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DOE OSTI2022

Porous Colloidal Nanoparticles as Injectable Multimodal Contrast Agents for Enhanced Geophysical Sensing

Injecting fluids into underground geologic structures is crucial for the development of long-term strategies for managing captured carbon and facilitating sustainable energy extraction operations. Here, we have previously reported that the injection of metal–organic frameworks (MOFs) into the subsurface can enhance seismic monitoring tools to track fluids and map complex structures, reduce risk, and verify containment in carbon storage reservoirs because of their absorption capacity of low-frequency seismic waves. Here, we demonstrate that water-based Cr/Zn/Zr MOF colloidal suspensions (nanofluids) are multimodal geophysical contrast agents that enhance near-wellbore logging tools. Based on experimental fluid-only measurements, MIL-101(Cr), ZIF-8, and UiO-66 nanofluids have distinct complex conductivity and/or low-field nuclear magnetic resonance (NMR) signatures that are relevant to field-deployed technologies, implying the potential to enhance near-wellbore monitoring of CO 2 injection and associated processes with downhole logging tools. Small- and wide-angle X-ray scattering characterization of ~0.5 wt % MIL-101(Cr) suspensions confirmed phase stability and provided insight into the fractal nature of colloidal nanoparticles. Finally, low-field (2 MHz) NMR measurements of MIL-101(Cr) nanofluid injection into a prototypical Berea sandstone demonstrate how paramagnetic high-surface area MOFs may dominate the relaxation times of hydrogen-bearing fluids in porous geologic matrices, enhancing the mapping of near-surface and near-wellbore transport pathways and advancing sustainable subsurface energy technologies.

NMR↗

DOE OSTI2023

MaNGA galaxy properties – II. A detailed comparison of observed and simulated spiral galaxy scaling relations

ABSTRACT We present a catalogue of dynamical properties for 2368 late-type galaxies from the MaNGA survey. The latter complements the catalogue of photometric properties for the same sample based on deep optical dark energy sky instrument legacy imaging survey (DESI) photometry processed with autoprof . Rotation curves (RCs), extracted by model-fitting H α velocity maps from the MaNGA Data Analysis Pipeline, extend out to 1.4 (1.9) Re for the primary (secondary) MaNGA samples, respectively. The RCs and ancillary MaNGA Pipe3D data products were used to construct various fundamental galaxy scaling relations that are also compared uniformly with similar relations from numerical investigation of a hundred astrophysical object (NIHAO) zoom-in simulations. Simulated NIHAO galaxies were found to broadly reproduce the observed MaNGA galaxy population for $\log (M_*/{\rm {\rm M}_{\odot })\, \gt\, 8.5}$. Some discrepancies remain, such as those pertaining to central stellar densities and the diversity of RCs due to strong feedback schemes. Also presented are spatially resolved scatters for the velocity-size-stellar mass (VRM*) structural relations using MaNGA and NIHAO samples. The scatter for these relations in the galaxian interiors is a consequence of the diversity of inner RC shapes, while scatter in the outskirts is dictated by the large range of stellar surface densities, which is itself driven by sporadic star formation. The detailed, spatially resolved scatter analysis highlights the complex interplay between local and global astrophysical processes and provides a strong constraint to numerical simulations.

Astronomy & Astrophysics↗

DOE OSTI2024

Mechanisms and models of the turbulent boundary layers at transcritical conditions

Computational models for high-pressure transcritical turbulence in wall-modeled large-eddy simulation typically rely on wall-function models to overcome the need for resolving the boundary layer structures. However, the mechanisms and models of turbulent boundary layer at transcritical conditions remain poorly understood since the near-wall flow and heat transfer are significantly affected by the enhanced fluctuations and steep gradients in thermodynamic properties. Here, to address this issue, we study the mechanisms of transcritical turbulent boundary layers and wall-attached models at transcritical conditions. It is shown that the real-fluid variable-property effects are associated with the coupling between the near-wall cycle and the wall-normal coherent motions in the outer layer, resulting in the amplification of turbulent energy in the outer layer and noticeable energy transfer between the log-layer and the outer layer; hence, turbulence in the log-layer is modulated by the outer layer. Based on this underlying physical principle, we propose the characteristic velocity and length scales for the attached eddy at transcritical conditions, and extend the attached eddy model to transcritical turbulent boundary layers by introducing a mixed scaling that incorporates both inner and outer scalings. We show that the new characteristic scales and extended attached-eddy model perform well in characterizing the structures in transcritical turbulent boundary layers.

