Doctor of Philosophy (Ph.D.) Major in Aquatic Resources and Integrative Biology (Entering with Master's Degree)

BIO 7100. Professional Development.

This course is seminar-based and covers topics related to teaching, research, and employment responsibilities. Completion of the course is required as a condition of employment for graduate assistants. This course does not earn graduate degree credit. Repeatable with different emphasis.

BIO 7102. Seminar in Aquatic Resources.

This course is an interactive discussion of timely issues and problems, designed to introduce students to the range of scientific, socioeconomic and policy issues likely to be encountered within the field of aquatic resources. All students seeking a doctoral degree in Aquatic Resources must enroll in BIO 7102 at least twice.

BIO 7103A. Ecology and Society.

Interactive discussion on relationships between society and the life-supporting ecosystems on which humans depend. Topics include roles of naturalsystems in social systems; effects of social, economic and political institutions on ecological systems and services; and the means by which humans develop and sustain desired ecological and social states.

BIO 7103B. Aquaculture.

The course comprises a survey of aquaculture production throughout the world. It also examines and discusses the impacts of aquaculture on nutrition, fisheries and the economy.

BIO 7103D. Molecular Biology of the Cell.

Interactive discussion of current literature on molecular biology of the cell. The course is designed to discuss concepts and their applications and methodology associated with the structure and function of the cell at cellular and molecular level.

BIO 7103E. Contemporary Problems in Ecology.

This course is an interactive discussion of the theoretical foundations and empirical basis for controversial topics in ecology, designed to develop critical thinking skills, and the ability to evaluate and integrate the biological, chemical and physical factors that affect the structure, functions, and interactions characterizing communities and ecosystems.

BIO 7103F. Molecular Genetics of Plant Development.

The study of plant development is rapidly changing as plant genome projects discover a multitude of new genes, and their expression and interaction patterns are understood. This course is designed to discuss concepts in plant development, and developmental processes as pathways of gene regulatory activities.

BIO 7103G. Ecohydrology.

A review of the concept of ecohydrology, its scientific foundation, and its ecological-hydrological linkages. Current topics in ecohydrology in the literature will be discussed, including manipulation of biota and hydrology interactions in a landscape, and the possibility of augmenting the resilience of ecosystems to anthropogenic changes.

BIO 7103H. Integrated Waterbird Management.

This course focuses on the ecology and management of waterbirds, with an emphasis on the inland and coastal waterbirds of Texas. The basic ecology of waterbirds, waterbird management techniques, and waterbird habitat management will be discussed.

BIO 7103I. Avian Ecology and Evolution.

This course is an interactive discussion of avian ecology and evolution, providing students with a critical examination of theories, hypotheses, and lab and field-based data that support or refute there hypotheses. This course also discusses peerreviewed literature that challenges some paradigms in avian ecology and evolution.

BIO 7104. Marine Pollution.

In this course, students will read and discuss the scientific literature on the sources, bioaccumulation, trophic transfer, and health effects of contaminants in the marine environment. Papers will address a variety of marine life including plankton, crustaceans, mollusks, fishes, marine mammals, turtles, and birds. Contaminants to be reviewed include trace elements, PCBs, oil, pesticides, radionuclides, plastics, pharmaceuticals, illegal drugs, and personal care products.

BIO 7105. Environmental Issues through Documentaries.

In this course, students will examine how environmental issues are addressed in documentaries. Students will learn how to critically evaluate documentaries for scientific content, imagery, biases, and ease of understanding. Topics to be examined include overfishing, the wildlife trade, habitat degradation, pollution, energy resources, climate change, sustainability, and conservation.

BIO 7114. Collaborative Research.

This course (concurrent enrollment allowed) allows Ph.D. level graduate students to initiate, conduct, and participate in collaborative research with graduate faculty of the Department of Biology that is in addition to research conducted under BIO 7303, BIO 7399A, or BIO 7699A. This course recognizes the collaborative nature of scientific investigation.

BIO 7120. Population Biology Seminar.

This course facilitates exploration of current topics in population and conservation biology through reading and discussion of contemporary primary and secondary literature.

BIO 7199A. Dissertation.

Original research and writing in Aquatic Resources, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

BIO 7214. Collaborative Research.

This course (concurrent enrollment allowed) allows Ph.D. level graduate students to initiate, conduct, and participate in collaborative research with graduate faculty of the Department of Biology that is in addition to research conducted under BIO 7303, BIO 7399A, or BIO 7699A. This course recognizes the collaborative nature of scientific investigation.

BIO 7299A. Dissertation.

Original research and writing in Aquatic Resources, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

BIO 7300. Communicating Science.

This course explores how to successfully disseminate science through visualizations, oral presentations, and written works to multiple audiences. Special emphasis will be placed on communicating with the general public, media, granting agencies, and science peers.

BIO 7301. College Science Teaching.

This course is designed for graduate students in the sciences who are interested in improving their science teaching and/or are interested in pursuing careers in academia. This course focuses on the central question, "How do college students best learn science, and thus how do we best teach them?".

BIO 7302. Problems in Aquatic Resources.

