Life Sciences Commons^™

On The Importance Of Sequence Alignment Inspections In Plastid Phylogenomics – An Example From Revisiting The Relationships Of The Water-Lilies, Jessica A. Roestel, John H. Wiersema, Robert K. Jansen, Thomas Borsch, Michael Gruenstaeudl

Biological Sciences Faculty Publications

The water-lily clade represents the second earliest-diverging branch of angiosperms. Most of its species belong to Nymphaeaceae, of which the “core Nymphaeaceae”—comprising the genera Euryale, Nymphaea and Victoria—is the most diverse clade. Despite previous molecular phylogenetic studies on the core Nymphaeaceae, various aspects of their evolutionary relationships have remained unresolved. The length-variable introns and intergenic spacers are known to contain most of the sequence variability within the water-lily plastomes. Despite the challenges with multiple sequence alignment, any new molecular phylogenetic investigation on the core Nymphaeaceae should focus on these noncoding plastome regions. For example, a new plastid phylogenomic study on …

From Pixels To Plants: Remote Sensing Of California Invasive Plants, Kenneth Rangel

Master's Projects and Capstones

Invasive plants cause significant impacts to ecosystems, the economy, and human health. California has experienced significant plant invasions and is well suited to future invasion because of its Mediterranean climate and human disturbance. Eradication or control of invasive plant species requires a detailed understanding of their spatial distribution, which typically involves on the ground surveys that can be expensive or inconsistent. Remote sensing offers a potential alternative or supplement to in-person invasive plant mapping. This study performed a comparative analysis of 41 remote sensing studies that mapped the distribution of California invasive plants. I found that while high spectral resolution …

Two New Species Of Inocybe (Inocybaceae: Agaricomycetes) From Turkey Based On Morphological Characteristics And Phylogenetic Evidence, Oğuzhan Kaygusuz, Ditte Bandini, Henning Knudsen, Meike Piepenbring

Turkish Journal of Botany

During a survey of agarics in the Mediterranean region of southwestern Turkey, some noteworthy mushrooms were collected. Among the specimens, two represent new species of Inocybe which are proposed and illustrated in this study as Inocybe pseudogeophylla and I. succinea. Molecular phylogenetic analyses based on a nuc rDNA ITS1-5.8S-ITS2 (ITS) and partial 28S rDNA (LSU) dataset reveal that these species belong to the Inocybe geophylla group. The sequences of the new species form two independent lineages and differ from the known species of Inocybe by a unique combination of morphological characteristics. Detailed macro- and micromorphological features, colour photographs, habitat and …

Cephalaria Gokturkii (Caprifoliaceae), A New Species From Southwestern Anatolia, Türkiye, Gürkan Semi̇z, Meryem Bozkurt, Batıkan Günal, Tuna Uysal

Turkish Journal of Botany

A new Cephalaria (Caprifoliaceae) species, Cephalaria gokturkii, is described and illustrated from Girdev Mountain (Muğla Province) for the Flora of Türkiye. Throughout this manuscript, the new species and its relatives were compared in terms of morphological, palynological and molecular features. The obtained findings indicated that the new species is similar to C. elmaliensis but is characterized by having larger capitula and receptacular bracts in flower (vs. 1‒2 cm capitula and less than 3 mm in flower) and hairy trigonous-narrowly ovate involucral bracts (vs. glabrous and broadly ovate involucral bracts) and smaller involucels (vs. involucels longer than 10 mm in fruit). …

Eco-Assessment Of Phytoplankton Composition In Relation To Environmental Conditions Of Saltwater And Freshwater Lakes In The Konya Closed Basin (Türkiye), Abuzer Çelekli, Ömer Lekesiz, Tolga Çetin

