Proteomic characterization of peanut flour fermented by Rhizopus oryzae
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59 BASIC BIOLOGICAL SCIENCES↗
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Overcoming small minirhizotron datasets using transfer learning
Minirhizotron technology is widely used to study root growth and development. Yet, standard approaches for tracing roots in minirhiztron imagery is extremely tedious and time consuming. Machine learning approaches can help to automate this task. However, lack of enough annotated training data is a major limitation for the application of machine learning methods. Transfer learning is a useful technique to help with training when available datasets are limited. In this paper, we investigated the effect of pre-trained features from the massives-cale, irrelevant ImageNet dataset and a relatively moderate-scale, but relevant peanut root dataset on switchgrass root imagery segmentation applications. We compiled two minirhizotron image datasets to accomplish this study: one with 17,550 peanut root images and another with 28 switchgrass root images. Both datasets were paired with manually labeled ground truth masks. Deep neural networks based on the U-net architecture were used with different pre-trained features as initialization for automated, precise pixel-wise root segmentation in minirhizotron imagery. We observed that features pre-trained on a closely related but relatively moderate size dataset like our peanut dataset were more effective than features pre-trained on the large but unrelated ImageNet dataset. Here, we achieved high quality segmentation on peanut root dataset with 99.04% accuracy at the pixel-level and overcame errors in human-labeled ground truth masks. By applying transfer learning technique on limited switchgrass dataset with features pre-trained on peanut dataset, we obtained 99% segmentation accuracy in switchgrass imagery using only 21 images for training (fine tuning). Furthermore, the peanut pre-trained features can help the model converge faster and have much more stable performance.
59 BASIC BIOLOGICAL SCIENCES↗
Double X/Peanut structures in barred galaxies – insights from an N -body simulation
ABSTRACT Boxy, peanut-, or X-shaped ‘bulges’ are observed in a large fraction of barred galaxies viewed in, or close to, edge-on projection, as well as in the Milky Way. They are the product of dynamical instabilities occurring in stellar bars, which cause the latter to buckle and thicken vertically. Recent studies have found nearby galaxies that harbour two such features arising at different radial scales, in a nested configuration. In this paper, we explore the formation of such double peanuts, using a collisionless N-body simulation of a pure disc evolving in isolation within a live dark matter halo, which we analyse in a completely analogous way to observations of real galaxies. In the simulation, we find a stable double configuration consisting of two X/peanut structures associated with the same galactic bar – rotating with the same pattern speed – but with different morphology, formation time, and evolution. The inner, conventional peanut-shaped structure forms early via the buckling of the bar, and experiences little evolution once it stabilizes. This feature is consistent in terms of size, strength, and morphology, with peanut structures observed in nearby galaxies. The outer structure, however, displays a strong X, or ‘bow-tie’, morphology. It forms just after the inner peanut, and gradually extends in time (within 1–1.5 Gyr) to almost the end of the bar, a radial scale where ansae occur. We conclude that, although both structures form, and are dynamically coupled to, the same bar, they are supported by inherently different mechanisms.
