Digital Commons Network^™

Editorial: Structure And Function Of Trans-Membrane Proteins, Irena Roterman, Michal Brylinski, Fabio Polticelli, Alexandre G. De Brevern

Faculty Publications

No abstract provided.

Antioxidant Activity, Structural And Physical Properties Of Soy-Based Textured Vegetable Protein With Added Cannabis Leaves As Affected By Extrusion Process, Kamolwan Jangchud, Hataichanok Kantrong, Benjarat Tepsongkroh, Anuvat Jangchud, Khanchat Sangchum, Witoon Prinyawiwatkul

Faculty Publications

The effects of cannabis leaf powder substituted for defatted soy flour (CP; 0%, 5%, 10% and 15%) and the moisture content of the mixture (MC; 25%, 35% and 45% on a wet basis) on physical properties and antioxidant activities of textured vegetable protein (TVP) prepared using a twin-screw extruder were studied. Increasing CP and MC decreased expansion, resulting in small air cells within the structure, which, in turn, led to an increased bulk density and decreased water absorption capacity, water holding capacity and water solubility index. After rehydration, TVP with the higher CP and MC levels tended to exhibit higher …

Effect Of Beeswax Edible Film On Preservation Of Naem Product Quality During Storage, Duyen Bui, Wannee Tangkham, Frederick Lemieux, Oanh Vuong, Witoon Prinyawiwatkul, Zhimin Xu

Faculty Publications

Importance of the work: Beeswax (BW) could be a natural ingredient applied in edible packing film to effectively extend the shelf-life of Thai fermented sausage (‘Naem’). Objective: To evaluate the capability of edible films made from beeswax in extending the shelf-life of Naem. Materials & Methods: Naem samples were wrapped using one of four different film groups: polyvinyl chloride (PVC) or 0%, 1% or 3% BW. Changes were determined and compared in the pH, moisture content, color (L*, a* and b*), lipid oxidation and aerobic plate count (APC) and growth rates of lactic acid bacteria, Escherichia coli, Enterobacteriaceae, Staphylococcus spp. …

Characterization Of Rhizosphere Microbial Diversity And Selection Of Plant-Growth-Promoting Bacteria At The Flowering And Fruiting Stages Of Rapeseed, Mengjiao Wang, Haiyan Sun, Zhimin Xu

Faculty Publications

Plant rhizosphere microorganisms play an important role in modulating plant growth and productivity. This study aimed to elucidate the diversity of rhizosphere microorganisms at the flowering and fruiting stages of rapeseed (Brassica napus). Microbial communities in rhizosphere soils were analyzed via high-throughput sequencing of 16S rRNA for bacteria and internal transcribed spacer (ITS) DNA regions for fungi. A total of 401 species of bacteria and 49 species of fungi in the rhizosphere soil samples were found in three different samples. The composition and diversity of rhizosphere microbial communities were significantly different at different stages of rapeseed growth. Plant-growth-promoting rhizobacteria (PGPRs) …

Differential Effects Of Warming On The Complexity And Stability Of The Microbial Network In Phragmites Australis And Spartina Alterniflora Wetlands In Yancheng, Jiangsu Province, China, Lixin Pei, Siyuan Ye, Liujuan Xie, Pan Zhou, Lei He, Shixiong Yang, Xigui Ding, Hongming Yuan, Tianjiao Dai, Edward A. Laws

Faculty Publications

The impact of climate warming on soil microbial communities can significantly influence the global carbon cycle. Coastal wetlands, in particular, are susceptible to changes in soil microbial community structure due to climate warming and the presence of invasive plant species. However, there is limited knowledge about how native and invasive plant wetland soil microbes differ in their response to warming. In this study, we investigated the temporal dynamics of soil microbes (prokaryotes and fungi) under experimental warming in two coastal wetlands dominated by native Phragmites australis (P. australis) and invasive Spartina alterniflora (S. alterniflora). Our research indicated that short-term warming …