Turkish Journal of Botany

Great importance is given to maintaining lentic ecosystems, threatened by human-induced consequences worldwide. The present study hypothesized to assess differences in species-environment relationships and ecological status of 15 lakes (saline water systems, high-altitude freshwater lakes, and other freshwater lakes) in the Konya Closed River Basin using phytoplankton indices throughout wet and dry periods. Results of canonical correspondence analysis separated saline and freshwater (high-altitude) habitats, which were characterized by different phytoplankton species. Total phosphorus (TP), electrical conductivity (EC), nickel-Ni, and altitude were the most influential environmental factors affecting phytoplankton dispersal in these ecosystems. Saline lakes were under pressure of high EC, …

The Sect. Tricheroides In The Genus Knautia (Caprifoliaceae) Is More Complex Then Known: An Unusual New Species From Türkiye, Candan Aykurt, Mertcan Gülben, Sinem Günaydin, Duygu Sari, Ramazan Süleyman Göktürk, Emirhan Berberoğlu, Serkan Gülsoy

Turkish Journal of Botany

During a biodiversity survey in the Western Taurus Mountains (Antalya, Türkiye), a new species of the genus Knautia (Dipsacoideae, Caprifoliaceae), K. sivridaghense, was discovered. The new species, which is characterized by its dwarf caespitose perennial habit, is found in rocky places under mixed forests at elevations of 1400–1450 m. Knautia sivridaghense is distinguished from its morphologically similar species, K. goecmenii, especially by its dwarf caespitose perennial habit, unbranched stems, length of involucral bracts, and other floral characteristics. Our phylogenetic analyses based on the nuclear ITS and chloroplast petN(ycf6)-psbM regions confirm its placement within Sect. Tricheroides, contributing to the understanding of …

The Effect Of Saltwater Stress On The Performance Of Cherry Tomatoes, Samarah R. Martin, Ivan Oyege, Kateel G. Shetty, Krish Jayachandran, Maruthi Sridhar Balaji Bhaskar

FIU Undergraduate Research Journal

Rising sea levels and saltwater intrusion in aquifers pose significant challenges for South Florida agriculture, leading to increased groundwater salinity and potential crop losses. Utilizing salttolerant crop species presents a potential solution for saline soils and regions with active saltwater intrusion. However, the effects of soil salinization through groundwater alone remains less studied. This research investigates the impact of short-term, below-ground saltwater stress on the growth, survival, and overall health of commonly grown cherry tomatoes (Solanum lycopersicum). The objectives of the study are to: 1) determine the impact of saline groundwater on tomato plant health and 2) compare the nutrient …

With Love, ; An Interdisciplinary And Intersectional Look At Why Creativity Is Essential, Theo Starr Gardner

Whittier Scholars Program

My Whittier Scholars Program self-designed major, Teaching Creativity, is a mixture of Art, Literature, and Education classes. My research and praxis classes have been focused on the ‘how?’s and 'why?’s of creativity, so it felt only right that my project should be a constructivist, generative project. The project I have been working on throughout my time at Whittier, and that has just fully come to fruition on April 11th, 2024, was a solo art gallery/open mic event entitled ‘With Love,’. With Love, was conceptually inspired by the research I’ve conducted on creativity and creative arts education over the past few …

Techniques And Trials In Pteridophyte Conservation And Cultivation, Jessica Bartel

Senior Theses and Projects

With the progressive nature of climate change conditions globally over the past century, there has been increasing focus on conservation of all species, but particularly those already endangered. Over 12,000 species of ferns live on Earth, and they do not produce seeds, so an investigation into their spores and how they reach maturity will allow us to preserve more genetic material in the future for these species. As a result, we investigated ex situ conservation and survivability of in vitro cultured gametophytes of within the genus Dryopteridaceae through herbarium sample germination rates across samples representing a wide age range ( …

Using Annual Forages To Replace Declining Cool-Season Grass Pasture Availability, Jonathon Matthew Jenkins

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

As land area in grain crop production increases in the US Midwest, perennial pasture availability decreases but the demand increases. Matching the seasonal growth patterns of C₃ and C₄ plant species to grow forages that are complementary allows producers to fill production gaps in otherwise monoculture systems and possibly increase overall productivity. One way to fill the forage production gap of C₃ grass dominated pastures is by producing a warm-season, annual forage in a separate field. However, with continual reductions in land availability, this may not be an option. Using two studies, our objectives were to improve …

Public Horticulture: Process And Design Of The Lincoln Botanical Garden, Brad Kindler

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Beginning in 2012, the local non-profit, The Lincoln Botanical Garden, began organizing the conceptual design and creation of a glass conservatory within a botanical garden in Lincoln, Nebraska. These proposed urban enhancements seek to fill a gap in garden amenities in the city by providing year-round access to public horticulture programming and education.