Li, Fangbo↗

DOE OSTI2022

MgADP Promotes Myosin Head Movement toward Actin at Low [Ca 2+ ] to Increase Force Production and Ca 2+ -Sensitivity of Contraction in Permeabilized Porcine Myocardial Strips

Myosin cross-bridges dissociate from actin following Mg 2+ -adenosine triphosphate (MgATP) binding. Myosin hydrolyses MgATP into inorganic phosphate (P i ) and Mg 2+ -adenosine diphosphate (ADP), and release of these hydrolysis products drives chemo-mechanical energy transitions within the cross-bridge cycle to power muscle contraction. Some forms of heart disease are associated with metabolic or enzymatic dysregulation of the MgATP-MgADP nucleotide pool, resulting in elevated cytosolic [MgADP] and impaired muscle relaxation. We investigated the mechanical and structural effects of increasing [MgADP] in permeabilized myocardial strips from porcine left ventricle samples. Sarcomere length was set to 2.0 µm at 28 °C, and all solutions contained 3% dextran T-500 to compress myofilament lattice spacing to near-physiological values. Under relaxing low [Ca 2+ ] conditions (pCa 8.0, where pCa = -log 10 [Ca 2+ ]), tension increased as [MgADP] increased from 0-5 mM. Complementary small-angle X-ray diffraction measurements show that the equatorial intensity ratio, I 1,1 /I 1,0 , also increased as [MgADP] increased from 0 to 5 mM, indicating myosin head movement away from the thick-filament backbone towards the thin-filament. Ca 2+ -activated force-pCa measurements show that Ca 2+ -sensitivity of contraction increased with 5 mM MgADP, compared to 0 mM MgADP. These data show that MgADP augments tension at low [Ca 2+ ] and Ca 2+ -sensitivity of contraction, suggesting that MgADP destabilizes the quasi-helically ordered myosin OFF state, thereby shifting the cross-bridge population towards the disordered myosin ON state. Together, these results indicate that MgADP enhances the probability of cross-bridge binding to actin due to enhancement of both thick and thin filament-based activation mechanisms.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2022

Properly Learning Decision Trees in almost Polynomial Time

We give an n O (log log n ) -time membership query algorithm for properly and agnostically learning decision trees under the uniform distribution over { ± 1} n . Even in the realizable setting, the previous fastest runtime was n O (log n ) , a consequence of a classic algorithm of Ehrenfeucht and Haussler. Our algorithm shares similarities with practical heuristics for learning decision trees, which we augment with additional ideas to circumvent known lower bounds against these heuristics. To analyze our algorithm, we prove a new structural result for decision trees that strengthens a theorem of O’Donnell, Saks, Schramm, and Servedio. While the OSSS theorem says that every decision tree has an influential variable, we show how every decision tree can be “pruned” so that every variable in the resulting tree is influential.

Computer Science↗

DOE OSTI2023

Improving Subsurface Stress Characterization for Carbon Dioxide Storage Projects by Incorporating Machine Learning Techniques