Ciambur, Bogdan C.↗
Design of an Ara h 2 hypoallergen from conformational epitopes
Abstract Introduction Adverse reactions are relatively common during peanut oral immunotherapy. To reduce the risk to the patient, some researchers have proposed modifying the allergen to reduce IgE reactivity, creating a putative hypoallergen. Analysis of recently cloned human IgG from patients treated with peanut immunotherapy suggested that there are three common conformational epitopes for the major peanut allergen Ara h 2. We sought to test if structural information on these epitopes could indicate mutagenesis targets for designing a hypoallergen and evaluated the reduction in IgE binding via immunochemistry and a mouse model of passive cutaneous anaphylaxis (PCA). Methods X‐ray crystallography characterized the conformational epitopes in detail, followed by mutational analysis of key residues to modify monoclonal antibody (mAb) and serum IgE binding, assessed by ELISA and biolayer interferometry. A designed Ara h 2 hypoallergen was tested for reduced vascularization in mouse PCA experiments using pooled peanut allergic patient serum. Results A ternary crystal structure of Ara h 2 in complex with patient antibodies 13T1 and 13T5 was determined. Site‐specific mutants were designed that reduced 13T1, 13T5, and 22S1 mAbs binding by orders of magnitude. By combining designed mutations from the three major conformational bins, a hexamutant (Ara h 2 E46R, E89R, E97R, E114R, Q146A, R147E) was created that reduced IgE binding in serum from allergic patients. Further, in the PCA model where mice were primed with peanut allergic patient serum, reactivity upon allergen challenge was significantly decreased using the hexamutant. Conclusion These studies demonstrate that prior knowledge of common conformational epitopes can be used to engineer reduced IgE reactivity, an important first step in hypoallergen design.
Allergy↗
Utilizing biochars to stabilize mercury in contaminated floodplain sediment: Implications on mercury remediation
Major weather events contribute to the mobility and remobilization of legacy mercury (Hg) contamination and sequestration within sediments. Remediation using biochar as a soil amendment is a useful technique to immobilize and decrease Hg toxicity. This study explored whether biochar application is effective at stabilizing labile mercury (LaHg) from floodplain sediment. Controlled mesocosms simulating contamination events and flooding conditions were conducted. Floodplain sediment, which experiences annual periodic flooding, was collected. Sediment was spiked with inorganic Hg, applied with different types of biochar, and experienced simulated flooding events. Four types of biochar, pure rice husk (RH), pure peanut hull (PH), sulfur-modified rice husk (SMRH), and sulfur-modified peanut hull (SMPH), were applied at 10 and 40 g/kg rates (i.e., RH 10, RH 40; PH 10, PH 40, SMRH 10, SMRH 40, SMPH 10, SMPH 40). Total Hg, methylmercury, and LaHg concentrations were analyzed by coupling with redox potential measurements. Results indicate that SMRH 10, PH 10, PH 40, SMPH 10, and SMPH 40 successfully remediate Hg by stabilizing and reducing LaHg species from floodplain sediment. However, a high Hg methylation potential was observed with unsulfated and sulfated peanut hulls (PH 10, PH 40, SMPH 10, and SMPH 40), as they tend to create a reducing microenvironment that favors sulfate reduction reactions. Additionally, sulfur-modified biochar tends to promote Hg methylation potential at high application rates (i.e., 40 g/kg). We thus recommend using SMRH at a relatively low application rate (SMRH 10) for the remediation of Hg from floodplain sediment.
54 ENVIRONMENTAL SCIENCES↗
Thick target neutron yields from Beryllium, Carbon, Tungsten, and Lead targets irradiated by 26.7 MeV/nucleon 4 H e ions
The angular and energy distributions of secondary neutrons produced from 26.7 MeV/nucleon 4 He ions, stopping in thick Be, C, W and Pb targets are measured by the time of flight method. The GEANT4, PHITS, and FLUKA Monte Carlo simulation codes with different physics models are employed to simulate the neutron yields and the results are compared with the experimental data. For the thick Be and C targets, GEANT4 with INCL++ reproduces the experimental data reasonably well. Whereas PHITS with JQMD-2.0 overestimates the neutron yields at intermediate energies and FLUKA with PEANUT underestimated the neutron yields at intermediate energies. For W and Pb targets, FLUKA with PEANUT physics model agree with experimental data best. PHITS with JQMD-2.0 overestimates the neutron yield at intermediate energies at 0°, and GEANT4 with INCL++ underestimates the neutron yield at intermediate energies at three angles.
