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At least 73 records · Page 4

Maize ANT1 modulates vascular development, chloroplast development, photosynthesis, and plant growth

Arabidopsis AINTEGUMENTA (ANT), an AP2 transcription factor, is known to control plant growth and floral organogenesis. In this study, our transcriptome analysis and in situ hybridization assays of maize embryonic leaves suggested that maize ANT1 (ZmANT1) regulates vascular development. To better understand ANT1 functions, we determined the binding motif of ZmANT1 and then showed that ZmANT1 binds the promoters of millet SCR1, GNC, and AN3, which are key regulators of Kranz anatomy, chloroplast development, and plant growth, respectively. We generated a mutant with a single-codon deletion and two frameshift mutants of the ANT1 ortholog in the C4 millet Setaria viridis by the CRISPR/Cas9 technique. The two frameshift mutants displayed reduced photosynthesis efficiency and growth rate, smaller leaves, and lower grain yields than wild-type (WT) plants. Moreover, their leaves sporadically exhibited distorted Kranz anatomy and vein spacing. Conducting transcriptomic analysis of developing leaves in the WT and the three mutants we identified differentially expressed genes (DEGs) in the two frameshift mutant lines and found many down-regulated DEGs enriched in photosynthesis, heme, tetrapyrrole binding, and antioxidant activity. In addition, we predicted many target genes of ZmANT1 and chose 13 of them to confirm binding of ZmANT1 to their promoters. Based on the above observations, we proposed a model for ANT1 regulation of cell proliferation and leaf growth, vascular and vein development, chloroplast development, and photosynthesis through its target genes. Furthermore, our study revealed biological roles of ANT1 in several developmental processes beyond its known roles in plant growth and floral organogenesis.

59 BASIC BIOLOGICAL SCIENCES↗

Lessons Learned from US Experience with Biofuels: Comparing the Hype with the Evidence

Biofuel production in the United States, primarily from corn, has more than doubled since 2007, leading to concerns about its unintended consequences for agricultural and fuel markets. To examine the validity of these concerns and inform the debate about biofuels and their impacts, we review ex ante projections and ex post evidence of the effects of biofuels on land use, food and fuel prices, and greenhouse gas (GHG) emissions. We find that biofuels expansion contributed to an initial significant increase in agricultural commodity prices, but these impacts have dissipated over time as crop productivity has increased and cropping patterns have changed. Simulated estimates of indirect land use change and the related GHG emissions intensity of biofuels have also declined sharply from their early levels, which is consistent with ex post evidence. Additionally, growth in biofuel production caused a very modest reduction in fossil fuel prices, implying a small fuel rebound effect. Overall, estimates imply that first-generation biofuels from corn have a lower carbon intensity than gasoline. Lastly, learning by doing, economies of scale, and technological improvements have made biofuels from corn increasingly competitive, reducing the need for subsidies and import tariffs. We conclude with a discussion of the lessons learned from the US biofuels experience.

09 BIOMASS FUELS↗

Advances in understanding the changes of tropical rainfall annual cycle: a review

Abstract Aided by progress in the theoretical understanding, new knowledge on tropical rainfall annual cycle changes under a global warming background has been advanced in the past decade. In this review, we focus on recent advances in understanding the changes of tropical rainfall annual cycle, including its four distinct features: amplitude, spatial pattern shift, phase and wet/dry season length changes. Here, amplitude refers to the local summer-winter rainfall contrast and phase refers to the timing of rainfall annual cycle. In a warming climate, the amplitude is enhanced, more evidently over ocean, while the phase is delayed, mainly over land. The former is explained by the wet-get-wetter mechanism and the latter is explained by the enhanced effective atmospheric heat capacity and increased convective barrier. The phase delay over land has already emerged in the past four decades. The spatial pattern shift under warming is marked by two features: equatorward shift of the ITCZ throughout the year and the land-to-ocean precipitation shift in the rainy season. The former is explained by the upped-ante mechanism and/or related to the enhanced equatorial warming in a warmer world. The latter may be caused by the opposite land and ocean surface temperature annual cycle changes in the tropics. Over tropical rainforest regions such as Amazon and Congo Basin, the dry season has lengthened in the recent decades, but the fundamental reason is still unclear. Despite the notable progress in the research of tropical rainfall annual cycle change, many gaps remain in understanding its mechanisms, quantifying and attributing its historical emergence, narrowing the inter-model uncertainty of its future projections, and evaluating its global impact, motivating future work guided by some directions proposed in this review.