The overall objective of this project is to develop a framework for reliable characterization and prediction of the state of stress in the overburden and underburden (including the basement) in CO 2 storage reservoirs using machine learning and integrated geomechanics and geophysical methods. Specifically, we propose to develop workflow encompassing of technologies and/or methods to predict stress and pressure changes due to CO 2 injection in an active tertiary recovery site and their impacts on subtle fault activation, fractures and occurrence of microseismic events and compare responses to field observations. In this project, we anticipate using dataset from the Farnsworth field Unit (FWU) which is operated by Purdure Petroleum. A novel elastic-waveform VSP inversion technique will be used to estimate high-resolution spatial and temporal changes of elastic moduli in CO 2 storage reservoirs, which will be combined with velocity-stress relationship derived from laboratory tests to obtain subsurface pressure and stress. Clustered microseismic data will be jointly inverted for improved focal mechanisms. Least-squares reverse-time migration of microseismic waveform data will be performed to directly image fracture/fault zones. Additionally, a deep neural network machine learning technique with convolutional and recurrent layers will be used for learning the spectro-temporal structures in microseismic waveforms. The results of this geotechnical data analysis will be integrated to develop a high-resolution 3D mechanical earth model extending from the overburden sealing formations to the underburden including the basement. Mechanical properties will be derived through integration of mechanical logs, tests, available results from chemo-mechanical laboratory tests, and elastic inversion of seismic data using a combination of Bayesian and stochastic methods as well as machine learning technique. Failure features (faults/fractures) will be represented and/or modeled based on seismic and core data analysis. A transient hydrodynamic-geomechanical model will be developed through coupling with the calibrated FWU reservoir simulation model. The full physics coupled model will be used to train a reduced order proxy model using machine learning algorithm for estimating stress which will then be used with appropriate constitutive relationships and forward seismological models to simulate pressure changes and induced microseismicity. An advanced optimization framework will be developed to perform a history match to minimize error between field observations and simulated. The history matched proxy model will be verified against the full-physics equivalent. The field observations that will be used in the coupled model calibration process include pressure/stress inverted from VSP, moment magnitude from microseismic analysis, real time downhole pressure measurements, production and injection data. Parameter sensitivity and uncertainty analysis will be performed to characterize the impact of model parameter uncertainty on stress estimates. The proposed project will have significant impact on future field implementation of the proposed technology. Because the project field site is an ongoing CO 2 EOR development, the value of the new technology will be demonstrated in an operational context and evaluated as a viable risk mitigation strategy. Cost/benefit will be evaluated together with the various commercial incentives for CO 2 sequestration available to oil and gas operators. The extensive available dataset and ongoing data acquisition under the SWP Phase III work plan provides flexibility for investigation of multiple approaches and reduces technical risk.

58 GEOSCIENCES↗

DOE OSTI2023

Insights of Boundary Layer Turbulence Over the Complex Terrain of Central Himalaya from GVAX Field Campaign

Limited observations hinder understanding of turbulent characteristics in mountainous terrain resulting from heating or cooling of slopes, wind, vertical motions, and heat or moisture advection, which disperse aerosols and other pollutants over the region. In this study, the 1290 MHz radar wind profiler data are utilized to compute the boundary layer height (BLH), the refractive index structure constant (C n 2 ), and the energy dissipation rate (ε) over the central Himalayan site for the period of November 2011 to March 2012, from the intense Ganges Valley Aerosol Experiment (GVAX) field measurements. The radar wind profiler (RWP) based estimation of BLH and ε is validated against the radiosonde, representing the effectiveness of the datasets for further investigation. The strong seasonal variation of log C n 2 and log ε, with average values of ≈ -12 m -2/3 and -2 m 2 s -3 , respectively, is associated with the mountain-induced local circulations and stability in the atmospheric boundary layer. The weak stratification during weak flow is found to be responsible for deep mixing, particularly in the nocturnal boundary layer in spring. Furthermore, the level of cloud cover significantly impacts the strength of turbulence, with the highest cloud cover resulting in a substantial increase in log C n 2 (approximately -11 m -2/3 ) due to intense updraft and downdraft motions compared to clear skies. Additionally, the distribution of aerosol loading across the site, coupled with the behavior of BLH, atmospheric stability, and orographic-induced circulations, implies distinctive seasonal mechanisms for transporting aerosols toward the mountains. This study offers valuable insights into the diurnal and seasonal patterns of turbulent mixing and the mechanisms behind the transport of pollutants through boundary layer processes over the region.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Zero-truncated Poisson regression for sparse multiway count data corrupted by false zeros

Abstract We propose a novel statistical inference methodology for multiway count data that is corrupted by false zeros that are indistinguishable from true zero counts. Our approach consists of zero-truncating the Poisson distribution to neglect all zero values. This simple truncated approach dispenses with the need to distinguish between true and false zero counts and reduces the amount of data to be processed. Inference is accomplished via tensor completion that imposes low-rank tensor structure on the Poisson parameter space. Our main result shows that an $N$-way rank-$R$ parametric tensor $\boldsymbol{\mathscr{M}}\in (0,\infty )^{I\times \cdots \times I}$ generating Poisson observations can be accurately estimated by zero-truncated Poisson regression from approximately $IR^2\log _2^2(I)$ non-zero counts under the nonnegative canonical polyadic decomposition. Our result also quantifies the error made by zero-truncating the Poisson distribution when the parameter is uniformly bounded from below. Therefore, under a low-rank multiparameter model, we propose an implementable approach guaranteed to achieve accurate regression in under-determined scenarios with substantial corruption by false zeros. Several numerical experiments are presented to explore the theoretical results.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Collection And Analysis Of Telemetry For The Cyote Heuristic

