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Category: Publications: Environmental Laboratory (EL)
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  • Analysis of Vegetation as Terrain: The “How” and “Why” of US Army Doctrine

    Abstract: There is a significant knowledge gap for Army doctrine concerning civilian research scientists. A relatively small number of soldiers make the transition from warfighter to research and development at the basic and applied levels. That number is even less when considering former warfighters that have applied Army doctrine in an operational or advanced Army schooling environment. This special report is intended to focus solely on the Army’s current capabilities and doctrinally defined processes to analyze vegetation as an essential component of the natural terrain. The objective of this report is to review current Army doctrine related to analysis of the vegetated terrain; to explore currently leveraged tactics, techniques, and procedures (TTPs); and identify valuable geospatial resources as they apply to military planning. For ease to readers unfamiliar with US Army doctrine, much of the referenced material is directly presented herein as tables and figures throughout the document and appendices (e.g., data sources, product examples, and glossary).
  • Hurdles to Beneficial Use of Dredged Material: Root Cause Analysis

    Purpose: This technical note (TN) summarizes high points of an internal review of US Army Corps of Engineers (USACE) dredging and dredged material management practices, specifically beneficial use of dredged material (BUDM), that USACE manages from various navigation channels and ports around the nation.
  • Ecological Model to Evaluate Borrow Areas in the Lower Mississippi River

    Abstract: An aquatic analysis of constructing borrow areas adjacent to the main line levees in the Lower Mississippi River was conducted as part of an Environmental Impact Statement for upgrading the levee system. A Habitat Suitability Index (HSI) regression model based on field collections was developed to predict fish species richness as a function of the morphometry and water quality of borrow areas. The HSI score was multiplied by acres of borrow areas created during construction to obtain habitat units (HUs) for each alternative indicating a substantial gain of fishery habitat in the floodplain. Environmental features identified by the model to increase fish species richness and overall habitat heterogeneity include the shape of the pit (e.g., bowl-shaped with deep water rather than long rectangular with shallower water), the availability of littoral areas for fish spawning and rearing, using best management practices such as tree screens and bank stabilization to lower turbidity, adding islands, and creating sinuous shorelines. The project results in an overall gain in aquatic habitat by creating permanent or semi-permanent water bodies on the floodplain that our research indicates may be occupied by at least 75 species of fish contributing to the overall biodiversity of the lower Mississippi River.
  • 2D Fluorinated Graphene Oxide (FGO)-Polyethyleneimine (PEI) Based 3D Porous Nanoplatform for Effective Removal of Forever Toxic Chemicals, Pharmaceutical Toxins, and Waterborne Pathogens from Environmental Water Samples

    Abstract: Although water is essential for life, as per the United Nations, around 2 billion people in this world lack access to safely managed drinking water services at home. Herein we report the development of a two-dimensional (2D) fluorinated graphene oxide (FGO) and polyethylenimine (PEI) based three-dimensional (3D) porous nanoplatform for the effective removal of polyfluoroalkyl substances (PFAS), pharmaceutical toxins, and waterborne pathogens from contaminated water. Experimental data show that the FGO-PEI based nanoplatform has an estimated adsorption capacity (qm) of ∼219 mg g−1 for perfluorononanoic acid (PFNA) and can be used for 99% removal of several short- and long-chain PFAS. A comparative PFNA capturing study using different types of nanoplatforms indicates that the qm value is in the order FGO-PEI > FGO > GO-PEI, which indicates that fluorophilic, electrostatic, and hydrophobic interactions play important roles for the removal of PFAS. Reported data show that the FGO-PEI based nanoplatform has a capability for 100% removal of moxifloxacin antibiotics with an estimated qm of ∼299 mg g−1. Furthermore, because the pore size of the nanoplatform is much smaller than the size of pathogens, it has a capability for 100% removal of Salmonella and Escherichia coli from water. Moreover, reported data show around 96% removal of PFAS, pharmaceutical toxins, and pathogens simultaneously from spiked river, lake, and tap water samples using the nanoplatform.
  • Assessing the Genetic Diversity of Nymphoides peltata in the Native and Adventive Range Using Microsatellite Markers

    Abstract: Nymphoides peltata (yellow floatingheart), native to Eurasia, is an invasive plant in the USA, where it grows in relatively isolated but widespread populations. The species is capable of sexual reproduction by seed and asexual reproduction through fragmentation. Although N. peltata is recognized as a noxious weed, little is known about its geographic region of origin or its dispersal mechanisms and relative amount of genetic variation in its adventive range. We conducted a genetic analysis of N. peltata by studying 68 localities across the native range and 47 localities in the adventive range, using microsatellite markers to determine genetic variability within and among populations, and to infer regions in the native range from which invasive plants originated. A large number of sites in the USA were genetically identical to one another, and there were two predominant multilocus allele phenotypes that were distributed in the northern and southern latitudes, respectively. Additional USA sites were similar to one of the predominant genetic profiles, with greater genetic diversity in southern populations. The genetically identical sites are consistent with asexual spread, potentially via anthropogenic mechanisms. Plants across the USA range were observed to produce viable seeds, and some genetic variation could be explained by sexual reproduction. All USA plants were more similar to plants in Europe than they were to plants in Asia, indicating that the plants likely were introduced originally from Europe. The existence of two genetic clusters and their similarity to plants in different parts of Europe constitute evidence for at least two N. peltata introductions into the USA.
  • Deep Learning Methods for Omics Data Imputation

