreases, the energetics shifts from baroclinc to quasi-barotropic when the Rossby radius of deformation reaches planetary scale. The Hadley cell expands poleward and replaces eddies as the primary mode of large-scale heat transport. Associated with this is a poleward shift of the baroclinic zone and jet stream and a reduction of the equator-pole temperature contrast. Midlatitude jet strength peaks at 8 days period, as does the weak positive equatorial zonal wind which occurs at upper levels at all rotation periods. Eddy momentum transport switches from poleward to equatorward at the same period. Tropospheric mean static stability generally increases in the tropics and decreases in midlatitudes as rotation rate decreases, but the global mean static stability is independent of rotation rate. The peak in the eddy kinetic energy spectrum shifts toward lower wavenumbers, reaching wavenumber 1 at a period of 8 days. Implications of these results for the dynamics of Venus and Titan are discussed. Specifically, it is suggested that the extent of low-level convection determines whether the Gierasch mechanism contributes significantly to equatorial superrotation on these planets.

Del Genio, Anthony D.↗

NASA NTRS1994

Lyndon B. Johnson Space Center (JSC) proposed dual-use technology investment program in intelligent robots

This paper presents an overview of the proposed Lyndon B. Johnson Space Center (JSC) precompetitive, dual-use technology investment project in robotics. New robotic technology in advanced robots, which can recognize and respond to their environments and to spoken human supervision so as to perform a variety of combined mobility and manipulation tasks in various sectors, is an obejective of this work. In the U.S. economy, such robots offer the benefits of improved global competitiveness in a critical industrial sector; improved productivity by the end users of these robots; a growing robotics industry that produces jobs and profits; lower cost health care delivery with quality improvements; and, as these 'intelligent' robots become acceptable throughout society, an increase in the standard of living for everyone. In space, such robots will provide improved safety, reliability, and productivity as Space Station evolves, and will enable human space exploration (by human/robot teams). The proposed effort consists of partnerships between manufacturers, universities, and JSC to develop working production prototypes of these robots by leveraging current development by both sides. Currently targeted applications are in the manufacturing, health care, services, and construction sectors of the U.S. economy and in the inspection, servicing, maintenance, and repair aspects of space exploration. But the focus is on the generic software architecture and standardized interfaces for custom modules tailored for the various applications allowing end users to customize a robot as PC users customize PC's. Production prototypes would be completed in 5 years under this proposal.

Erikson, Jon D.↗

NASA NTRS1994

Lyndon B. Johnson Space Center (JSC) proposed dual-use technology investment program in intelligent robotics

This paper presents an overview of the proposed Lyndon B. Johnson Space Center (JSC) precompetitive, dual-use technology investment project in robotics. New robotic technology in advanced robots, which can recognize and respond to their environments and to spoken human supervision so as to perform a variety of combined mobility and manipulation tasks in various sectors, is an objective of this work. In the U.S. economy, such robots offer the benefits of improved global competitiveness in a critical industrial sector; improved productivity by the end users of these robots; a growing robotics industry that produces jobs and profits; lower cost health care delivery with quality improvements; and, as these 'intelligent' robots become acceptable throughout society, an increase in the standard of living for everyone. In space, such robots will provide improved safety, reliability, and productivity as Space Station evolves, and will enable human space exploration (by human/robot teams). The proposed effort consists of partnerships between manufacturers, universities, and JSC to develop working production prototypes of these robots by leveraging current development by both sides. Currently targeted applications are in the manufacturing, health care, services, and construction sectors of the U.S. economy and in the inspection, servicing, maintenance, and repair aspects of space exploration. But the focus is on the generic software architecture and standardized interfaces for custom modules tailored for the various applications allowing end users to customize a robot as PC users customize PC's. Production prototypes would be completed in 5 years under this proposal.

Erickson, Jon D.↗

NASA NTRS1991

High-resolution measurements of surface topography with airborne laser altimetry and the global positioning system

Recently, an airborne lidar system that measures laser pulse time-of-flight and the distortion of the pulse waveform upon reflection from earth surface terrain features was developed and is now operational. This instrument is combined with Global Positioning System (GPS) receivers and a two-axis gyroscope for accurate recovery of aircraft position and pointing attitude. The laser altimeter system is mounted on a high-altitude aircraft platform and operated in a repetitively-pulsed mode for measurements of surface elevation profiles at nadir. The laser transmitter makes use of recently developed short-pulse diode-pumped solid-state laser technology in Q-switched Nd:YAG operating at its fundamental wavelength of 1064 nm. A reflector telescope and silicon avalanche photodiode are the basis of the optical receiver. A high-speed time-interval unit and a separate high-bandwidth waveform digitizer under microcomputer control are used to process the backscattered pulses for measurements of terrain. Other aspects of the lidar system are briefly discussed.