46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
Chromosome assembled and annotated genome sequence of Aspergillus flavus NRRL 3357
Abstract Aspergillus flavus is an opportunistic pathogen of crops, including peanuts and maize, and is the second leading cause of aspergillosis in immunocompromised patients. A. flavus is also a major producer of the mycotoxin, aflatoxin, a potent carcinogen, which results in significant crop losses annually. The A. flavus isolate NRRL 3357 was originally isolated from peanut and has been used as a model organism for understanding the regulation and production of secondary metabolites, such as aflatoxin. A draft genome of NRRL 3357 was previously constructed, enabling the development of molecular tools and for understanding population biology of this particular species. Here, we describe an updated, near complete, telomere-to-telomere assembly and re-annotation of the eight chromosomes of A. flavus NRRL 3357 genome, accomplished via long-read PacBio and Oxford Nanopore technologies combined with Illumina short-read sequencing. A total of 13,715 protein-coding genes were predicted. Using RNA-seq data, a significant improvement was achieved in predicted 5’ and 3’ untranslated regions, which were incorporated into the new gene models.
59 BASIC BIOLOGICAL SCIENCES↗
Economics of Crop Rotations With and Without Carinata for Sustainable Aviation Fuel Production in the SE United States
In 2019, the aviation sector in the United States emitted 255 million metric tons of carbon dioxide (CO 2 ) emissions, i.e., about five percent of the total domestic CO 2 emissions from the energy sector. The sustainable aviation fuel (SAF) derived from carinata (Brassica carinata) could reduce CO 2 emissions of the aviation sector in the United States. Therefore, it is important to estimate changes in farm economics with and without carinata for ascertaining its production feasibility. In this context, the current study first assesses a combination of 12 popular rotations of corn, cotton, peanut, and soybean with winter crops of winter wheat and carinata in South Georgia over 4 years. Then, the net present values (NPVs) of 292 feasible cropping systems over 4 years are calculated. Finally, this study develops a risk model for ascertaining the probability distributions of NPVs for selected cropping systems subject to uncertainties related to prices and yields of summer and winter crops. Carinata in the corn-corn-soybean rotation has the highest NPV ($\$$2,996/ha). The least risky rotation is cotton-cotton-peanut, with a 58.9% probability of a positive NPV. Carinata can decrease the risk level of crop rotations by 8.1%, only if a contract price of $\$$440.9/t is offered. Therefore, a risk averse, risk neutral, or risk acceptant farmer can potentially include carinata in the rotation. Overall, carinata would increase the profitability of farm operations and decrease risk in the SE United States, and therefore, a high likelihood exists, that farmers would adopt it for meeting the growing demand for SAF in the United States.
09 BIOMASS FUELS↗
Use of remote sensing in agriculture
The remote sensing studies of (a) cultivated peanut areas in Southeastern Virginia; (b) studies at the Virginia Truck and Ornamentals Research Station near Painter, Virginia, the Eastern Virginia Research Station near Warsaw, Virginia, the Tidewater Research and Continuing Education Center near Suffolk, Virginia, and the Southern Piedmont Research and Continuing Education Center Blackstone, Virginia; and (c) land use classification studies at Virginia Beach, Virginia are presented. The practical feasibility of using false color infrared imagery to detect and determine the areal extent of peanut disease infestation of Cylindrocladium black rot and Sclerotinia blight is demonstrated. These diseases pose a severe hazard to this major agricultural food commodity. The value of remote sensing technology in terrain analyses and land use classification of diverse land areas is also investigated. Continued refinement of spectral signatures of major agronomic crops and documentation of pertinent environmental variables have provided a data base for the generation of an agricultural-environmental prediction model.
Pettry, D. E.↗
General description and operation of the agro-environmental system: Crop management modeling
Input for a data management system to provide farmers with information to improve crop management practices in Virginia requires monitoring of control crops at field stations, crop surveys derived from remotely sensed aircraft data, meteorological data from synchronous satellites, and details of local agricultural conditions. Presently models are under development for determining pest problems, water balance in the soil, stages of plant maturity, and optimum planting date. The status of the Cerospora leafspot model for peanut crop management is considered. Other models under development planned relate to Cylindtocladium Blackrot and Sclerotinia blight of peanuts, cyst nematode (Globerdena solanacearum) of tobacco, and red crown rot of soybeans. A software for program for estimating precipitation and solar radiation on a statewise basis is also being developed.