This project, Public Horticulture: Process and Design of the Lincoln Botanical Garden, documents these efforts and makes design recommendations for a themed Glacial Erratic Garden that could be constructed within the botanical garden.

Advisors: Ellen Paparozzi and Sam Wortman

Cross-Pollination: Building A Co-Taught Course To Examine Art And Sex Through The Lens Of Botany, Christopher T. Martine, Diamanda A. Zizis, Anna K. Kell

Faculty Journal Articles

Driven by overlapping interests in plants, art, and diversity in sex expression, Anna Kell (Department of Art and Art History) and Chris Martine (Department of Biology) developed a course that integrates the perspectives of a visual artist and a botanist. Art & Sex Through the Lens of Botany seeks to impart the importance of making connections across disciplines and the value of visual literacy across academic lines. The course introduces foundational concepts in each field and encourages students to integrate and explore these different systems of knowledge and their intersections. In addition to developing fluencies related to both general botany …

Effects Various Distilled Water Brands Have On Chlorophytum Comosum., Brooke Bluhm

Theses/Capstones/Creative Projects

When first attempting home gardening, one of the challenges many home-renters are starting to face is being able to supply enough clean water to one’s plants. In order to overcome this challenge, many plant enthusiasts are utilizing prepackaged distilled water from price friendly brands available at most regional Walmart locations. With the number of choices available on the shelves of today’s grocery stores, and vague ingredient lists on packaging it can be challenging to determine which brand is actually best suited for one’s specific needs. In order to determine the best distilled water suited to grow Chlorophytum comosum, various gallons …

Establishment Of Wildflower Islands To Enhance Roadside Health, Ecological Value, And Aesthetics, Jackson Ebbers

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Roadsides provide an abundant opportunity to increase connectivity of fragmented landscapes with diminishing floral resources for pollinating insects. The ecological value of these sites is often overlooked as quality habitat for pollinators, particularly monarch butterflies, which have been experiencing severe declines due to loss of habitat and loss of milkweeds that provide food for their larvae. Land managers across the nation are realizing the potential of roadsides to provide high quality floral resources for the benefit of insects and other wildlife. Current wildflower seed mixes used by state transportation departments are often low diversity and may only be implemented following …

Arkansas Soil Erosion And Conservation Methods In Ornamental Landscapes, Abby J. Cutsinger

ATU Research Symposium

This study will attempt to identify the best soil erosion mitigation methods for Arkansas ornamental landscape settings by comparing the strengths and weaknesses of known techniques. Since soil is not a renewable resource, we must apply conservation practices wherever possible, not just in agricultural settings. To determine the most effective erosion prevention techniques, this study will review soil studies conducted by the NRCS and NASA, as well as articles on best practices observed in ornamental landscape and agricultural industries. These are analyzed by comparing and contrasting techniques against known problems with Arkansas soil to determine which methods are most effective. …

Examination Of Greenhouse Conditions That Influence Scale Infestation Rates On Begonia, Madeline M. Cusick

Honors College Theses

Scale insects are common pests within greenhouse and agricultural settings. I quantified scale infestation on Begonia x Richmondensis, also known as the Dragon Wing begonia, within the Armstrong Campus Greenhouse from March to November of 2023. Six different treatments accounted for variations in sunlight, humidity, and temperature within the greenhouse with the goal of determining the insect’s preferred environmental conditions. Morphological comparisons were also made between host plant Dragon Wing begonia and other begonias present within the greenhouse. Analysis indicated a significant difference in scale presence on replicate plants by zone and sunlight treatments, with more plants hosting at least …