Song, Fengfei (ORCID:0000000230041749)↗

Motility-induced phase separation and frustration in active matter swarmalators

Here we introduce a two dimensional system of active matter swarmalators composed of elastically interacting run-and-tumble active disks with an internal parameter Φ i . The disks experience an additional attractive or repulsive force with neighboring disks depending upon their relative difference in Φ i , making them similar to swarmalators used in robotic systems. In the absence of the internal parameter, the system forms a motility-induced phase separated (MIPS) state, but when the swarmalator interactions are present, a wide variety of other active phases appear depending upon whether the interaction is attractive or repulsive and whether the particles act to synchronize or ant-synchronize their internal parameter values. These phases include a gas-free gel regime, arrested clusters, a labyrinthine state, a regular MIPS state, a frustrated MIPS state for attractive antisynchronization, and a superlattice MIPS state for attractive synchronization.

97 MATHEMATICS AND COMPUTING↗

Network-Aware and Welfare-Maximizing Dynamic Pricing for Energy Sharing

The proliferation of behind-the-meter (BTM) distributed energy resources (DER) within the electrical distribution network presents significant supply and demand flexibilities, but also introduces operational challenges such as voltage spikes and reverse power flows. In response, this paper proposes a network-aware dynamic pricing framework tailored for energy-sharing coalitions that aggregate small, but ubiquitous, BTM DER downstream of a distribution system operator's (DSO) revenue meter that adopts a generic net energy metering (NEM) tariff. By formulating a Stackelberg game between the energy-sharing market leader and its prosumers, we show that the dynamic pricing policy induces the prosumers toward a network-safe operation and decentrally maximizes the energysharing social welfare. The dynamic pricing mechanism involves a combination of a locational ex-ante dynamic price and an ex-post allocation, both of which are functions of the energy sharing's BTM DER. The ex-post allocation is proportionate to the price differential between the DSO NEM price and the energy-sharing locational price. Simulation results using real DER data and the IEEE 13-bus test systems illustrate the dynamic nature of network-aware pricing at each bus, and its impact on voltage.

aggregates↗

Rethinking the Price Formation Problem–Part 2: Rewarding Flexibility and Managing Price Risk

In this study, part 1 of this two-part paper describes the impact that uncertainty has on the design and analysis of price formation policies in the non-convex auctions conducted by U.S. wholesale electricity market operators. Using first a toy model and then a large-scale test system, Part 2 demonstrates the difference in prices under the idealized benchmark of ex ante convex hull pricing defined in Part 1 versus existing methods, in particular documenting the potential for suppression of volatility and therefore under-compensation of flexibility by existing methods. The examples highlight that inefficient spot price formation can induce inefficient forward commitments of generators, necessitating out-of-market intervention to restore a reliable and efficient operating plan.Given the potential side effects of existing policies for investment and operation, we suggest two elements in a reoriented approach to the price formation problem: first ensuring that prices exhibit full-strength volatility, and second ensuring that risk-averse market participants have sufficient ability to manage this volatility.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Rethinking the Price Formation Problem–Part 1: Participant Incentives under Uncertainty

Operators of organized wholesale electricity markets attempt to form prices in such a way that the private incentives of market participants are consistent with a socially optimal commitment and dispatch schedule. In the U.S. context, several competing price formation schemes have been proposed to address the non-convex production cost functions characteristic of most generation technologies. Here, this paper considers how the design and analysis of price formation policies for non-convex markets are affected by the uncertainty inherent in electricity demand and supply. We argue that by excluding uncertainty, the analytical framework underlying existing policies mischaracterizes the incentives of market participants, leading to inefficient price formation and poor incentives for flexibility. We establish favorable theoretical properties of a new construct, ex ante convex hull pricing , and demonstrate the difference between this idealized benchmark and existing methods on a large-scale test system. Given increased operational uncertainty with a transition to wind and solar generation, distortions caused by poor incentives for flexibility are likely to grow without improved price formation in organized wholesale markets.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Organic carbon enables the biotic engineering of beneficial soil structure in Profundihumic and Haplic Ferralsols