Individual study on specific state, national, or international aquatic resources issues, under direct supervision of a doctoral or associate faculty member. Students may not enroll in BIO 7302 more than twice for doctoral credit without the approval of the Graduate Program Director.

BIO 7303. Research.

Research course for students who have not yet passed their Candidacy Exam, typically under direction of research-dissertation supervisor. Pre-candidacy students must enroll in course every semester until admission to Candidacy, although it may not be taken more than three times for doctoral credit without the approval of Graduate Program Director.

BIO 7308. History of Vegetation and Climate.

An overview of past vegetation and its relationship to changing climate. Topics include principles of paleovegetation analysis, paleoclimatology, the rise of flowering plants, vegetation during the age of dinosaurs, the rise of the grasslands, and the Quaternary Ice Age. Prerequisites: Instructor approval.

BIO 7310. Global Aquatic Resources.

Introduction to global, national, and regional aquatic resource issues, including scientific, environmental policy and socioeconomic components and perspectives. Water quantity and quality issues and their root causes in different regions of the world are examined, with an emphasis on case studies.

BIO 7311. Ecology of Temporary Waters.

The course explores the diversity of temporary bodies of water and of the species that rely on them, including their special adaptations, population and community dynamics, the ecological role of temporary waters, and how these systems are impacted by humans. Background coursework or independent study in ecology is recommended.

BIO 7314. Collaborative Research.

This course (concurrent enrollment allowed) allows Ph.D. level graduate students to initiate, conduct, and participate in collaborative research with graduate faculty of the Department of Biology that is in addition to research conducted under BIO 7303, BIO 7399A, or BIO 7699A. This course recognizes the collaborative nature of scientific investigation.

BIO 7324. Natural History and Conservation of Large Mammals.

This course will introduce students to advanced details of natural history, research, and conservation of large mammals. Topics considered will include natural history, range and population status (historic and current), importance to and interaction with humans, research design and analysis, and the development of conservation and management plans.

BIO 7326. Immunobiology.

This lecture-based course will cover the mechanisms and biology of the innate and adaptive immune system. Emphasis will include relationship to cancer, transplantation, hypersensitivity (allergy), and disease. Students will evaluate current research in immunology.

BIO 7327. Ecological Immunology.

This course explores the roles of immunity in natural ecosystems, focusing on central concepts in ecological immunology. From viruses to parasites, pathogenic threats are omnipresent. As epizootic outbreaks become more common, it is important to integrate immunological knowledge with traditional ecological perspectives. Background coursework in immunology is recommended.

BIO 7331. Human Dimensions of Wildlife and Fisheries Conservation.

This course will provide principles, concepts, and case studies to understand how the human experience (e.g., culture, politics, economics) influences conservation outcomes. Students will have an opportunity to integrate human dimensions into decision-making.

BIO 7332. Introduction to R Programming for Biologists.

This course introduces the programming language R. The course will focus on best practices in programming and the use of Base-R and RStudio. Topics include navigating the R and RStudio environment, installing packages, loading, manipulating, and visualizing data, declaring variables, writing loops, and writing functions.

BIO 7333. Phylogenetic Comparative Methods.

This course introduces students to modern phylogenetic comparative methods and teaches how to perform them. Topics include constructing phylogenies, dating phylogenies, finding and using previously published phylogenetic datasets, phylogenetic data visualization, and a variety of methods to test ecological and evolutionary hypotheses in a phylogenetic framework.

BIO 7336. Evolutionary Ecology.

This course will use an evolutionary perspective to explore questions provided by natural selection and sexual selection through assessment of current theory and research related to topics such as competition, coevolution, and phenotypic plasticity. Students will achieve comprehension and familiarity with the field through discussions and writing.

BIO 7342. Virology.

This course examines the structure, multiplication and genetics of bacterial, plant, and animal viruses as well as the role of viruses in human and plant disease. Students are expected to become familiar with the research literature in virology.

BIO 7346. Conservation Biology.

Examination of the alteration of habitats and associated biological changes threatening the continued existence of species and basic ecosystems. Topics include conservation ethics, working paradigms, levels and loss of global biodiversity, conservation at population and ecosystem levels, restoration ecology, endangered species biology and conservation laws. Recent Advances are stressed.

BIO 7353. Biogeography.

Examines historical and ecological explanations of the geographic distribution of organisms including the role of geologic, climatic, and biologic changes. Emphasizes the historical and philosophical development of the science and modern methods of analysis.

BIO 7354. Applied Analyses of Populations.

In this course students will learn and apply a variety of statistical techniques for analyzing populations. They will build code to conduct and compare statistical analyses as they apply to real population data. Students will use real-world data sets to generate objectives and test hypotheses including conducting all data visualization and validations, performing models, selecting appropriate models, and estimating latent variables and their predictors. Analyses include assessing the effects of environmental attributes on occupancy, relative abundance, abundance, space (habitat) use, home range size, local colonization, local extinction, survival, and recruitment.

BIO 7355. Plant-Water Relations.

Examination of the physiology and ecology of water use in higher plants, including the uptake, utilization, and movement of water, transpiration and adaptation to variable water availability including drought, and the ecological role of water in structuring plant communities.

BIO 7360A. Industry and Sustainable Aquatic Resources.