Promoting Equity And Addressing Concerns In Teaching And Learning With Artificial Intelligence, Jennifer Garcia Ramos, Zakiya Wilson-Kennedy

Faculty Publications

This perspective article focuses on the exploration and advocacy of approaches to be considered in designing equitable learning experiences for students’ use of artificial intelligence, machine learning, and technology through the Universal Design for Learning Framework (UDL) exemplifying chemistry examples that can be applied to any course in STEM. The use of artificial intelligence (AI) and machine learning are causing disruptions within learning in higher education and is also casting a spotlight on systemic inequities particularly affecting minoritized groups broadly and in STEM fields. Particularly, the emergence of AI has focused on inequities toward minoritized students in academic and professional …

The Future Of Attosecond Science, Nirit Dudovich, Li Fang, Mette Gaarde, Ursula Keller, Alexandra Landsman, Maria Richter, Nina Rohringer, Linda Young

Faculty Publications

Conferences are incredible opportunities to strengthen the inclusive outlook of our scientific community. The participation of female scientists, postdocs, and graduate students in the ATTO VIII conference was remarkable, with more than 40% of female invited speakers. The Local Organizing Committee seized this opportunity to promote an atmosphere that welcomes all. An entirely female evening panel, with experience across the attosecond science spectrum, was convened to explore the Future of Attosecond Science in the evening session of Wednesday, July 13. Furthermore, a booklet entitled Perspectives in Attosecond Science was compiled by Dr. Shima Gholam-Mirzaei of the University of Ottawa and …

The African Light Source: History, Context And Future, Simon H. Connell, Kathleen Dollman, Gihan Kamel, Sameen A. Khan, Edward Mitchell, Sekazi K. Mtingwa, Marcus C. Newton, Prosper Ngabonziza, Emmanuel Nji, Lawrence Norris, Michele Zema

Faculty Publications

The African Light Source (AfLS) project is now almost eight years old. This article assesses the history, current context and future of the project. There is by now considerable momentum in building the user community, including deep training, facilitating access to current facilities, growing the scientific output, scientific networks and growing the local laboratory-scale research infrastructure. The Conceptual Design Report for the AfLS is in its final editing stages. This document specifies the socio-economic and scientific rationales and the technical aspects amongst others. The AfLS is supported by many national and Pan-African scientific professional bodies and voluntary associates across many …

Iron–Sulfur Cluster Assembly Scaffold Protein Iscu Is Required For Activation Of Ferric Uptake Regulator (Fur) In Escherichia Coli, Huangen Ding

Faculty Publications

No abstract provided.

Editorial: Rising Stars In Systems Neuroscience: 2022, Mazyar Fallah, Juhee Haam, Ada Ledonne

Faculty Publications

No abstract provided.

Oxphos Capacity Is Diminished And The Phosphorylation System Inhibited During Diapause In An Extremophile, Embryos Of Artemia Franciscana, Yuvraj N. Patil, Erich Gnaiger, Alexander P. Landry, Zachary J. Leno, Steven C. Hand

Faculty Publications

Diapause exhibited by embryos of Artemia franciscana is accompanied by severe arrest of respiration. A large fraction of this depression is attributable to downregulation of trehalose catabolism that ultimately restricts fuel to mitochondria. This study now extends knowledge on the mechanism by revealing metabolic depression is heightened by inhibitions within mitochondria. Compared with that in embryo lysates during post-diapause, oxidative phosphorylation (OXPHOS) capacity P is depressed during diapause when either NADH-linked substrates (pyruvate and malate) for electron transfer (electron transfer capacity, E) through respiratory Complex I or the Complex II substrate succinate are used. When pyruvate, malate and succinate were …

Phosphatidic Acid Produced By Phospholipase Dα1 And Dδ Is Incorporated Into The Internal Membranes But Not Involved In The Gene Expression Of Rd29a In The Abscisic Acid Signaling Network In Arabidopsis Thaliana, Ruth Ndathe, Naohiro Kato