Garvin, James B.↗

DOE OSTI2020

A dataset of eco-evidence tools to inform early-stage environmental impact assessments of hydropower development

The datasets described herein provide the foundation for a decision support prototype (DSP) toolkit aimed at assisting stakeholders in determining evidence of which aspects of river ecosystems have been impacted by hydropower. The DSP toolkit and its application are presented and described in the article “Evidence-based indicator approach to guide preliminary environmental impact assessments of hydropower development” [1]. Development of the DSP and the output for decision support centralize around 42 river function indicators describing the dimensionality of river ecosystems through six main categories: biota and biodiversity, water quality, hydrology, geomorphology, land cover, and river connectivity. Three main tools are represented in the DSP: A science-based questionnaire (SBQ), an environmental envelope model (EEM), and a river function linkage assessment tool (RFLAT). The SBQ is a structured survey-style questionnaire whose objective is to provide evidence of which indicators have been impacted by hydropower. Based on a global literature review, 140 questions were developed from general hypotheses regarding the impacts of dams on rivers. The EEM is a model to predict the likelihood of hydropower impacting indicators based on a several variables. The intended use of the EEM is for situations of new hydropower development where results of the SBQ are incomplete or highly uncertain. The EEM was developed through the compilation of a dataset containing attributes of dams, reservoirs, and geospatial information on environmental concerns, which was combined with data on ecological indicators documented at those sites through literature review. The model operates through 247 “envelopes” and weighting factors, representing the individual effect of each variable on each indicator, all available through spreadsheets. Finally, the RFLAT is a tool to examine causal relationships amongst indicators. Inter-indicator relationships were hypothesized based on literature review and summarized into node and edge datasets to represent the structure of a graphical network. Bayes theorem was used estimate conditional probabilities of inter-indicator relationships based on the output of the SBQ. Nodes and edges were imported into R programming environment to visualize ecological indicator networks. The datasets can be expanded upon and enriched with more detailed questions for the SBQ, building upon the EEM with to develop more sophisticated models, and identifying new relationships for the RFALT. Additionally, once the tools are applied to numerous hydropower developments, the output of the tools (e.g. evidence of impacted indicators) becomes a very useful dataset for meta-analyses of hydropower impacts.

13 HYDRO ENERGY↗

NASA NTRS2008

System Estimates Radius of Curvature of a Segmented Mirror

A system that estimates the global radius of curvature (GRoC) of a segmented telescope mirror has been developed for use as one of the subsystems of a larger system that exerts precise control over the displacements of the mirror segments. This GRoC-estimating system, when integrated into the overall control system along with a mirror-segment- actuation subsystem and edge sensors (sensors that measure displacements at selected points on the edges of the segments), makes it possible to control the GROC mirror-deformation mode, to which mode contemporary edge sensors are insufficiently sensitive. This system thus makes it possible to control the GRoC of the mirror with sufficient precision to obtain the best possible image quality and/or to impose a required wavefront correction on incoming or outgoing light. In its mathematical aspect, the system utilizes all the information available from the edge-sensor subsystem in a unique manner that yields estimates of all the states of the segmented mirror. The system does this by exploiting a special set of mirror boundary conditions and mirror influence functions in such a way as to sense displacements in degrees of freedom that would otherwise be unobservable by means of an edge-sensor subsystem, all without need to augment the edge-sensor system with additional metrological hardware. Moreover, the accuracy of the estimates increases with the number of mirror segments.

Rakoczy, John↗

DOE OSTI2020

A plant genetic network for preventing dysbiosis in the phyllosphere

The aboveground parts of terrestrial plants, collectively called the phyllosphere, have a key role in the global balance of atmospheric carbon dioxide and oxygen. The phyllosphere represents one of the most abundant habitats for microbiota colonization. Whether and how plants control phyllosphere microbiota to ensure plant health is not well understood. Here we show that the Arabidopsis quadruple mutant (min7 fls2 efr cerk1; hereafter, mfec)1, simultaneously defective in pattern-triggered immunity and the MIN7 vesicle-trafficking pathway, or a constitutively activated cell death1 (cad1) mutant, carrying a S205F mutation in a membrane-attack-complex/perforin (MACPF)-domain protein, harbour altered endophytic phyllosphere microbiota and display leaf-tissue damage associated with dysbiosis. The Shannon diversity index and the relative abundance of Firmicutes were markedly reduced, whereas Proteobacteria were enriched in the mfec and cad1S205F mutants, bearing cross-kingdom resemblance to some aspects of the dysbiosis that occurs in human inflammatory bowel disease. Bacterial community transplantation experiments demonstrated a causal role of a properly assembled leaf bacterial community in phyllosphere health. Here, the pattern-triggered immune signalling, MIN7 and CAD1 are found in major land plant lineages and are probably key components of a genetic network through which terrestrial plants control the level and nurture the diversity of endophytic phyllosphere microbiota for survival and health in a microorganism-rich environment.

59 BASIC BIOLOGICAL SCIENCES↗