Stony Brook Undergraduate Bulletin - Fall 2024BIO (2024)

Table of Contents
BIO103: Introduction to Biotechnology BIO113: General Ecology BIO114: Dinosaur Paleontology BIO115: Evolution and Society BIO201: Fundamentals of Biology: Organisms to Ecosystems BIO202: Fundamentals of Biology: Molecular and Cellular Biology BIO203: Fundamentals of Biology: Cellular and Organ Physiology BIO204: Fundamentals of Scientific Inquiry in the Biological Sciences I BIO205: Fundamentals of Scientific Inquiry in the Biological Sciences IIA BIO207: Fundamentals of Scientific Inquiry in the Biological Sciences IIB BIO208: Cells, Brains, Minds BIO211: Statistics and Data Analysis: A Conceptual Approach BIO231: Cannabis: History, Culture, Science & Medicinal Uses BIO299: Advanced Microbiology for Nursing and Allied Health BIO310: Cell Biology BIO312: Bioinformatics and Computational Biology BIO314: Cancer Biology BIO315: Microbiology BIO316: Molecular Immunology BIO317: Principles of Cellular Signaling BIO319: Landscape Ecology Laboratory BIO320: General Genetics BIO321: Ecological Genetics BIO325: Animal Development BIO327: Developmental Genetics Laboratory BIO328: Mammalian Physiology BIO332: Computational Modeling of Physiological Systems BIO334: Principles of Neurobiology BIO335: Neurobiology Laboratory BIO336: Conservation Biology BIO337: Neurotransmission and Neuromodulation: Implications for Brain Function BIO338: From Synapse to Circuit: Self-organization of the Brain BIO339: Neurobiology of Disease BIO341: Plant Diversity BIO342: Invertebrate Zoology BIO343: Invertebrate Zoology Laboratory BIO344: Chordate Zoology BIO347: Introduction to Neural Computation BIO348: Diversity and Evolution of Reptiles and Amphibians BIO351: Ecology BIO352: Ecology Laboratory BIO353: Marine Ecology BIO354: Evolution BIO356: Population and Community Ecology Computer Laboratory BIO358: Biology and Human Social and Sexual Behavior BIO361: Biochemistry I BIO362: Biochemistry II BIO364: Laboratory Techniques in Cancer Biology BIO365: Biochemistry Laboratory BIO366: Molecular Microbiology Laboratory BIO367: Molecular Diversity Laboratory BIO368: Food Microbiology BIO369: Animal Nutrition BIO371: Restoration of Aquatic Ecosystems BIO383: Paleobiology BIO384: Intermediate Statistics BIO385: Plant Ecology BIO386: Ecosystem Ecology and the Global Environment BIO444: Experiential Learning BIO446: Readings in Neurobiology and Physiology BIO447: Readings in Molecular, Cellular, and Developmental Biology BIO449: Readings in Ecology and Evolution BIO458: Speak Effectively Before an Audience BIO459: Write Effectively in Biology BIO475: Undergraduate Teaching Practicum in College Biology I BIO476: Undergraduate Teaching Practicum in College Biology II BIO477: Undergraduate Teaching Practicum in College Biology III BIO484: Research in Biology and Society BIO486: Research in Neurobiology and Physiology BIO487: Research in Molecular, Cellular, and Developmental Biology BIO488: Internship in Biological Sciences BIO489: Research in Ecology and Evolution References

BIO103: Introduction to Biotechnology

Gene therapy, genetic modification, cloning, stem cells, and vaccines are covered in this course. Lectures and four supplemental laboratory activities use modern equipment and techniques to illustrate core concepts which class discussions relate to health, society, and public policy. Not for Biology major credit.

DEC:E
SBC: SNW

3 credits

BIO113: General Ecology

A survey of the principles of ecology in the context of finding solutions to local, national, and global environmental problems. Not for Biology major credit.

DEC:E
SBC: SNW

3 credits

BIO114: Dinosaur Paleontology

A study of paleontology that includes evolution of dinosaurs, their classificationsystem, a study of the important dinosaur families, dinosaur behavior, ecology,current controversies, hot topics and the KT extinction. Dinosaur paleontology will also cover the excavation of dinosaurs and the colorful history of the 'dinosaur hunters.' This course will emphasize the science and research involved in studying dinosaurs. Using dinosaurs as a vehicle, students will be exposed to the scientific method of inquiry and will leave this course with a better understanding on how to evaluate science in the real world. Not for Biology major credit.