We investigated how organic matter may, directly and indirectly, modify the porosity of Ferralsols, that is, deeply weathered soils of the tropics and subtropics. Although empirical and anecdotal evidence suggests that organic matter accumulation may increase porosity, a mechanistic understanding of the processes underlying this beneficial effect is lacking, especially so for Ferralsols. To achieve our end, we leveraged the fact that the Profundihumic qualifier of Ferralsols (PF) is distinguished from Haplic Ferralsols (HF) by both a much larger average carbon content in the first 1 m of soil depth (19 kg C m -3 in PF vs. 10 kg C m -3 in HF) and a significantly lower bulk density (1.05 ± 0.08 kg L -1 in PF vs. 1.21 ± 0.05 kg L -1 in HF). Through exhaustive modelling of carbon – bulk density relationships, we demonstrate that the lower bulk density of PF cannot be satisfactorily explained by a simple dilution effect. Rather, we found that bulk density correlated with carbon content when combined with carbon: nitrogen ratio (r 2 = 0.51), black carbon content (r 2 = 0.75), and Δ 14 C (r 2 =0.81). Total pore space was greater in PF (61± 3%) than in HF (55 ± 2%), but x-ray computed tomography revealed that pore space inside soil aggregates of 4–5 mm diameter does not vary between the studied Ferralsols. We further observed nearly twice as many roots and burrows in PF compared with HF. We thus infer that the mechanism responsible for the increase in porosity is most likely an enhancement of resource availability (e.g., energy, carbon, and nutrients) for the organisms (earthworms, ants, termites, etc.) that physically displace soil particles and promote soil aggregation. As a result of increased resource availability, soil organisms can create especially the mesoscale structural soil features necessary for unrestricted water flow and rapid gas exchange. In conclusion, this insight paves the way for the development of land management technologies to optimize the physical shape and capacity of the soil bioreactor.

54 ENVIRONMENTAL SCIENCES↗

Symbiont-Mediated Digestion of Plant Biomass in Fungus-Farming Insects

Feeding on living or dead plant material is widespread in insects. Seminal work on termites and aphids has provided profound insights into the critical nutritional role that microbes play in plant-feeding insects. Here, some ants, beetles, and termites, among others, have evolved the ability to use microbes to gain indirect access to plant substrate through the farming of a fungus on which they feed. Recent genomic studies, including studies of insect hosts and fungal and bacterial symbionts, as well as metagenomics and proteomics, have provided important insights into plant biomass digestion across insect–fungal mutualisms. Not only do advances in understanding of the divergent and complementary functions of complex symbionts reveal the mechanism of how these herbivorous insects catabolize plant biomass, but these symbionts also represent a promising reservoir for novel carbohydrate-active enzyme discovery, which is of considerable biotechnological interest.

59 BASIC BIOLOGICAL SCIENCES↗

DISTRI: Distributed Multi-Facility HPC Simulator (DISTRI) v2.1

DISTRI is an advanced network simulator designed for multi-facility computational infrastructures with agentic behavior. It simulates HPC facilities where computational resources act as autonomous agents, making intelligent decisions about job scheduling, load balancing, and resource allocation. The simulator focuses on developing and testing decentralized algorithms that promote resilience and efficiency in multi-facility environments. Key Features: - Agentic Resource Behavior: Processors and DTNs act as autonomous agents with decision-making capabilities - Pheromone-Based Load Balancing: Decentralized load balancing inspired by ant colony optimization - Dual Topology Support: Mesh (normal operations) and Dumbell (network testing) topologies - Comprehensive TCP Simulation: Realistic TCP implementations with multiple congestion control algorithms - Failure Resilience Testing: Processor failure simulation with automatic job reassignment - Extensive Visualization: Detailed performance analysis and metrics collection - Research-Ready: Designed for algorithm development and benchmarking

Bez, Jean Luca [Lawrence Berkeley National Laborat↗

Production of ent-kaurene from lignocellulosic hydrolysate in Rhodosporidium toruloides

Abstract Background Rhodosporidium toruloides has emerged as a promising host for the production of bioproducts from lignocellulose, in part due to its ability to grow on lignocellulosic feedstocks, tolerate growth inhibitors, and co-utilize sugars and lignin-derived monomers. Ent -kaurene derivatives have a diverse range of potential applications from therapeutics to novel resin-based materials. Results The Design, Build, Test, and Learn (DBTL) approach was employed to engineer production of the non-native diterpene ent -kaurene in R. toruloides . Following expression of kaurene synthase (KS) in R. toruloides in the first DBTL cycle, a key limitation appeared to be the availability of the diterpene precursor, geranylgeranyl diphosphate (GGPP). Further DBTL cycles were carried out to select an optimal GGPP synthase and to balance its expression with KS, requiring two of the strongest promoters in R. toruloides , ANT (adenine nucleotide translocase) and TEF1 (translational elongation factor 1) to drive expression of the KS from Gibberella fujikuroi and a mutant version of an FPP synthase from Gallus gallus that produces GGPP. Scale-up of cultivation in a 2 L bioreactor using a corn stover hydrolysate resulted in an ent -kaurene titer of 1.4 g/L. Conclusion This study builds upon previous work demonstrating the potential of R. toruloides as a robust and versatile host for the production of both mono- and sesquiterpenes, and is the first demonstration of the production of a non-native diterpene in this organism.