The Genus Centris Fabricius In Cuba, With A New Record And The Description Of A New Species (Hymenoptera: Apoidea: Anthophila), Julio A. Genaro, Dayron Breto

Insecta Mundi

Members of the genus Centris Fabricius (Hymenoptera: Apoidea: Anthophila) constitute a significant component of the Neotropical (including insular) bee fauna, exhibiting high species richness, a moderate to large body size, and extensive interactions with various important plant groups. Females of most species possess specialized morphology adapted for collecting oils from flowers. This study documents the presence of the genus in Cuba, recognizing six species: C. aethiops Cresson, C. cornuta Cresson, C. fulviventris Cresson, C. poecila Lepeletier, C. taina Genaro and Breto new species, and C. tarsata F. Smith. Detailed information is provided for …

An Interdisciplinary Experience, Reyna Vergara, Michael Dodson

OUR Assignment Repository

This proposal showcases the success of an interdisciplinary approach. It provides an overview of a project titled: "Cacao and Chocolate: A Powerful Legacy." It took place during Hispanic Heritage Month in 2023. The project aimed to explore the rich and multifaceted legacy of cacao and chocolate in Latin America, incorporating perspectives from various academic disciplines, including public history, chemistry, Spanish language, graphic design, culinary arts, and family science. The interdisciplinary nature of the project highlights the power of collaboration in research and education, serving as a model for integrating diverse fields of study.

The project was divided into two main …

Providing Pest Management Education For Home Gardeners In Utah, Nick Volesky, Marion Murray

Outcomes and Impact Quarterly

In January 2024, Utah State University (USU) Extension's Integrated Pest Management (IPM) program launched a three-part class series targeting Utah's home gardeners. The goal was to enhance their abilities in identifying and managing insect and plant diseases. With over 200 participants, the series notably increased the knowledge of attendees. This initiative aligns with the USU Extension IPM program's mission to promote sustainable pest management practices across Utah, evidencing its commitment to environmental stewardship and community education.

Toward A Coordinated Understanding Of Hydro-Biogeochemical Root Functions In Tropical Forests For Application In Vegetation Models, Daniela F. Cusack, Bradley O. Christoffersen, Chris M. Smith-Martin, Kelly M. Andersen, Amanda L. Cordeiro, Katrin Fleischer, S. Joseph Wright, Nathaly R. Guerrero-Ramírez, Laynara F. Lugli, Lindsay A. Mcculloch

School of Integrative Biological and Chemical Sciences Faculty Publications and Presentations

Tropical forest root characteristics and resource acquisition strategies are underrepresented in vegetation and global models, hampering the prediction of forest–climate feedbacks for these carbon-rich ecosystems. Lowland tropical forests often have globally unique combinations of high taxonomic and functional biodiversity, rainfall seasonality, and strongly weathered infertile soils, giving rise to distinct patterns in root traits and functions compared with higher latitude ecosystems. We provide a roadmap for integrating recent advances in our understanding of tropical forest belowground function into vegetation models, focusing on water and nutrient acquisition. We offer comparisons of recent advances in empirical and model understanding of root characteristics …

Identification Of Carrying Alien Dna Fragments In Solanum Melongena X Solanum Incanum Interspecific Progeny By Using Cosii Marker, Görkem Sülü, İlknur Polat, Hati̇ce Fi̇li̇z Boyaci, Ahmet Naci̇ Onus

Turkish Journal of Botany

Cultivated eggplant (Solanum melongena L.) is produced in many countries with temperate and tropical climates and has great economic importance. In recent years, resistance to biotic and abiotic stress conditions in addition to increasing yield and quality has gained importance in plant breeding including eggplant breeding. Therefore, the wild relative S. incanum is an important parent in breeding studies as it provides resistance to some important biotic and abiotic stresses for eggplant. It is possible to obtain a fully fertile hybrid between the two species, as well as to establish F2 lines. However, it is a mystery whether there is …

A New Fossil Wood Species Of Ziziphus From The Middle Miocene Of Türkiye And Its Palaeoenvironmental Evaluation, Ünal Akkemi̇k, Özlem Toprak