CATCH CLI focuses on gathering telemetry data, storing it in the Neo4j database, querying for Mitre ATT&CK patterns, and creating STIX 2.1 reports. Key Components: Analysis Modules: Analyze data to detect attack patterns. GoSTOTS Collection Engines: Collect telemetry data. These tools can be used together or individually. Analysis modules rely on data from specific engines to identify attack patterns. Source Code Organization: Engines: CATCH/catch/cmd/collection Modules: CATCH/catch/cmd/analysis CGUI Overview CATCH Graphical User Interface (CGUI) offers a graphical shell to execute CATCH CLI, allowing easy editing of: Analysis Modules Database configurations Profiles (collection and device settings) Neo4j Overview Neo4j is a graph database using the Cypher query language, storing data in JSON. It seamlessly integrates with STIX 2.1 data for: Data Submission: CATCH Collection Engines Data Querying: Analysis Modules CATCH modifies STIX 2.1 data for Neo4j submission and reverts it back during querying. STIG Overview Structured Threat Intelligence Graph (STIG) is a tool for creating, editing, querying, analyzing, and visualizing threat intelligence using STIX 2.1 and storing data in Neo4j. Usage Tools can be run: Manually (CLI): Refer to CATCH documentation User Interface: Run ./cgui/CGUI or go run ./cgui/ Additional Information Logging System: Detailed in the config documentation Further Documentation: Available for CATCH and CGUI

Madsen, MichaelJ. [Idaho National Laboratory (INL)↗

DOE OSTI2024

Reference-free structural variant detection in microbiomes via long-read co-assembly graphs

Motivation: The study of bacterial genome dynamics is vital for understanding the mechanisms underlying microbial adaptation, growth, and their impact on host phenotype. Structural variants (SVs), genomic alterations of 50 base pairs or more, play a pivotal role in driving evolutionary processes and maintaining genomic heterogeneity within bacterial populations. While SV detection in isolate genomes is relatively straightforward, metagenomes present broader challenges due to the absence of clear reference genomes and the presence of mixed strains. In response, our proposed method rhea, forgoes reference genomes and metagenome-assembled genomes (MAGs) by encompassing all metagenomic samples in a series (time or other metric) into a single co-assembly graph. The log fold change in graph coverage between successive samples is then calculated to call SVs that are thriving or declining. Results: We show rhea to outperform existing methods for SV and horizontal gene transfer (HGT) detection in two simulated mock metagenomes, particularly as the simulated reads diverge from reference genomes and an increase in strain diversity is incorporated. We additionally demonstrate use cases for rhea on series metagenomic data of environmental and fermented food microbiomes to detect specific sequence alterations between successive time and temperature samples, suggesting host advantage. Our approach leverages previous work in assembly graph structural and coverage patterns to provide versatility in studying SVs across diverse and poorly characterized microbial communities for more comprehensive insights into microbial gene flux.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

Severity factor kinetic model as a strategic parameter of hydrothermal processing (steam explosion and liquid hot water) for biomass fractionation under biorefinery concept

Hydrothermal processes are an attractive clean technology and cost-effective engineering platform for bio-refineries based in the conversion of biomass to biofuels and high-value bioproducts under the basis of sustainability and circular bioeconomy. The deep and detailed knowledge of the structural changes by the severity of biomasses hydrothermal fractionation is scientifically and technological needed in order to improve processes effectiveness, reactors designs, and industrial application of the multi-scale target compounds obtained by stream explosion and liquid hot water systems. The concept of the severity factor [log 10 (R 0 )] established > 30 years ago, continue to be a useful index that can provide a simple description of the relationship between the operational conditions for biomass fractionation in second generation of biorefineries. Furthermore, this review develops a deep explanation of the hydrothermal severity factor based in lignocellulosic biomass fractionation with emphasis in research advances, pretreatment operations and the applications of severity factor kinetic model.