Examination of industrial water needs and uses, the types and quantities of water pollutants produced by different industries, problems faced by industry regarding process water for different manufacturing activities, and the possibilities for industry to contribute to the goal of sustainable aquatic resources.

BIO 7360B. Environmental Linkages and Sustainable Aquatic Resources.

Introduction to the environmental relationships between humans and other living beings and the ecological systems in which they exist. Emphasis will be on the potential for individual environmental problems to have serious impacts on other environmental components, as well as the nature of these impacts.

BIO 7360C. Role of State and Federal Courts in Protection and Maintenance of Aquatic Resources.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360D. Evolutionary Ecology.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360E. Advances in Water Quality Investigations.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360F. Approaches to Aquatic Resource Modeling.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360G. Molecular Techniques in Microbial Ecology.

Lectures on molecular techniques used to analyze structure and function of uncultured microbial communities in the environment with selected examples of applications.

BIO 7360H. Parasites and Diseases of Fishes and Other Aquatic Animals.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions.

BIO 7360I. Bayesian Statistics for Biology.

This course examines the theory and mathematical foundations of Bayesian statistics and provides instruction and experience conducting Bayesian analyses using computer-based procedures. The course emphasizes practical applications for Bayesian statistical procedures for problems in biological sciences.

BIO 7360K. Evolution.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360L. Landscape and Biogeography of Texas.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360P. Regulation of Plant Growth and Development.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360Q. Spatial Ecology of Animals.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course maybe repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360R. Community and Ecosystem Ecology.

Examination of current or emerging state, national and international aquatic resources issues, including root causes and their human and ecosystem interactions. The course may be repeated for credit, depending on the topic. No more than six hours can be counted for doctoral credit without the approval of the Program Director.

BIO 7360S. Soil Biology.

An introduction to the biology of soil systems, including the roles of biota in forming and maintaining soils, and the interactions between biotic and abiotic components in soils.

BIO 7360T. Karst Hydrogeology and Geomorphology.

An introduction to, and advanced understanding of, karst hydrogeology, geology, and geomorphology, with emphasis on field and theoretical applications of this information to the study of karst systems, and recognition and understanding of karst landforms at the surface and their relationships with subsurface processes. Prerequisite: Instructor approval.

BIO 7360U. Sustainability in a Changing World.

Understanding the ecological-social interface, including policies, product development and actions towards sustainability, with emphasis on integrating and implementing theories and methods across disciplines, and improving the knowledge and experience base for public policy and decision-making regarding human-environment linkages within the context of sustainable development. Prerequisite: Instructor approval.

BIO 7360V. Techniques in Aquatic Biology.

The course will provide hands on experience with a suite of physical, chemical, and biological sampling techniques and gear used in applied river studies. Students will be exposed to the fundamentals of data quality objectives, accuracy, precision, detection limits, data visualization, exploratory analysis, univariate and multivariate statistics.

BIO 7360Y. Applied Bioinformatics.

This course provides an introduction to scripting and other computational techniques used for visualizing and analyzing large biological datasets. Computational techniques include sequence and structural alignment, data mining, phylogenetic tree construction, and data clustering using UNIX, Python, and R. Students will gain a solid foundation in broadly applicable bioinformatics skills.

BIO 7361A. Discipline-Based Educational Research Methods.

This course will expose science graduate students to educational research in a practical setting, supervised by a professor experienced in conducting discipline-based educational research, focusing primarily on qualitative methods.

BIO 7361C. Advanced Genomics and Bioinformatics.

This course provides hands-on experience in processing and analyzing data produced from contemporary genomics tools for thesis students with basic bioinformatics training. Prerequisite: BIO 7360Y with a grade of "B" or better and instructor approval.

BIO 7361D. Raptor Ecology.

This course will examine the evolution, taxonomy, ecology, behavior, anatomy, physiology, and conservation of birds of prey of the world with emphasis on diurnal raptors, including those from Texas. Field trips will include at least two overnight visits to significant migration and over wintering areas.

BIO 7399A. Dissertation.

Original research and writing in Aquatic Resources, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

BIO 7402. Molecular Field Techniques.

The application of molecular tools for identifying, quantifying, and interpreting biological diversity assessments in aquatic systems. The course focuses on micro organismal identification and vertebrate model systems.

BIO 7405. Statistics and Experimental Design I.

Introduction to inferential statistics, including exploratory and confirmatory data analysis, estimation and hypothesis testing, analysis of variance and regression, and non-parametric techniques, as applied to aquatic resource issues. Computer applications emphasized.

BIO 7406. Statistics and Experimental Design II.

Introduction to the principles of experimental design, including randomization, replication, sample-size determination, completely randomized and randomized block design, factorial design, repeated measure design, and analysis of variance and covariance, as applied to aquatic resource issues. Computer applications emphasized. Prerequisite: BIO 7405 with a grade of "C" or better or instructor approval.

BIO 7410. Aquatic Microbial Ecology.

Examination of microbial organisms, communities, and interactions affecting the form, structure, and functional aspects of aquatic ecosystems. Field trips may be required. Prerequisite: BIO 2400 with a grade of "D" or better or instructor approval.

BIO 7412. Environmental Hydrology.