    Abstract: One common problem in omics data analysis is missing values, which can arise due to various reasons, such as poor tissue quality and insufficient sample volumes. Instead of discarding missing values and related data, imputation approaches offer an alternative means of handling missing data. However, the imputation of missing omics data is a non-trivial task. Difficulties mainly come from high dimensionality, non-linear or non-monotonic relationships within features, technical variations introduced by sampling methods, sample heterogeneity, and the non-random missingness mechanism. Several advanced imputation methods, including deep learning-based methods, have been proposed to address these challenges. Due to its capability of modeling complex patterns and relationships in large and high-dimensional datasets, many researchers have adopted deep learning models to impute missing omics data. This review provides a comprehensive overview of the currently available deep learning-based methods for omics imputation from the perspective of deep generative model architectures such as autoencoder, variational autoencoder, generative adversarial networks, and Transformer, with an emphasis on multi-omics data imputation. In addition, this review also discusses the opportunities that deep learning brings and the challenges that it might face in this field.
  • Overview of Microscale Analytical Methods for the Quantitative Detection of Bioaccumulative Contaminants in Small Tissue Masses

    Abstract: For many bioaccumulation studies, generation of large sample masses of exposed organisms is challenging or even prohibitive. Therefore, the use of smaller sample masses for analysis without compromising data quality or quantitative level achieved is desirable. To this end, a variety of microanalytical procedures have been developed that used 1 g or less of tissue to address specific experimental challenges. However, these methods have not been systematically evaluated or published. The present work evaluates the current state of the microanalytical methods reported and identifies additional needs that would benefit US Army Corps of Engineers (USACE) research and navigation dredging programs. Discussions with commercial laboratories revealed that they typically do not accept small sample masses and require individual sample masses ranging from 10 to 20 g wet weight of tissue per analysis. If they do analyze a small mass sample, they routinely do not modify their standard process, resulting in detection and reporting limits orders of magnitude higher; therefore, essentially useless nondetect data are generated for regulatory decisions. To address the lack of commercial availability of microanalytical methods, we recommend pursuing method development and subsequent validation of microscale extraction and analysis of a variety of common contaminant compounds in tissue matrices.
  • USACE Freshwater Harmful Algal Bloom Research and Development Initiative

    Abstract: Harmful Algal Blooms (HABs) represent a significant and costly threat to our nation’s economy and natural resources. This report outlines the US Army Corps of Engineers, Engineer Research and Development Center’s (USACE-ERDC’s) approach to deliver scalable technologies for prevention, early detection, and management of HABs to reduce HAB event frequency, severity, and duration.
  • Framework Development for Rapid Assessment and Economic Valuation of Feral Swine Damage to Wetland Terrain: A Pilot Study at US Army Corps of Engineers–Somerville Lake, Texas

    Abstract: The increased spread and presence of feral swine on sensitive natural resources landscapes like wetlands has become a considerable concern on lands managed by the US Army Corps of Engineers. In August 2021 a pilot study was carried out at Somerville Lake, Texas, as the first step in a three-year research plan to develop an ecological-economic framework for feral swine damage assessments (FSDA) and valuation. The study sought to quantify and value soil disturbance caused by feral swine trampling, rooting, and wallowing on wetland soils. The primary objective—to develop and test a rapid FSDA prototype—was achieved and represents an important first step to creating a quick and user-friendly damage-assessment framework that also estimates the economic value of the damage observed. With continued testing and development, this rapid FSDA protocol will be of use to all who manage feral swine impacts on landscapes with wetland ecosystems, and findings from this information will be of use for scientifically informed cost-benefit analysis and management decision-making.
  • Considerations for Integrating Ecological and Hydrogeomorphic Models: Developing a Comprehensive Marsh Vegetation Model

    PURPOSE: Predictive models for salt marsh management require a systems perspective that recognizes the dynamic interactions between physical and ecological processes. It is critical to link physical process and landscape evolution models to quantify hydro-eco-geomorphic feedbacks in marsh environments. A framework that explicitly defines how to integrate these disparate models is a necessary step towards developing a comprehensive marsh model. This technical note (TN) proposes an approach to integrate existing hydrodynamic and geomorphic models with a mechanistic vegetation model into a coupled framework to better simulate salt marsh evolution.