09 BIOMASS FUELS↗

DOE OSTI2024

Critical Assessment of Electronic Structure Descriptors for Predicting Perovskite Catalytic Properties

The discovery and design of materials which can efficiently catalyze the oxygen reduction and evolution reactions at reduced temperatures is important for facilitating the widespread adoption of fuel cell and electrolyzer technologies. Numerous studies have produced correlations between catalytic properties, such as oxygen surface exchange or electrode area specific resistance (ASR), and properties of the catalyst material. However, correlations have historically been limited in scope (e.g., using only a few materials or at a single temperature) and it has been difficult to provide detailed assessments of their robustness. Here, in this study, we assess the ability of the O p-band center electronic structure descriptor, obtained from density functional theory (DFT) calculations, to correlate with oxygen surface exchange rates, diffusivities, and area specific resistances for a large database of perovskite oxide catalytic properties. By data mining the literature, we obtain 747 catalytic property value data points spanning 299 unique perovskite compositions from 313 studies. We assess linear correlations of each property with the O p-band center and find generally modest correlations that are qualitatively useful (prediction mean absolute errors of about 0.5 log units are typical), where the correlations are improved at higher temperatures (e.g., 800 °C vs. 500 °C) and significantly improve when considering fits to the subset of materials which have multiple independent measurements. These findings suggest that the spread of property data is significantly influenced by experimental uncertainty, and subsequent measurements of additional materials will likely improve the O p-band center correlations.

30 DIRECT ENERGY CONVERSION↗

DOE OSTI2023

Constraining AGN Torus Sizes with Optical and Mid-infrared Ensemble Structure Functions

We propose a new method to constrain the size of the dusty torus in broad-line active galactic nuclei (AGNs) using optical and mid-infrared (MIR) ensemble structure functions (SFs). Because of the geometric dilution of the torus, the MIR response to optical continuum variations has suppressed variability with respect to the optical that depends on the geometry (e.g., size, orientation, opening angle) of the torus. More extended tori have steeper MIR SFs with respect to the optical SFs. We demonstrate the feasibility of this SF approach using simulated AGN light curves and a geometric torus model. While it is difficult to use SFs to constrain the orientation and opening angle due to the insensitivity of the SF on these parameters, the size of the torus can be well determined. Applying this method to the ensemble SFs measured for 587 SDSS quasars, we measure a torus R–L relation of $\mathrm{log}\,{R}_{\mathrm{eff}}(\mathrm{pc})={0.51}_{-0.04}^{+0.04}\times \mathrm{log}({{L}}_{\mathrm{bol}}/{10}^{46}\,\mathrm{erg}\ {{\rm{s}}}^{-1})-{0.38}_{-0.01}^{+0.01}$ in the WISE W1 band and sizes ~1.4 times larger in the W2 band, which are in good agreement with dust reverberation mapping measurements. Compared with the reverberation mapping technique, the SF method is much less demanding in data quality and can be applied to any optical+MIR light curves for which a lag measurement may not be possible, as long as the variability process and torus structure are stationary. While this SF method does not extract all information contained in the light curves (i.e., the transfer function), it provides an intuitive interpretation for the observed trends of AGN MIR SFs compared with optical SFs.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2025

High-energy ion beams generated with high efficiency using laser-driven 3D microstructures

Laser-driven ion acceleration in plasma is being proposed as a source of ion beams with a high peak current that can be useful in many fields of science and medicine. Using this method, high proton energies have been achieved by increasing the laser power and by using ultrathin (≤ 200 nm) foils. However, this approach is limited by survivability of the nanotargets to laser prepulses and by difficulty in controlling the plasma acceleration properties. Here, we introduce a new target platform using two-photon polymerization, 3D laser-printed “clone” microstructures with average densities lower than solid that are relatively insensitive to the laser prepulse. Two types of microstructured targets consisting of either a multilayered log-pile or a stochastic arrangement of one micron diameter wires are used. Both demonstrate a higher energy and higher yield proton acceleration compared to thin solid-density foil targets by the robust target normal sheath acceleration (TNSA) mechanism. We find that when such 10–20 μm thick structures are irradiated with a petawatt laser, protons with energies up to 110 MeV and a laser-to-proton conversion efficiency of ~ 10% are obtained. Our work suggests that such microstructures optimized for 60–200 MeV compact proton accelerators are promising for future radiotherapy and other applications.