Turkish Journal of Botany

The purpose of this study is to describe a new fossil wood from the Middle Miocene of South Anatolia (Mersin) and to identify it and evaluate its palaeoenvironmental implications. Thin sections of transverse, tangential, and radial surfaces were examined and described using the terminology of the International Association of Wood Anatomists. The wood was determined to have characteristics of Ziziphus (Rhamnaceae). It is the first fossil wood of Ziziphus and is described as Ziziphoxylon sayaz Akkemik sp. nov. It is from the Middle Miocene Climate Optimum (MMCO), which is a relatively warm interval in the Miocene. Indistinct annual growth ring …

Isolation And Assessment Of Halophilic Rhizobacteria Plant Growth-Promoting Traits For Alleviating Salt Stress In Wheat, Alev Sezen, Ömer Faruk Algur, Ferruh Aşçi, Arzu Ünal

Turkish Journal of Botany

In this study, 22 halophilic bacteria were isolated from plants collected together with rhizosphere soil from habitats with high salt content in and around Erzurum. Various plant growth-promoting (PGP) properties of these isolates (nitrogen fixing, phosphate solubilizing, ACC deaminase, and IAA and siderephore production) were determined. Bacteria positive for PGP properties and various combinations with these bacteria were subjected to pot experiments in saline medium (greenhouse conditions) and their effects on growth parameters (root and stem length, fresh and dry weight, protein, and chlorophyll and carotenoid content) of wheat plants were determined. As a result of the research, the isolates …

A New Permineralized Corypha-Type Coryphoid Palm Stem From K-Pg Of India: Anatomy, Systematics, Saprophytic Fungi, And Paleoecology, Ashif Ali, Kaustav Roy, Biswajit Mukherjee, Subir Bera, Mahasin Khan

Turkish Journal of Botany

Palms are known to be an important and diverse angiosperm component in the Deccan Intertrappean beds of Central India. However, the report of fossilized palm stems inhibiting saprophytic fungal remains is empty in the field of paleobotany. Here, we document for the first time the occurrence of fungal remains in a petrified palm stem collected from the latest Maastrichtian (Late Cretaceous)-earliest Danian (early Paleocene) sediments of the Deccan Intertrappean beds of Madhya Pradesh, Central India. The anatomical features of the fossil stem are characterized by the presence of Corypha-type general stem pattern (progressive decrease of fibrous parts of fibrovascular bundles, …

Dorycnium Vuralii (Fabaceae), A New Species From Türkiye, Bilal Şahi̇n, Seher Karaman, Mevlüde Alev Ateş, Zeki Aytaç

Turkish Journal of Botany

The present study describes a new species Dorycnium vuralii (Fabaceae) from Çankırı, Türkiye. The new species is compared morphologically to the taxa of sect. Bonjeanea and sect. Dorycnium along with pollen micromorphology, leaflet, and seed micromorphology. The geographical distribution of Dorycnium vuralii is mapped. The phylogenetic relationships between the new species and other closely related species in the genus are inferred based on DNA data from both cpDNA and nrDNA (rbcL1&ITS). Although phylogenetic implications are different in the two DNA barcoding regions, D. vuralii is shown to be a new species in both molecular data. The new species is assessed …

Modelling The "Bottom-Up" Development Pattern Of Tar Spot Disease In Corn, Brenden Lane, Joaquín Guillermo Ramírez-Gil, Carlos Góngora-Canul, Mariela Sofia Fernandez Campos, Andres Cruz-Sancan, Fidel E. Jiménez-Beitia, Alex G. Acosta-Guatemal, Wily Sic, C. D. Cruz

Graduate Industrial Research Symposium

In 2015, the corn-infecting pathogen Phyllachora maydis (causal agent of tar spot disease) was reported for the first time in the United States. The disease has since spread across the US, causing major yield losses. In 2021 alone, 5.88 million metric tons (231.3 million bushels) of US corn yield were lost to this disease, costing an estimated US$1.25 billion. Though fungicides can protect against these agroeconomic losses, application timing can be difficult to optimize because our understanding of tar spot dynamics is still evolving. The current view is that tar spot typically develops bottom-up through a repeating infection cycle. Because …