Overview of the properties, distribution, and movement of water over and under the land surface and its relation to sustainable aquatic ecosystems, including quantitative methods to assess cumulative impacts of human activities on such systems. Field trips may be required. Knowledge of calculus recommended.

BIO 7414. Ecology of Infectious Diseases of Wildlife.

Concepts of the ecology of infectious diseases in wildlife are studied in depth with emphasis on their application to the management and conservation of wildlife species and for the control of zoonotic diseases. Prerequisite: Instructor approval.

BIO 7419. Stream Ecology.

Study of ecological theories, concepts, and processes occurring at the population, community, and ecosystem levels of organization in running water. Laboratory includes sampling methods, descriptive and comparative studies, experiments, and critical discussion of literature. Field trips may be required.

BIO 7426. Ecology and Management of Aquatic Macrophytes.

Examination of aquatic macrophytes and their ecology, taxonomy, distribution and management. Field trips may be required.

BIO 7427. Principles of Population Biology I.

This course provides a foundation in theory and mathematics of basic population biology. The course is divided into modular components, including defining evolutionarily significant units, ecology of populations, genetics of populations, and evolutionary genetics. A background in genetics and general ecology is recommended.

BIO 7428. Principles of Population Biology II.

This course provides a foundation in theory and mathematics of basic population biology. The course is divided into modular components which include: 1) Ecology of Communities, 2) Evolution of Behavior, 3) Phylogenetic Methods, and 4) Biological Diversity and Conservation Biology.

BIO 7430. Mycology.

This course provides an introduction to the organisms in the Kingdom Fungi and to fungus-like organisms, their ecology and evolution, and their role in industry and disease. Special emphasis will be placed on morphology, culturing, and using laboratory techniques for identification.

BIO 7433. Population Genetics.

This course examines the theoretical foundations of population genetics, including the description of population genetic structure and the forces creating it. The course emphasizes application of principles to a wide range of current problems in evolution, systematics and ecology. Molecular methods, data interpretation and computer-based data analysis are emphasized.

BIO 7434. Herpetology.

A course treating the origin and evolution of amphibians and reptiles; their reproductive and physiological tactics; taxonomy/systematics; and population biology. While cosmopolitan in scope, emphasis will be placed on North American species and those groups inhabiting Texas.

BIO 7440. Aquatic Toxicology.

Introduction to principles for identifying and assessing the adverse effects of chemicals and other compounds and mixtures on aquatic organisms and ecosystems.

BIO 7447. Microbial Physiology.

Prokaryotes, including bacteria and archaea, are the most diverse group of organisms on earth. Many prokaryotes live in environments which are inhospitable to other life forms. This course covers major aspects of prokaryotic physiology that permit them to be so successful.

BIO 7466. Phylogenetics.

Study of the use of phylogenetic methodologies in aquatic research, including practical data collection, management, and analysis in the reconstruction of phylogenies. Laboratory exercises will introduce phylogenetic and DNA analysis software. Prerequisite: BIO 2450 and BIO 4369 and BIO 5466 all with grades of "C" or better or instructor approval.

BIO 7468. Groundwater Resources.

Study of the geological, physical, chemical and biological factors influencing sustainable groundwater resources, including hydrologic linkages and interactions with surface aquatic resources. Emphasis will be on the karst aquifer systems of Central Texas, and other groundwater aquifer systems of the United States.

BIO 7469. Introduction to Ecological Modeling.

Mathematical models range from simple conceptual models to complex mechanistic models for mimicking behavior of natural systems. This course provides a broad overview of modeling objectives, techniques and assumptions, as well as the practical skills needed to conduct modeling projects. Computer applications emphasized. Prerequisite: MATH 2471 with a grade of "C" or better or instructor approval.

BIO 7599A. Dissertation.

Original research and writing in Aquatic Resources, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

BIO 7699A. Dissertation.

Original research and writing in Aquatic Resources, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

BIO 7999A. Dissertation.

Original research and writing in Aquatic Resources, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

CHEM 7101. Doctoral Assistant Development.

This course is designed to prepare doctoral students employed as instructional assistants to perform effectively in diverse instructional settings. This course is seminar-based and covers topics related to teaching, research, and employment responsibilities. Completion of the course is required as a condition of employment for graduate assistants. This course does not earn graduate degree credit. Repeatable with different emphasis.

CHEM 7110. Advances in Molecular and Biophysical Chemistry.

This course is designed to provide students in the Integrated Molecular and Biophysical Chemistry PhD program a forum to discuss ongoing research progress and new discoveries through literature study. Students in the course will give informal ‘work in progress’ presentations and critically analyze recent publications in the field.

CHEM 7199. Dissertation.

This course consist of original research and writing in integrated molecular and biophysical chemistry to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

CHEM 7200. Graduate Research.

This course is designed to provide doctoral students with an elective research option to allow them to collect preliminary data as they develop their dissertation proposal.

CHEM 7201. Graduate Laboratory Rotations.

This course is designed to assist students in selecting a doctoral committee chair by having them work in several laboratories during their first semester in the program.

CHEM 7299. Dissertation.

This course consist of original research and writing in integrated molecular and biophysical chemistry to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

CHEM 7300. Graduate Research.