Faculty Publications

Core protein components of the abscisic acid (ABA) signaling network, pyrabactin resistance (PYR), protein phosphatases 2C (PP2C), and SNF1-related protein kinase 2 (SnRK2) are involved in the regulation of stomatal closure and gene expression downstream responses in Arabidopsis thaliana. Phosphatidic acid (PA) produced by the phospholipases Dα1 and Dδ (PLDs) in the plasma membrane has been identified as a necessary molecule in ABA-inducible stomatal closure. On the other hand, the involvement of PA in ABA-inducible gene expression has been suggested but remains a question. In this study, the involvement of PA in the ABA-inducible gene expression was examined in the …

Transcriptomic Responses To Hypoxia In Two Populations Of Eastern Oyster With Differing Tolerance, Emma L. Crable, Heather Rodriguez, Rujuta V. Vaidya, Nicholas Coxe, Jerome F. La Peyre, Morgan W. Kelly

Faculty Publications

The eastern oyster, Crassostrea virginica, is a keystone species native to the Gulf of Mexico and Atlantic coasts of the United States and Canada. It provides habitat for other marine organisms and makes up the majority of oyster production in the United States. Despite its tolerance to hypoxic conditions, C. virginica is threatened by anthropogenic climate change, which is increasing both average temperature and the frequency and severity of hypoxic events. In this study, we explore the differences in hypoxia-transcriptional response between two populations of eastern oysters with known differences in hypoxia tolerance at three time points over the course …

Deep Purple – An Open-Pollinated Variety To Induce Haploids In Tropical Maize, Roberto Fritsche-Neto, Felipe Sabadin, Evellyn Giselly De Oliveira Couto, Pedro Henrique De Souza, Filipe Couto Alves, Giovanni Galli, Ronaldo Borsato Junior, Julio Cesar Dovale, Karina Lima Reis Borges, Deoclécio Domingos Garbuglio

Faculty Publications

Deep purple is an open-pollinated variety, well adapted to tropical conditions, developed to induce maternal haploids in maize. The founders were W23, Stock6, and an experimental tropical maize population. The inducer population inherits the dominant the R1-nj marker, and the expected real haploid induction rate is 3%.

Teaching Difficult Topics: Reflections From The Undergraduate Music Classroom, Olivia R. Lucas, Laura Moore Pruett

Faculty Publications

Teaching Difficult Topics provides a series of on-the-ground reflections from college music instructors working in a wide variety of institutional settings about their approaches to inclusive, supportive pedagogy in the music classroom. Although some imagine the music classroom to be an apolitical space, instructors find themselves increasingly in need of resources for incorporating issues of race and ethnicity, gender and sexuality, and historical trauma into their classrooms in ways that support student learning and safeguard their classroom communities. The teaching reflections in Teaching Difficult Topics examine difficult themes that fall into three primary categories: subjects that instructors sense to be …

Enriched Molecular-Level View Of Saline Wetland Soil Carbon By Sensitivity-Enhanced Solid-State Nmr, Wancheng Zhao, Elizabeth C. Thomas, Debkumar Debnath, Faith J. Scott, Frederic Mentink-Vigier, John R. White, Robert L. Cook, Tuo Wang

Faculty Publications

Soil organic matter (SOM) plays a major role in mitigating greenhouse gas emission and regulating earth’s climate, carbon cycle, and biodiversity. Wetland soils account for one-third of all SOM; however, globally, coastal wetland soils are eroding faster due to increasing sea-level rise. Our understanding of carbon sequestration dynamics in wetlands lags behind that of upland soils. Here, we employ solid-state nuclear magnetic resonance (ssNMR) to investigate the molecular-level structure of biopolymers in wetland soils spanning 11 centuries. High-resolution multidimensional spectra, enabled by dynamic nuclear polarization (DNP), demonstrate enduring preservation of molecular structures within herbaceous plant cores, notably condensing aromatic motifs …