Gross, E.↗
Growing root, tuber and nut crops hydroponically for CELSS
Among the crops selected by NASA for growth in controlled ecological life-support systems are four that have subsurface edible parts: potatoes, sweet potatoes, sugar beets and peanuts. These crops can be produced in open and closed (recirculating), solid media and liquid, hydroponic systems. Fluorescent, fluorescent plus incandescent, and high-pressure sodium-plus-metal-halide lamps have proven to be effective light sources. Continuous light with 16-C and 28/22-C (day/night) temperatures produce highest yields for potato and sweet potato, respectively. Dry weight yields of up to 4685, 2541, 1151 and 207 g/sq m for potatoes, sweet potatoes, sugar beets and peanuts, respectively, are produced in controlled environment hydroponic systems.
Hill, W. A.↗
Mechanical, Chemical and Microstructural Characterization of Monazite-Coated Silicon Carbide Fibers
Tensile strengths of as-received Hi-Nicalon and Sylramic fibers and those having monazite surface coatings, deposited by atmospheric pressure chemical vapor deposition, were measured at room temperature and the Weibull statistical parameters determined. The average tensile strengths of uncoated Hi-Nicalon and Sylramic fibers were 3.19 +/- 0.73 and 2.78 +/- 0.53 GPa with a Weibull modulus of 5.41 and 5.52, respectively. The monazite-coated Hi-Nicalon and Sylramic fibers showed strength loss of approx. 10 and 15 percent, respectively, compared with the as-received fibers. The elemental compositions of the fibers and the coatings were analyzed using scanning Auger microprobe and energy dispersive X-ray spectroscopy. The LaPO4 coating on Hi-Nicalon fibers was approximately stoichiometric and about 50 nm thick. The coating on the Sylramic fibers extended to a depth of about 100 to 150 nm. The coating may have been stoichiometric LaPO4 in the first 30 to 40 nm of the layer. However, the surface roughness of Sylramic fiber made this profile somewhat difficult to interpret. Microstructural analyses of the fibers and the coatings were done by scanning electron microscopy, transmission electron microscopy, and selected area electron diffraction. Hi-Nicalon fiber consists of fine beta-SiC nanocrystals ranging in size from 1 to 30 mn embedded in an amorphous matrix. Sylramic is a polycrystalline stoichiometric silicon carbide fiber consisting of submicron beta-SiC crystallites ranging from 100 to 300 nm. Small amount of TiB2 nanocrystallites (approx. 50 nm) are also present. The LaPO4 coating on Hi-Nicalon fibers consisted of a chain of peanut shape particles having monazite-(La) structure. The coating on Sylramic fibers consisted of two layers. The inner layer was a chain of peanut shape particles having monazite-(La) structure. The outer layer was comprised of much smaller particles with a microcrystalline structure.