This course is designed to provide doctoral students with an elective research option to allow them to collect preliminary data as they develop their dissertation proposal.

CHEM 7305A. Physico-Chemical Properties and Metabolism of Xenobiotics.

This course is designed to introduce students to the concepts of physico-chemical properties of small molecules and how these impact the ability of these molecules to be used as probes in biological systems, focusing on the role that metabolic processes play in limiting or activating chemical probes and the role of chemical probes in investigating these processes. Students will explore experimental and computational methods for determining the relevant properties of compounds.

CHEM 7311. Natural Products, Anti-Infective, and Anti-Cancer Agents.

This course is designed to introduce the natural products by discussing their important classes (secondary metabolites), classification, nomenclature, structure, biosynthesis, occurrence and structure elucidation. The study of their utilization in medicine as leads for the development of new antimicrobial and anticancer agents will constitute the main focus of the course. The students will learn how to utilize their knowledge of organic chemistry and biochemistry gained in undergraduate courses toward the application of advanced research active areas on chemistry-biology interface.

CHEM 7330. Environmental Chemistry.

An introduction to environmental chemistry, with an emphasis on aquatic resources. Basic principles of geochemistry and atmospheric chemistry, as they relate to pollutant impacts on aquatic ecosystems, also will be examined. Prerequisites: CHEM 2142 and CHEM 2342 and CHEM 3410 all with grades of "C" or better or instructor approval.

CHEM 7342. Bioinorganic Chemistry.

This course is designed to provide a broad overview of metalloprotein active site design and reaction mechanisms catalyzed by metalloenzymes. Training sessions on the use of contemporary protein visualization tools will be provided and used throughout the course. Topics covered in the course include dioxygen transport and activating proteins, electron transfer proteins, dinitrogen (N2), and hydrogen (H2) activation, photosystem and oxygen evolution, zinc containing proteins, CO2 reduction, and modern advancements in the field of bioinorganic chemistry. Students can expect to develop strong foundational knowledge in metalloenzyme structure, function, and reaction mechanisms.

CHEM 7354. Eukaryotic Molecular Biology and Macromolecular Structure.

This course is designed to cover the specific topics of the regulation of gene expression in eukaryotes, including eukaryotic DNA replication, DNA repair, DNA recombination, DNA transcription, RNA processing, translation, post-translational protein modification. This course will also introduce the application of macromolecular structure determination in eukaryotic gene expression and its regulation. Students can expect to develop a strong foundation in eukaryotic molecular biology, a strong ability to discuss literatures and some grant writing ability.

CHEM 7361. Quantitative Methods in Biophysical Chemistry.

This course will integrate the physical, chemical, and biological aspects of fundamental biophysical methods, including spectroscopy, calorimetry, and hydrodynamics. Students will develop a quantitative skillset in multiple analytical methods that are used to characterize a variety of biological systems. This course will provide students with the physical and chemical foundation to quantitatively study biological macromolecules at multiple levels of complexity.

CHEM 7385. Metabolism and Metabolomics.

This course is designed to introduce students to the metabolism of macromolecules and the principles and practice of metabolomics. It will cover (1) biosynthesis and biodegradation of carbohydrates, lipids, amino acids, proteins, and nucleic acids; (2) metabolomics principles; (3) applications of metabolomics in the biomedical field. Discussions of literature in metabolomics studies will be emphasized.

CHEM 7391. Chemical Biology.

This course will introduce the emerging field of chemical biology and common tools that are used to analyze and manipulate biological processes with small molecules. Students will develop a strong foundation in the design and synthesis of chemical tools to interrogate biological systems and focus on implementing and interpreting assays with these tools, using examples from the current literature.

CHEM 7395. Fundamentals in Molecular and Biophysical Chemistry.

This course is designed to provide a functional overview of the physics, chemistry, and biology concepts that are central to the practice of molecular biophysical chemistry. Students will develop a broad scientific foundation to pursue interdisciplinary projects within the biophysical and biochemical sciences, as well as productively interface and collaborate with colleagues across sub-disciplines throughout their doctoral studies.

CHEM 7399. Dissertation.

This course consist of original research and writing in integrated molecular and biophysical chemistry to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

CHEM 7599. Dissertation.

This course consist of original research and writing in integrated molecular and biophysical chemistry to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

CHEM 7699. Dissertation.

This course consist of original research and writing in integrated molecular and biophysical chemistry to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

CHEM 7999. Dissertation.

This course consist of original research and writing in integrated molecular and biophysical chemistry to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

ENG 7300. Language Problems in a Multicultural Environment.

An introduction to the study of multicultural language and linguistics with descriptive, psychological, social, and semantic emphases.

ENG 7314. Specializations in Professional and Technical Communication Topics.

Provides theoretical and practical information for specialized types of technical and professional communication.

ENG 7316. Foundations in Rhetoric and Composition.

A course providing students with theoretical, pedagogical, and/or methodological foundations in the field of rhetoric and composition. Emphases vary but may include Contemporary Composition Pedagogy, Basic Writing Theory and Practice, and Writing Assessment. Repeatable with different emphases for up to nine hours of English credit.