Pseudomonas Aeruginosa Gene Pa4880 Encodes A Dps-Like Protein With A Dps Fold, Bacterioferritin-Type Ferroxidase Centers, And Endonuclease Activity, Nimesha Rajapaksha, Huili Yao, Aisha Cook, Steve Seibold, Lijun Liu, Kevin P. Battaile, Leo Fontenot, Fabrizio Donnarumma, Scott Lovell, Mario Rivera

Faculty Publications

We report the biochemical, structural, and functional characterization of the protein coded by gene PA4880 in the P. aeruginosa PAO1 genome. The PA4880 gene had been annotated as coding a probable bacterioferritin. Our structural work shows that the product of gene PA4880 is a protein that adopts the Dps subunit fold, which oligomerizes into a 12-mer quaternary structure. Unlike Dps, however, the ferroxidase di-iron centers and iron coordinating ligands are buried within each subunit, in a manner identical to that observed in the ferroxidase center of P. aeruginosa bacterioferritin. Since these structural characteristics correspond to Dps-like proteins, we term the …

Recent Advances In Chemistry And Antioxidant/Anticancer Biology Of Monoterpene And Meroterpenoid Natural Product, Benedict J. Barras, Taotao Ling, Fatima Rivas

Faculty Publications

Monoterpenes and meroterpenes are two large classes of isoprene-based molecules produced by terrestrial plants and unicellular organisms as diverse secondary metabolites. The global rising incidence of cancer has led to a renewed interest in natural products. These monoterpenes and meroterpenes represent a novel source of molecular scaffolds that can serve as medicinal chemistry platforms for the development of potential preclinical leads. Furthermore, some of these natural products are either abundant, or their synthetic strategies are scalable as it will be indicated here, facilitating their derivatization to expand their scope in drug discovery. This review is a collection of representative updates …

Modelling And Simulation Of The Cholesteric Landau-De Gennes Model, Andrew L. Hicks, Shawn W. Walker

Faculty Publications

This paper discusses modelling and numerical issues in the simulation of the Landau-de Gennes (LdG) model of nematic liquid crystals (LCs) with cholesteric effects. We propose a fully implicit, (weighted) L2 gradient flow for computing energy minimizers of the LdG model, and note a time-step restriction for the flow to be energy decreasing. Furthermore, we give a mesh size restriction, for finite-element discretizations, that is critical to avoid spurious numerical artifacts in discrete minimizers, particularly when simulating cholesteric LCs that exhibit 'twist.' Furthermore, we perform a computational exploration of the model and present several numerical simulations in three dimensions, on …

Multibillion-Dollar Tax Questions, James Alm, Jay A. Soled, Kathleen Delaney Thomas

Faculty Publications

Tax compliance in the United States historically hovers in the 80 percent range, costing the nation approximately half a trillion dollars annually in uncollected tax revenue. To foster greater tax compliance, the Internal Revenue Service (IRS) should employ whatever tools are at its disposal. Standard deterrence theory argues that increasing the audit rate and imposing stiffer penalties would foster greater tax compliance. There are political headwinds, however, that strongly suggest that these approaches are not currently viable. Instead, there is a low-cost method that could yield greater tax compliance. Drawing on recent and compelling social science research, the IRS should …

Natural Objects And Testamentary Freedom, Kevin Bennardo

Faculty Publications

This Article explores the tension between inheritance law’s designation of certain beneficiaries as natural and unnatural for certain purposes and its organizing principle of testamentary freedom. Either inheritance law is primarily concerned with effectuating the preference of the decedent or it is primarily concerned with safeguarding the economic health of the family. It cannot be both. Ultimately, one of these two must yield. Either we acknowledge that decedents don’t have the level of dispositional freedom that is advertised or we change the law’s designation of some devises as natural and other as unnatural.