59 BASIC BIOLOGICAL SCIENCES↗

Synthesis of Seismic Methods in Southern Kansas (Milestone G)

We proposed to conduct the following activities in Budget Period 2 with respect to Task 2.1 of the overall project management plan: 1) Local SWS using microseismicity catalog. 2) Continuation of VSM analysis. 3) Synthesis of seismic data and uncertainty analyses. Milestone G: Apply ANT, VSM, and SWS methods to Kansas microseismicity catalog. Calculate 3D model and moment tensor elements and meet milestone E.

58 GEOSCIENCES↗

Prairie Strips and Lower Land Use Intensity Increase Biodiversity and Ecosystem Services

Agricultural landscapes can be managed to protect biodiversity and maintain ecosystem services. One approach to achieve this is to restore native perennial vegetation within croplands. Where rowcrops have displaced prairie, as in the US Midwest, restoration of native perennial vegetation can align with crops in so called “prairie strips.” We tested the effect of prairie strips in addition to other management practices on a variety of taxa and on a suite of ecosystem services. To do so, we worked within a 33-year-old experiment that included treatments that varied methods of agricultural management across a gradient of land use intensity. In the two lowest intensity crop management treatments, we introduced prairie strips that occupied 5% of crop area. We addressed three questions: (1) What are the effects of newly established prairie strips on the spillover of biodiversity and ecosystem services into cropland? (2) How does time since prairie strip establishment affect biodiversity and ecosystem services? (3) What are the tradeoffs and synergies among biodiversity conservation, non-provisioning ecosystem services, and provisioning ecosystem services (crop yield) across a land use intensity gradient (which includes prairie strips)? Within prairie strip treatments, where sampling effort occurred within and at increasing distance from strips, dung beetle abundance, spider abundance and richness, active carbon, decomposition, and pollination decreased with distance from prairie strips, and this effect increased between the first and second year. Across the entire land use intensity gradient, treatments with prairie strips and reduced chemical inputs had higher butterfly abundance, spider abundance, and pollination services. In addition, soil organic carbon, butterfly richness, and spider richness increased with a decrease in land use intensity. Crop yield in one treatment with prairie strips was equal to that of the highest intensity management, even while including the area taken out of production. We found no effects of strips on ant biodiversity and greenhouse gas emissions (N 2 O and CH 4 ). Our results show that, even in early establishment, prairie strips and lower land use intensity can contribute to the conservation of biodiversity and ecosystem services without a disproportionate loss of crop yield.

54 ENVIRONMENTAL SCIENCES↗

Shed Light in the DaRk LineagES of the Fungal Tree of Life—STRES

The polyphyletic group of black fungi within the Ascomycota (Arthoniomycetes, Dothideomycetes, and Eurotiomycetes) is ubiquitous in natural and anthropogenic habitats. Partly because of their dark, melanin-based pigmentation, black fungi are resistant to stresses including UV- and ionizing-radiation, heat and desiccation, toxic metals, and organic pollutants. Consequently, they are amongst the most stunning extremophiles and poly-extreme-tolerant organisms on Earth. Even though ca. 60 black fungal genomes have been sequenced to date, [mostly in the family Herpotrichiellaceae (Eurotiomycetes)], the class Dothideomycetes that hosts the largest majority of extremophiles has only been sparsely sampled. By sequencing up to 92 species that will become reference genomes, the “Shed light in The daRk lineagES of the fungal tree of life” (STRES) project will cover a broad collection of black fungal diversity spread throughout the Fungal Tree of Life. Interestingly, the STRES project will focus on mostly unsampled genera that display different ecologies and life-styles (e.g., ant- and lichen-associated fungi, rock-inhabiting fungi, etc.). With a resequencing strategy of 10- to 15-fold depth coverage of up to ~550 strains, numerous new reference genomes will be established. To identify metabolites and functional processes, these new genomic resources will be enriched with metabolomics analyses coupled with transcriptomics experiments on selected species under various stress conditions (salinity, dryness, UV radiation, oligotrophy). The data acquired will serve as a reference and foundation for establishing an encyclopedic database for fungal metagenomics as well as the biology, evolution, and ecology of the fungi in extreme environments.