ENG 7317. Specializations in Rhetoric and Composition.

A course providing theoretical, pedagogical, methodological, and/or administrative grounding in specialized areas of rhetoric and composition. Emphases vary but may include Writing Across the Curriculum, Service Learning, Writing Center Theory and Practice, Computers and Writing, Literacy. Repeatable with different emphases for up to nine hours of English credit.

ENG 7326. Contemporary Composition Theory.

Introduces students to the history of writing instruction in the university and to the theories of writing and composing that inform contemporary composition studies and the teaching of writing.

ENG 7383. Studies in Rhetorical Theory.

An introduction to classical and rhetorical theory in various areas of English studies. Recent emphases include Teaching of Composition and Techinical Communication. Repeatable with different emphases for up to nine hours of English credit.

GEO 7190. Independent Study.

Research in geography under the direction of a supervising professor. Repeatable once for additional credit with a different topic.

GEO 7199A. Dissertation.

Original research and writing in Geography is to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7199B. Dissertation.

Original research and writing in Geographic Education is to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7199C. Dissertation.

Original research and writing in Geographic Information Science, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7290. Independent Study.

This course is designed to provide a student with credit while conducting independent research in consultation with his or her research advisor. Repeatable once for additional credit with a different topic.

GEO 7299A. Dissertation.

Original research and writing in Geography to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7299B. Dissertation.

Original research and writing in Geographic Education to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7299C. Dissertation.

Original research and writing in Geographic Information Science, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7300. Advanced Geographic Research Design.

The purpose of this course is to develop an appreciation for the process of research as practiced by contemporary professional geographers. Topics covered include formulating research problems, reviewing and critiquing published literature, developing and executing a research design, and completing a research project.

GEO 7301. Advanced Quantitative Methods in Geography.

How to mathematically and statistically model geographic problems is the focus of this course. The application of multivariate statistical techniques to geographic problems and the problems that spatial data create in the application of statistical and other quantitative techniques are central issues.

GEO 7302. Nature and Philosophy of Geography.

This course is a critical analysis of the historical development of geographic thought: its roots, its present status, and future directions. (MULT).

GEO 7304. Qualitative Research Methods.

This course introduces the qualitative research paradigm, including research design, methods of data collection, and inductive analysis. Standards of scientific research that call for a deeper evaluation of complex social relationships are emphasized. The focus and application will be oriented towards human geography and nature-society relations.

GEO 7305. Historical Geography of the Environment.

This course examines the evolution of environmental problems using the techniques and analytical perspectives of historical geography. Special emphasis is given to the emergence of environmental challenges related to urbanization and climate change. Students engage with scholarship related to historical geography of the environment and develop original research related to environmental change.

GEO 7308. Advanced Regional Field Studies.

Advanced study of geographic phenomena during field excursions to a particular site or region. Course includes preparation of site inventory, site guides, and on-site presentations. Repeatable once for additional credit with a different site or region.

GEO 7313. Environmental Systems.

Theories and concepts involved in environmental systems will be examined. Tools and research issues relevant to their analysis will also be explored. Basic principles, as well as specific research questions and techniques, will be proposed to give students a foundation for analysis of current issues involving environmental systems.

GEO 7316. Remote Sensing and the Environment.

A detailed examination and implementation of sophisticated approaches for processing satellite digital images with emphasis on environmental applications.

GEO 7318. GIS and Environmental Geography.

This course examines the nature of environmental problems and explores the potential of GIS for environmental modeling and management. The conceptual basis for using GIS as well as the framing of environmental research problems will be covered.

GEO 7330. Geography of Hazards.

This seminar examines research on issues related to the geography of hazards. Topics will be determined by instructor and student interests. Special emphasis will be placed on conceptual, theoretical, and methodological approaches to advance the study of spatial aspects of hazards such as risk, vulnerability, resilience, relief, recovery, and change.

GEO 7334. Geographic Aspects of Water.

This seminar is a critical analysis of developmental and current literature that define water’s critical role in determining the physical and cultural characteristics of the earth. Principal focus will be placed on water’s role on land use and as a critical resource.

GEO 7341. Urban Environment.

Students in this course will critically engage with scholarly and governmental research relating to urban environments, urban environmentalism, and urban environmental management. Emphasis is placed on students developing and executing a unique, topically relevant research project aimed at improving our understanding of the way in which human-environment interaction influences, and is influenced by, urban geography and the urban experience. (MULT).

GEO 7342. Theories and Methods in Geographic Education.

This seminar is a critical analysis of previous and current literature concerning problems in pedagogy, philosophy, learning theory, research methods, teaching methodologies, and techniques of geographic education. A research paper will be required of each student on a topic related to the course content. (MULT).

GEO 7344. Seminar in Geographic Curriculum.

The seminar will be a survey and discussion of major curricula in geographic education. Geography will be viewed as a school subject that is part of the social studies, as an element of interdisciplinary studies, and as a stand alone subject.

GEO 7345. Contemporary Topics in Geographic Education.

This course is a survey of initiatives and reforms in geography education spanning from the 1980s to the present day. Students are expected to develop and carry out research plans that address current theories in geographic education. Repeatable once for additional credit with a different topic.