This Article proposes a pathway to relieve …

Molecular And Cellular Programs Underlying The Development Of Bovine Pre-Implantation Embryos, Zongliang Jiang

Faculty Publications

Early embryonic mortality is a major cause of infertility in cattle, yet the underlying molecular causes remain a mystery. Over the past half century, assisted reproductive technologies such as in vitro fertilisation and somatic cell nuclear transfer have been used to improve cattle reproductive efficiency; however, reduced embryo developmental potential is seen compared to their in vivo counterparts. Recent years have seen exciting progress across bovine embryo research, including genomic profiling of embryogenesis, new methods for improving embryo competence, and experimenting on building bovine embryos from stem cell cultures. These advances are beginning to define bovine embryo molecular and cellular …

An Examination Of Homo Naledi Early Juveniles Recovered From The Rising Star Cave System, South Africa, Juliet K. Brophy, Debra R. Bolter, Marina Elliott, John Hawks, Lee R. Berger

Faculty Publications

Background: Six Homo naledi early juveniles were recovered from U.W. 101 (Dinaledi Chamber), U.W. 102 (Lesedi Chamber), and U.W. 110 in the Rising Star cave system. Aim: This paper develops the information for the H. naledi early juvenile life stage, as defined by a combination of deciduous and permanent dentition, and the eruption of the first permanent molar. Subjects and methods: The growing number of young individuals recovered from the Rising Star cave system allows us to gain a better understanding of their variation, or lack thereof, and provides a basis to estimate broad ranges for age at death of …

Flooded Mangrove Landscapes Hide Ancient Maya Coastal Sites In Belize, Heather I. Mckillop

Faculty Publications

Evidence of ancient Maya exploitation of salt, other marine resources, settlement, and sea trade is hidden in flooded mangrove landscapes on the cays, mainland, and in shallow offshore locations on the south coast of Belize. This article includes a discussion of the coastal economy from the Middle Preclassic through the Postclassic periods (600 B.C.–A.D. 1500). Data from sites discovered and excavated since 1982 in the coastal area of the Port Honduras and Paynes Creek National Park support a model of coastal reliance on marine resources and tree crops. The need for a regular supply of coastal salt to inland cities …

Negotiating Quotidian Justice In The Science Classroom, Christopher Irwin, Joshua Ellis

Faculty Publications

In this conceptual paper, we explore how science teachers might enact social justice through their everyday science instruction. Drawing on empirical literature and our own K-12 teaching experience, we develop a heuristic for mapping classroom discourses to engage in action and reflection to change both the world of the classroom community, and the world beyond the school. We suggest how this heuristic can be used for justice-oriented science teaching independently of (or as a supplement to) any existing frameworks for science teaching to promote social justice. Our proposed model for social justice through disciplinary science teaching frames justice not as …

Mcmurdo Dry Valley Lake Edge 'Moats': The Ecological Intersection Between Terrestrial And Aquatic Polar Desert Habitats, Michael S. Stone, Shawn P. Devlin, Ian Hawes, Kathleen A. Welch, Michael N. Gooseff, Cristina Takacs-Vesbach, Rachael Morgan-Kiss, Byron J. Adams, J. E. Barrett, John C. Priscu, Peter T. Doran

Faculty Publications

Aquatic ecosystems - lakes, ponds and streams - are hotspots of biodiversity in the cold and arid environment of Continental Antarctica. Environmental change is expected to increasingly alter Antarctic aquatic ecosystems and modify the physical characteristics and interactions within the habitats that they support. Here, we describe physical and biological features of the peripheral 'moat' of a closed-basin Antarctic lake. These moats mediate connectivity amongst streams, lake and soils. We highlight the cyclical moat transition from a frozen winter state to an active open-water summer system, through refreeze as winter returns. Summer melting begins at the lakebed, initially creating an …