Physics - Plasma physics↗

DOE OSTI2020

Simulating the Multi-epoch Direct Detection Technique to Isolate the Thermal Emission of the Non-transiting Hot Jupiter HD187123b

We report the 6.5σ detection of water from the hot Jupiter HD187123b with a Keplerian orbital velocity K {sub p} of 53 ± 13 km s{sup −1}. This high-confidence detection is made using a multi-epoch, high-resolution, cross-correlation technique, and corresponds to a planetary mass of 1.4{sub −0.3}{sup +0.5} M {sub J} and an orbital inclination of 21° ± 5°. The technique works by treating the planet/star system as a spectroscopic binary and obtaining high signal-to-noise, high-resolution observations at multiple points across the planet’s orbit to constrain the system’s binary dynamical motion. All together, seven epochs of Keck/NIRSPEC L-band observations were obtained, with five before the instrument upgrade and two after. Using high-resolution SCARLET planetary and PHOENIX stellar spectral models, we were able to drastically increase the confidence of the detection by running simulations that could reproduce, and thus remove, the nonrandom structured noise in the final likelihood space well. The ability to predict multi-epoch results will be extremely useful for furthering the technique. Here, we use these simulations to compare three different approaches to combining the cross correlations of high-resolution spectra and find that the Zucker log(L) approach is least affected by unwanted planet/star correlation for our HD187123 data set. Furthermore, we find that the same total signal-to-noise ratio (S/N) spread across an orbit in many, lower S/N epochs rather than fewer, higher S/N epochs could provide a more efficient detection. This work provides a necessary validation of multi-epoch simulations, which can be used to guide future observations and will be key to studying the atmospheres of farther separated, non-transiting exoplanets.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2025

AutoDiffSVDCompression [SWR-25-162]

This software contains the code and results for the paper Reducing Memory Usage of Reverse Mode AD by Compression. In particular, the code includes implementation of the necessary structures and functions for using the Singular Value Decomposition (SVD) to compress forward pass values needed for reverse mode AD as well as the necessary numerical solvers for Burgers’ Equation and numerical solution of a control problem. In addition to the code, the repository also contains the scripts, results, and logs used in the aforementioned publication. This repository is meant to enable the reproducibility of the results in the publication.

Maack, Jonathan [National Renewable Energy Laborat↗

DOE OSTI2022

ConKer: An algorithm for evaluating correlations of arbitrary order

Context. High order correlations in the cosmic matter density have become increasingly valuable in cosmological analyses. However, computing these correlation functions is computationally expensive. Aims. We aim to circumvent these challenges by developing a new algorithm called ConKer for estimating correlation functions. Methods. This algorithm performs convolutions of matter distributions with spherical kernels using FFT. Since matter distributions and kernels are defined on a grid, it results in some loss of accuracy in the distance and angle definitions. We study the algorithm setting at which these limitations become critical and suggest ways to minimize them. Results. ConKer is applied to the CMASS sample of the SDSS DR12 galaxy survey and corresponding mock catalogs, and is used to compute the correlation functions up to correlation order n = 5. We compare the n = 2 and n = 3 cases to traditional algorithms to verify the accuracy of the new algorithm. We perform a timing study of the algorithm and find that three of the four distinct processes within the algorithm are nearly independent of the catalog size N , while one subdominant component scales as O ( N ). The dominant portion of the calculation has complexity of O ( N c 4/3 log N c ), where N c is the of cells in a three-dimensional grid corresponding to the matter density. Conclusions. We find ConKer to be a fast and accurate method of probing high order correlations in the cosmic matter density, then discuss its application to upcoming surveys of large-scale structure.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2023

Novel candidate genes for lignin structure identified through genome-wide association study of naturally varying Populus trichocarpa

Populus is a promising lignocellulosic feedstock for biofuels and bioproducts. However, the cell wall biopolymer lignin is a major barrier in conversion of biomass to biofuels. To investigate the variability and underlying genetic basis of the complex structure of lignin, a population of 409 three-year-old, naturally varying Populus trichocarpa genotypes were characterized by heteronuclear single quantum coherence (HSQC) nuclear magnetic resonance (NMR). A subsequent genome-wide association study (GWAS) was conducted using approximately 8.3 million single nucleotide polymorphisms (SNPs), which identified 756 genes that were significantly associated (−log 10 ( p -value)>6) with at least one lignin phenotype. Several promising candidate genes were identified, many of which have not previously been reported to be associated with lignin or cell wall biosynthesis. These results provide a resource for gaining insights into the molecular mechanisms of lignin biosynthesis and new targets for future genetic improvement in poplar.

59 BASIC BIOLOGICAL SCIENCES↗