GEO 7346. Standards and Assessment in Geography.

An introduction to assessment procedures in geography education is central to the course. Analysis of national standards in geography and how they have affected geographic learning in grades K-12 will be addressed.

GEO 7349. Population Geography.

An in-depth study of the growth, movement, and spatial distribution of human populations is the central theme. Students will read and discuss professional articles that stress both theory and analytical techniques. Topics will include population growth and the environment, rural and small town depopulation, spatial diffusion processes, migration trends and theories, urban population growth, and techniques such as multivariate analysis and population projections. (MULT).

GEO 7350. Practicum in Teaching Geography.

This course introduces key concepts in teaching geography and provides regular training and planned periodic evaluations of instructional responsibilities. Course topics include instructional and assessment strategies in geography and classroom management. This course is required for first-year instructional assistants in the Geography Department. Students do not earn graduate degree credit.

GEO 7352. Social Theory, Space, and Geography.

This course examines key texts and concepts in social and political theory, focusing on theories of space and their mobilization in geographical research. Space and geography are approached with respect to several topics and debates in social theory including structuralism and agency, feminist theory and embodiment, racial formations, assemblage thinking and actor-network theory, hybridity, governance, and scale.

GEO 7361. Advanced Geographic Information Systems.

This course provides exposure to advanced topics in GIS, particularly to quantitative methods and techniques for developing and interpreting models of natural and anthropogenic phenomena over the geographical space.

GEO 7362. Geographic Visualization.

This course focuses on the interdisciplinary field of Geographic Visualization. Students will review visualization research in computer graphics, human computer interaction, GIScience, and cartography and relate the research approaches to useful and usable geographic visualizations. Prerequisite: GEO 3411 with a grade of "D" or better.

GEO 7364. Geocomputation.

Geocomputation reviews and analyzes concepts of computational modeling in Geography. The course will include modeling theory and advanced topics such as parallel processing, neural networks, cellular automata, scientific visualization, and fuzzy modeling. Students will practice model development, specifically spatially explicit simulation.

GEO 7365. Theoretical Cartography.

This course focuses on theoretical developments in cartography, and in particular looks at the role of maps and other graphic devices as tools for the discovery, analysis, and communication of geographical knowledge. Prerequisite: GEO 3411 with a grade of "D" or better.

GEO 7366. Advanced Topics in Remote Sensing.

The course focuses on advanced topics including the theoretical basis, mathematical foundations, and current research frontiers in remote sensing. Prerequisite: GEO 5415 with a grade of "C" or better.

GEO 7368. Lidar and SfM Data Processing and Analysis.

This course covers doctoral level skills in Light Detection and Ranging (lidar) systems and Structure from Motion (SfM) workflows for mapping and analysis of the environment. Students learn to successfully apply knowledge of lidar data and SfM workflows for a variety of Geographic Information Science applications.

GEO 7369. Exploring Spatial Databases.

This course covers principles of spatial ontologies and spatial semantics to facilitate appropriate database conceptualization, design and implementation. Course assignments and projects provide in-depth experience with database query languages. Course work is completed using a spatially-enabled Relational Database Management Systems (RDBMS). Prerequisite: GEO 7417 or equivalent with a grade of 'B' or better.

GEO 7370. Advanced Seminar in Environmental Geography.

This research seminar focuses on the methods, approaches, issues, and concepts of major themes in environmental geography. Special emphasis will be placed on theoretical and conceptual understandings of how humans interact with the environment from a geographical perspective. Repeatable once for additional credit with a different topic.

GEO 7371. Advanced Seminar in Geographic Education.

This research seminar analyzes literature and research into recent trends in geographic education. Emphasis will be on new developments in curriculum, content, and teaching methodologies. Repeatable once for additional credit with a different topic.

GEO 7372. Seminar in Geographic Information Science.

This course deals with advanced and current research issues in Geographic Information Science. Based on this objective, the course aims at educating doctoral students to conduct research in Geographic Information Science as well as develop innovative applications of Geographic Information Science. May be repeated for credit with a different topic.

GEO 7390. Independent Study.

Research in geography under the direction of a supervising professor. Repeatable once for additional credit with a different topic.

GEO 7393B. Biogeography in Mountain Environments.

This course examines how plants and animals interact with and affect geomorphological processes and landforms, and how geomorphological processes, landforms and geological factors affect spatial distribution of animals and plants; all within the environmental limitation and conditions of mountains. The role of humans in affecting these interrelationships will be emphasized.

GEO 7393C. Managing Urbanization.

This course examines survey methods and procedures related to managing and preparing for urban growth. Selected topics for examination include transportation planning, housing, historic preservation, and environmental design.

GEO 7393D. International Migration.

This course provides a survey of geographic and social science research conducted across various topics of international migration. (MULT).

GEO 7393E. Geography of Land Mangagement.

This course explores U.S. land management philosophies, techniques, and development approaches. Major topics include land ethics/philosophies, U.S. traditions in cadastral geography, urban sprawl and green development, land conservation techniques, the role of local/state/federal regulation in land management, and the human-environment impacts of land development.

GEO 7393F. Gender and Development.

This course is a survey of geographic and social science research conducted across various topics of gender studies and international development. (MULT).