Measuring And Modelling Functional Moat Area In Perennially Ice-Covered Lake Fryxell, Antarctica, Michael S. Stone, Mark R. Salvatore, Hilary A. Dugan, Madeline E. Myers, Peter T. Doran

Faculty Publications

The perennially ice-covered lakes of the McMurdo Dry Valleys (MDVs), Antarctica, are an important reservoir of liquid water in an arid and largely frozen environment. During the austral summer, the margins of these ice covers melt, forming a “moat” of liquid water and thin ice, allowing exchange between lake waters and the atmosphere to occur and serving as an interface between lake, soil, and stream ecosystems. The size of these moats varies from year to year. Here, we have established the first published record of moat area changes at MDVs’ Lake Fryxell through time using manual traces of the moat …

Summer-Wet Hydrologic Cycle During The Middle Miocene Of The United States: New Evidence From Fossil Fungi, Jennifer M.K. O’Keefe, Matthew J. Pound, Ingrid C. Romero, Noelia B. Nuñez Otaño, Martha E. Gibson, Jessica Mccoy, Margaret E. Alden, C. Jolene Fairchild, Julia Fitzpatrick, Emily Hodgson, Taylor Horsfall, Savannah Jones, June E. Lennex-Stone, Christopher A. Marsh, Alyssa A. Patel, Tyler M. Spears, Laikin Tarlton, Liberty F. Smallwood, O. L. Vanderespt, Jeremyah R. Cabrera, Cortland F. Eble, William C. Rember, James E. Starnes, Mac H. Alford, Alyson Brink, Sophie Warny

Faculty Publications

Hydrologic reconstructions from North America are largely unknown for the Middle Miocene. Examination of fungal palynomorph assemblages coupled with traditional plant-based palynology permits delineation of local, as opposed to regional, climate signals and provides a baseline for study of ancient fungas. Here, the Fungi in a Warmer World project presents paleoecology and paleoclimatology of 351 fungal morphotypes from 3 sites in the United States: the Clarkia Konservat-Lagerstätte site (Idaho), the Alum Bluff site (Florida), and the Bouie River site (Mississippi). Of these, 83 fungi are identified as extant taxa and 41 are newly reported from the Miocene. Combining new plant-based …

Holocene Hydroclimate Stability In Three Lake Sediment Records From The Southeastern United States, Aubrey L. Hillman, Sumar B. Hart, Vann Smith, Sophie Warny

Faculty Publications

Many Holocene paleoclimate records from the southeastern United States (SE US) have limited chronological constraints and/or low sedimentation rates and consequently low resolution; this presents challenges in discerning the relative importance of synoptic–scale drivers of past hydroclimate. In this study we summarize three lake sediment records that are uniquely located to test hypotheses regarding the importance of the Pacific North American (PNA) pattern and the North Atlantic Oscillation (NAO) over the last 5000 years. At Pigeon Marsh, Buck Pond, and Halls Pond, we used sedimentological (radiocarbon dating of transect cores), physical (grain size), geochemical (carbon and nitrogen ratios and isotopes), …

Fractal Surface Recovery And Self-Healing Contributed To Sustainable Superhydrophobicity: A Review, Yunfei Peng, Zhihang Ma, Xiao Wang, Junru Li, Xinlin Li, Chuanwei Zhang, Tian He, Guoqiang Li, Pengfei Zhang

Faculty Publications

The concept of superhydrophobicity has been widely used after years of theoretical and experimental exploration. Researchers have obtained materials with excellent surface superhydrophobicity for numerous areas (e.g. textiles, paints, and coatings industries), through different design and synthesis methods using low surface energy components (LSECs) and micro/nanohierarchy composite structures. However, the durability of superhydrophobic material surfaces has gradually become a prominent obstacle to restricting applications. In this paper, advances in improving the durability of superhydrophobic surfaces in the past decade are reviewed, covering different schemes for recovering fractal surfaces based on the LSECs and micro/nanocomposite structures. It also presents a balanced …