59 BASIC BIOLOGICAL SCIENCES↗

Variable Stars in the Giant Satellite Galaxy Antlia 2

We report 350 pulsating variable stars found in four DECam fields (~12 deg 2 ) covering the Antlia 2 satellite galaxy. The sample of variables includes 318 RR Lyrae stars and eight anomalous Cepheids in the galaxy. Reclassification of several objects designated previously to be RR Lyrae as anomalous Cepheids get rid of the satellite's stars intervening along the line of sight. This in turn removes the need for prolific tidal disruption of the dwarf, in agreement with the recently updated proper motion and pericenter measurements based on Gaia EDR3. There are also several bright foreground RR Lyrae stars in the field, and two distant background variables located ~45 kpc behind Antlia 2. We found RR Lyrae stars over the full search area, suggesting that the galaxy is very large and likely extends beyond our observed area. The mean period of the RRab in Antlia 2 is 0.599 days, while the RRc have a mean period of 0.368 days, indicating the galaxy is an Oosterhoff-intermediate system. The distance to Antlia 2 based on the RR Lyrae stars is 124.1 kpc (μ 0 = 20.47) with a dispersion of 5.4 kpc. We measured a clear distance gradient along the semimajor axis of the galaxy, with the southeast side of Antlia 2 being ~13 kpc farther away from the northwest side. This elongation along the line of sight is likely due to the ongoing tidal disruption of Ant 2.

79 ASTRONOMY AND ASTROPHYSICS↗

Proper Motions, Orbits, and Tidal Influences of Milky Way Dwarf Spheroidal Galaxies

We combine Gaia early data release 3 astrometry with accurate photometry and utilize a probabilistic mixture model to measure the systemic proper motion of 52 dwarf spheroidal (dSph) satellite galaxies of the Milky Way (MW). For the 46 dSphs with literature line-of-sight velocities we compute orbits in both a MW and a combined MW + Large Magellanic Cloud (LMC) potential and identify Car II, Car III, Hor I, Hyi I, Phx II, and Ret II as likely LMC satellites. 40% of our dSph sample has a >25% change in pericenter and/or apocenter with the MW + LMC potential. For these orbits, we use a Monte Carlo sample for the observational uncertainties for each dSph and the uncertainties in the MW and LMC potentials. We predict that Ant II, Boo III, Cra II, Gru II, and Tuc III should be tidally disrupting by comparing each dSph's average density relative to the MW density at its pericenter. dSphs with large ellipticity (CVn I, Her, Tuc V, UMa I, UMa II, UMi, Wil 1) show a preference for their orbital direction to align with their major axis even for dSphs with large pericenters. We compare the dSph radial orbital phase to subhalos in MW-like N-body simulations and infer that there is not an excess of satellites near their pericenter. With projections of future Gaia data releases, we find that dSph's orbital precision will be limited by uncertainties in the distance and/or MW potential rather than in proper motion precision. Finally, we provide our membership catalogs to enable community follow-up.

79 ASTRONOMY AND ASTROPHYSICS↗

kemmerl4/LTER_prairie_strip_2019-2020: Data for: Prairie strips and lower land use intensity increase biodiversity and ecosystem services

Agricultural landscapes can be managed to protect biodiversity and maintain ecosystem services. One approach to achieve this is to restore native perennial vegetation within croplands. Where rowcrops have displaced prairie, as in the US Midwest, restoration of native perennial vegetation can align with crops in so called “prairie strips.” We tested the effect of prairie strips in addition to other management practices on a variety of taxa and on a suite of ecosystem services. To do so, we worked within a 33-year-old experiment that included treatments that varied methods of agricultural management across a gradient of land use intensity. In the two lowest intensity crop management treatments, we introduced prairie strips that occupied 5% of crop area. We addressed three questions: (1) What are the effects of newly established prairie strips on the spillover of biodiversity and ecosystem services into cropland? (2) How does time since prairie strip establishment affect biodiversity and ecosystem services? (3) What are the tradeoffs and synergies among biodiversity conservation, non-provisioning ecosystem services, and provisioning ecosystem services (crop yield) across a land use intensity gradient (which includes prairie strips)? Within prairie strip treatments, where sampling effort occurred within and at increasing distance from strips, dung beetle abundance, spider abundance and richness, active carbon, decomposition, and pollination decreased with distance from prairie strips, and this effect increased between the first and second year. Across the entire land use intensity gradient, treatments with prairie strips and reduced chemical inputs had higher butterfly abundance, spider abundance, and pollination services. In addition, soil organic carbon, butterfly richness, and spider richness increased with a decrease in land use intensity. Crop yield in one treatment with prairie strips was equal to that of the highest intensity management, even while including the area taken out of production. We found no effects of strips on ant biodiversity and greenhouse gas emissions (N 2 O and CH 4 ). Our results show that, even in early establishment, prairie strips and lower land use intensity can contribute to the conservation of biodiversity and ecosystem services without a disproportionate loss of crop yield.

54 ENVIRONMENTAL SCIENCES↗