GEO 7393G. Political Geography.

This course is a survey of geographic and social science research conducted across various topics of political geography. (MULT).

GEO 7393J. Soil and Society.

This course explores the importance of soil resources for environmental and socioeconomic sustainability. Soil science will be introduced, but the majority of the course will focus on soil's value to societies. Specific topics that will be explored include soil geography, historical abuses of soil resources, and current conservation efforts.

GEO 7393K. Biogeomorphology.

This course will examine the ways in which plants and animals interact with and affect geomorphological processes and landforms, and how geomorphological processes, landforms, and geological factors affect spatial distributions of animals and plants. The role of humans in affecting these interrelationships will be emphasized.

GEO 7393M. Global Climate Change.

This course examines various implications of global climate change, including impacts on science, politics, and society. Emphasis will be placed on anthropogenic influences across the 20th and 21st centuries, contemporary mitigation options, and future adaptation strategies amidst a complex and dynamic climate system.

GEO 7393N. Rivers and Society.

This course examines river system processes and how they are influenced by human activities. We will discuss the principles and practices of large-scale river basin management with an emphasis on the different perspectives and motivations driving different management goals.

GEO 7393P. Advanced Seminar in Human Geography.

This course will engage students in systematic critical analysis of the theories and methods of human geography. The students will conduct careful research on a topic in human geography.

GEO 7393Q. Geomorphology in the Anthropocene.

This course will examine the ways in which humans interact with and affect geomorphological processes and landforms, and how humans directly act as geomorphological agents. The level at which human activities have transformed the surface of the Earth will be examined.

GEO 7399A. Dissertation.

Original research and writing in Geography, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7399B. Dissertation.

Original research and writing in Geographic Education, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7399C. Dissertation.

Original research and writing in Geographic Information Science, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7415. Geographic Applications of Remote Sensing.

Students will focus on geographic applications of the principles and practices of digital image processing, classification, and modeling using satellite images.

GEO 7417. Geographic Information Systems.

Course is concerned with the analysis of interpretation of maps stored in digital form. Students are introduced to the concepts involving computerized cartographic and geographic data input, storage and retrieval, data manipulation and analysis, graphic and tabular report generation, and cartographic modeling.

GEO 7418. Technical Foundations and Methods in Geographic Information Science.

This course addresses technical foundations and methods in management, analysis, visualization, and dissemination of geographically-referenced data and information in digital form. Topics include data structures, algorithms, and a variety of methods used in GIS and spatial data analysis.

GEO 7419. Advanced Techniques in Geographic Information Science.

This course develops advanced Geographic Information System (GIS) concepts and application issues, spatial data manipulation and analysis skills, and provides hands-on experience with GIS, programming, and spatial analytics hardware/software programs. Emphasis is placed on practical application of skills to real world issues using advanced GIS techniques and geoprogramming. Prerequisite: GEO 7417 or equivalent with a grade of "C" or better and instructor approval.

GEO 7430. Field Methods.

Methods and techniques for observing, measuring, recording, and reporting on geographic phenomena are investigated in this course. Students will learn the use of instruments and materials in the collection of data for mapping and field research in the local area. Prerequisites: GEO 2410 and GEO 3301 both with grades of "D" or better.

GEO 7447. Spatial Graphics in Geographic Education.

This course examines traditional and innovative geoinformation and geovisualization technologies and their relationship to spatial thinking and the teaching and learning of geography. The course reviews academic literature, research methods, and teaching methodologies related to spatial graphics in geographic education. The lab portion provides geovisualization design skills for geographic education.

GEO 7599A. Dissertation.

Original research and writing in Geography to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7599B. Dissertation.

Original research and writing in Geographic Education to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7599C. Dissertation.

Original research and writing in Geographic Information Science, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each long semester.

GEO 7699A. Dissertation.

Original research and writing in Geography, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7699B. Dissertation.

Original research and writing in Geographic Education, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7699C. Dissertation.

Original research and writing in Geographic Information Science, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7999A. Dissertation.

Original research and writing in Geography, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7999B. Dissertation.

Original research and writing in Geographic Education, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

GEO 7999C. Dissertation.

Original research and writing in Geographic Information Science, to be accomplished under direct supervision of the dissertation advisor. While conducting dissertation research and writing, students must be continuously enrolled each semester (including summer) for at least three dissertation hours.

PHIL 7101. Responsible Conduct of Research and Research Ethics.

In this course students will examine issues, concepts, and cases in research ethics and the responsible conduct of research. Designed to meet NSF and NIH requirements for training, topics will include research integrity, conflicts of interest, authorship, peer review, human and animal experimentation, mentorship, data, and values in science. This course does not earn graduate degree credit.

PHIL 7323. Environmental Ethics and Sustainable Aquatic Resources.

Examination of the ethical implications of environmental use and management policies and practices, with emphasis on sustainable aquatic resources.

PHIL 7355. Philosophy of Science.

Students in this course will investigate the nature and processes of scientific inquiry; the role of values in generating and using scientific knowledge; some of the fundamental concepts in science, including relevant evidence, induction, explanation; and the intellectual commitments made when accepting a scientific theory.