Bansal, N. P.↗
Matching Crew Diet and Crop Food Production in BIO-Plex
This paper matches the BIO-Plex crop food production to the crew diet requirements. The expected average calorie requirement for BIO-Plex is 2,975 Calories per crewmember per day, for a randomly selected crew with a typical level of physical activity. The range of 2,550 to 3,400 Calories will cover about two-thirds of all crews. The exact calorie requirement will depend on the gender composition, individual weights, exercise, and work effort of the selected crew. The expected average crewmember calorie requirement can be met by 430 grams of carbohydrate, 100 grams of fat, and 90 grams of protein per crewmember per day, for a total of 620 grams. Some fat can replaced by carbohydrate. Each crewmember requires only 2 grams of vitamins and minerals per day. Only unusually restricted diets may lack essential nutrients. The Advanced Life Support (ALS) consensus is that BIO-Plex should grow wheat, potato, and soybean, and maybe sweet potato or peanut, and maybe lettuce and tomato. The BIO-Plex Biomass Production System food production and the external food supply must be matched to the crew diet requirement for calories and nutritional balance. The crop production and external supply specifications can each be varied as long as their sum matches the required diet specification. We have wide flexibility in choosing the crops and resupply. We can easily grow one-half the crew calories in one BIO-Plex Biomass Production Chamber (BPC) if we grow only the most productive crops (wheat, potato, and sweet potato) and it we achieve nominal crop productivity. If we assume higher productivity we can grow a wider variety of crops. If we grow one-half of the crew calories, externally supplied foods can easily provide the other half of the calories and balance the diet. We can not grow 95 percent of the crew calories in two BPCs at nominal productivity while growing a balanced diet. We produce maximum calories by growing wheat, potato, and peanut.
Jones, Harry↗
Space Technology for Medical Aids
Under one of the earliest contracts awarded in the Apollo lunar landing program, Parker Hannifin Corporation developed and produced equipment for controlling the flow of propellants into the mammoth engines of the Saturn moonbooster. Today, Parker is supplying the huge valves that control propellant flow from the Space Shuttle's external fuel tank to the engines of the Shuttle Orbiter as well as the "peanut valve," named for its small size. In 1977, NASA, recognizing the company's special expertise in miniature systems, asked Parker to participate in the development of an implantable artificial sphincter for control of urinary incontinence. The company's peanut valve experience provided an ideal base for a new biomedical project, the Programmable Implantable Medication System (PIMS) for continuous, computer-directed delivery of precisely metered medication -- insulin, for example -- within a patient's body. The work on PIMS also inspired development of Micromed, a related programmable medication device for external, rather than implantable use. The Biomedical Products Division has also applied its fluid handling expertise to a drugless therapy system called Cryomax for the treatment of such disorders as rheumatoid arthritis and lupus.
Source record↗
Economic Impact of Water Allocation on Agriculture in the Lower Chattahoochee River Basin
The relative value of irrigation water was assessed for three important crops (corn, cotton, and peanuts) grown in the southeastern United States. A decision tool was developed with the objective of allocating limited available water among competing crops in a manner that would maximize the economic returns to the producers. The methodology was developed and tested for a hypothetical farm located in Henry County, Alabama in the Chattahoochee river basin. Crop yield - soil moisture response functions were developed using Monte Carlo simulated data for cotton, corn, and peanuts. A hydrologic model was employed to simulate runoff over the period of observed rainfall the county to provide inflows to storage facilities that could be used as constraints for the optimal allocation of the available water in the face of the uncertainty of future rainfall and runoff. Irrigation decisions were made on a weekly basis during the critical water deficit period in the region. An economic optimization model was employed with the crop responses, and soil moisture functions to determine the optimum amount of water place on each crop subject to the amount of irrigation water availability and climatic uncertainty. The results indicated even small amounts of irrigation could significantly benefit farmers in the region if applied judiciously. A weekly irrigation sequence was developed that maintained the available water on the crops that exhibited the most significant combination of water sensitivity and cash value.
Limaye, Ashutosh S.↗
Foods for a Mission to Mars: Equivalent System Mass and Development of a Multipurpose Small-Scale Seed Processor
The candidate crops for planetary food systems include: wheat, white and sweet potatoes, soybean, peanut, strawberry, dry bean including le ntil and pinto, radish, rice, lettuce, carrot, green onion, tomato, p eppers, spinach, and cabbage. Crops such as wheat, potatoes, soybean, peanut, dry bean, and rice can only be utilized after processing, while others are classified as ready-to-eat. To process foods in space, the food processing subsystem must be capable of producing a variety of nutritious, acceptable, and safe edible ingredients and food produ cts from pre-packaged and resupply foods as well as salad crops grown on the transit vehicle or other crops grown on planetary surfaces. D esigning, building, developing, and maintaining such a subsystem is b ound to many constraints and restrictions. The limited power supply, storage locations, variety of crops, crew time, need to minimize waste , and other equivalent system mass (ESM) parameters must be considere d in the selection of processing equipment and techniques.