Two New Species Of Bumblebee Scarabs (Coleoptera: Glaphyridae: Lichnanthe Burmeister) From The Central United States: A New Discovery In Wyoming Resolves A Century-Old Puzzle From The Nebraska Sand Hills, Matthew J. Paulsen

Insecta Mundi

The genus Lichnanthe Burmeister (Coleoptera: Scarabaeoidea: Glaphyridae) has comprised eight Nearctic species and contains the only New World members of their family. Here, two new species of arenicolous bumblebee scarabs are described from the central United States. The recent discovery of an undescribed Wyoming species led to the reevaluation of a dubious 134-year-old Nebraska Lichnanthe specimen, indicating that it also was an undescribed species. These two species, Lichnanthe brusti new species from central Wyoming and L. bruneri new species from central Nebraska are immediately distinguishable from all existing species of the genus by their square mandibles.

ZooBank registration. urn:lsid:zoobank.org:pub:401927DA-66D9-47A1-AE68-965210824713

Automated Tree Mortality Detection Using Ubiquitously Available Public Data, Michael T. Huggins

Master's Theses

Understanding the dynamic interplay between fire severity, topography, and tree mortality, is crucial for predicting future forest dynamics and enhancing resilience against climate change-induced wildfire regimes. This thesis develops a multi-sensor approach for automated estimation of tree mortality, then applies it to examine trends in tree mortality over a six-year period across a fire affected study site in the Trinity River basin in Northern California. The Random Forest model uses publicly available USGS 3D Elevation Program Lidar (3DEP) and NAIP imagery as inputs and is likely to be easily adaptable to other landscapes. The model had a Receiver Operating Characteristic …

Prioritizing Indigenous Participation And Compensation In Research, Amanda Sabin

Journal of Critical Global Issues

Throughout history, the dynamic between colonial entities and indigenous groups has been characterized by exploitation and power imbalance. Indigenous knowledge has the potential to positively impact the world, through medicinal breakthroughs, radical approaches to sustainability, cultural heritage, systems of learning and adaptation, and more. Particularly in the context of research, fields like anthropology, botany and pharmacology serve to benefit from indigenous knowledge, but these interactions cannot continue to be based on extraction at the cost of indigenous communities. This work will discuss the future of relationships between researchers and indigenous communities; how this power dynamic must be transformed into an …

Toward A Coordinated Understanding Of Hydro-Biogeochemical Root Functions In Tropical Forests For Application In Vegetation Models, Daniela F. Cusack, Bradley Christoffersen, Chris M. Smith-Martin, Kelly M. Andersen, Amanda L. Cordeiro, Katrin Fleischer, S. Joseph Wright, Nathaly R. Guerrero-Ramírez, Laynara F. Lugli, Lindsay A. Mcculloch, Mareli Sanchez-Julia, Sarah A. Batterman, Caroline Dallstream, Claire Fortunel, Laura Toro, Lucia Fuchslueger, Michelle Y. Wong, Daniela Yaffar, Joshua B. Fisher, Marie Arnaud, Lee H. Dietterich, Shalom D. Addo-Danso, Oscar J. Valverde-Barrantes, Monique Weemstra, Jing Cheng Ng, Richard J. Norby

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Tropical forest root characteristics and resource acquisition strategies are underrepresented in vegetation and global models, hampering the prediction of forest–climate feedbacks for these carbon-rich ecosystems. Lowland tropical forests often have globally unique combinations of high taxonomic and functional biodiversity, rainfall seasonality, and strongly weathered infertile soils, giving rise to distinct patterns in root traits and functions compared with higher latitude ecosystems. We provide a roadmap for integrating recent advances in our understanding of tropical forest belowground function into vegetation models, focusing on water and nutrient acquisition. We offer comparisons of recent advances in empirical and model understanding of root characteristics …