Gandolph, J.↗
Effects of gamma-Radiation on Select Lipids and Antioxidants
Radiation encountered on an extended duration space mission (estimates of 3 Sieverts for a mission to Mars) poses a threat not only to human health, but also to the quality, nutritional value, and palatability of the food system. Free radicals generated by radiation interaction with foods may initiate many unwanted reactions including: 1) autoxidation in lipids that alters flavor, odor, and concentrations of essential fatty acids, and 2) depletion of antioxidants food products and dietary supplements. Studies have shown that antioxidants may provide long term health protection from oxidative stress caused by radiation exposure; therefore, consumption of antioxidants will be important. Stability of essential fatty acids is also important for astronauts long-term health status. The objectives of this study were to characterize the effects of low dose gamma-radiation on lipids and antioxidants by monitoring oxidation and reducing power, respectively, in model systems. Select oils and antioxidants were exposed to levels of gamma-radiation ranging from 0 to 1000 Gy (1 Gy = 1 Sv) using a Gammacell 220 and stored at ambient or elevated temperatures (65 C) for up to 3 months prior to analysis. A Fricke dosimeter was used to verify differences between the radiation doses administered. Primary and secondary products of lipid oxidation in soybean and peanut oils were monitored using conjugated diene and 2-thiobarbituric acid (TBARs) assays. Changes in fatty acid composition and formation and vitamin E levels were also measured. The reducing power of antioxidant compounds, including vitamins C and E and beta-carotene, was determined using the ferric reducing antioxidant power (FRAP) assay. Significant differences (alpha =0.05) were present between all radiation doses tested using the Fricke dosimeter. Increasing radiation doses above 3 Sv resulted in significantly (alpha =0.05) elevated levels of oxidation and free fatty acids in soybean and peanut oils. Decreases in concentrations of essential fatty acids upon increasing radiation doses were also observed. Increasing radiation doses caused significant (alpha =0.05) decreases in reducing power and hence the effectiveness of vitamins C and E as well as beta-carotene. This work establishes a need for quantifying the effects of space relevant radiation doses in the development of a food system for an extended duration mission and for identifying threshold radiation levels that will impact the useful shelf-life of the variety of foods that will be sent. Eventual rancidity of lipids and the loss of antioxidant bioprotective effects are major concerns for the acceptability and nutritional profile of a food system.
Gandolph, Jacob↗
Modeling Farmers’ Adoption Potential to New Bioenergy Crops: An Agent-Based Approach
The use of fossil fuels is the primary source of greenhouse gas emissions but there are alternatives to these especially in the form of biofuels, fuels derived from bioenergy crops. This paper aims to determine farmers’ potential adoption rates of newly introduced bioenergy crops with a specific example of carinata in the state of Georgia. The determination is done using an agent-based modeling technique with two principal assumptions—farmers are profit maximizer and they are influenced by neighboring farmers. Two diffusion parameters (traditional and expansion) are followed along with two willingness (high and low) scenarios to switch at varying production economics to carinata and other prominent traditional field crops (cotton, peanuts, corn) in the study region. We find that a contract prices around $9, $8 and $7 can be a viable option for encouraging farmers to adopt carinata in low, average, and high profit conditions, respectively. Expansion diffusion (that diffuses all over the geographical area), rather than centered to the few places like traditional diffusion at the early stage of adoption in conjunction with higher willingness conditions influences higher adoption rates in the short-term. As such, the model can be used to understand the behavioral economics of carinata in Georgia and beyond, as well as offering a potential tool to study similar bioenergy crops.
Ullah, Kazi↗