Advisory prerequisite: Entry level biology

DEC:E
SBC: SNW

3 credits

BIO115: Evolution and Society

An introduction to the historical and theoretical aspects of evolutionary biology, and also considers the implications of evolution for current social and public issues. The course examines both the original Darwinian and Modern Synthetic arguments for evolution by natural selection, how to differentiate scientific and non-scientific theories, and how historical sciences are practiced by scientists. Evolution is the key to understanding much of biology and influences a number of issues that we as citizens will have to consider in coming years. In particular, the evolutionary perspective and its implications for the development of humans and other social systems, the advent of agriculture, and its integral role in human health are considered. Not for Biology major credit.

DEC:E
SBC: SNW

3 credits

BIO201: Fundamentals of Biology: Organisms to Ecosystems

An introduction to the major concepts in evolution, ecology, and biodiversity at the genetic, organismal, community, and ecosystem levels. Topics are presented in relation to five overall themes: Nature and Process of Science, Evolution, Information Flow, Systems, and Structure-Function. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so.

Prerequisite: Level 4 or higher on the mathematics placement examination or Corequisite MAT 123 or higher

Advisory Prerequisite: High School Biology

DEC:E
SBC: SNW

3 credits

BIO202: Fundamentals of Biology: Molecular and Cellular Biology

The fundamentals of cell biology, biochemistry, and genetics. The biochemical and molecular bases of cell structure, energy metabolism, gene regulation, heredity, and development in living organisms from bacteria to man are discussed. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so.

Prerequisite: C or higher in CHE 129 or CHE 131 or Corequisite CHE 152

DEC:E
SBC: STEM+

3 credits

BIO203: Fundamentals of Biology: Cellular and Organ Physiology

The fundamentals of cell and organ physiology in mammalian and non-mammalian organisms. The structure and function of cell membranes and the physiology of cell to cell signaling, cellular respiration, and homeostasis of organs and organisms are examined with an emphasis on the comparative physiology of vertebrates and invertebrates. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so.

Prerequisite: C or higher in CHE 129 or CHE 131 or Corequisite CHE 152

Pre- or Corequisite: MAT 125 or higher or AMS 151 or higher

DEC:E
SBC: STEM+

3 credits

BIO204: Fundamentals of Scientific Inquiry in the Biological Sciences I

First course in the foundational laboratory sequence for all biology students, and students in related fields. Students will experience the laboratory process, research process, a wide range of laboratory tools, methods, skills, learn to read and write scientific presentations, and collaborate in formal inquiry. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information. This course includes assignments that can be used to satisfy the SBC objective SPK if co-registered for BIO 458.

Prerequisite: C or higher in CHE 129, CHE 131, or Corequisite: CHE 152

Pre- or Corequisite: BIO 201 or BIO 202 or BIO 203

2 credits

BIO205: Fundamentals of Scientific Inquiry in the Biological Sciences IIA

Second course in the foundational laboratory sequence for all biology students, and students in related fields. Students will experience the laboratory process, research process, a wide range of laboratory tools, methods, skills, learn to read and write scientific presentations, and collaborate in formal inquiry. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so. Not for credit in addition to BIO 207. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 204

Pre- or Corequisite: BIO 201 or BIO 202 or BIO 203

2 credits

BIO207: Fundamentals of Scientific Inquiry in the Biological Sciences IIB

An alternative to BIO 205, this course focuses on a relatively narrow range of current research topics but in greater depth. BIO 207 is the second course in the foundational laboratory sequence for all biology majors and students in related fields. Students will experience the laboratory process, research process, a wide range of laboratory tools, methods, and skills, learn to read and write scientific works, and collaborate in formal inquiry. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so. Not for credit in addition to BIO 205. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 204

Pre- or Corequisite: BIO 201 or BIO 202 or BIO 203

2 credits

BIO208: Cells, Brains, Minds

An interdisciplinary exploration and critique of neuroscience. The course will present biological, anthropological and philosophical perspectives on how nervous systems work and how brains evolve, develop and give rise to human and other minds. Not for Biology major credit.

Advisory Prerequisite: High school chemistry

DEC:H
SBC: STAS

3 credits

BIO211: Statistics and Data Analysis: A Conceptual Approach

A conceptually-focused introduction to probability and data analysis emphasizing statistical literacy and critical thinking. Topics will include probability, t-tests, chi-squared tests, correlation, regression, and Analysis of Variance, as well as special topics of interest to undergraduate Biology majors such as case-control studies and meta-analysis. This course includes a one-hour recitation in which students will do hands-on activities, discuss papers from the primary literature, and gain experience with data analysis. Maynot be taken by students with credit for AMS 110, 310, 311, 412, EBH 230, or ECO 320.

Pre- or Corequisite: MAT 123 or higher, or level 4 or higher on the mathematics placement examination

DEC:C
SBC: STEM+

4 credits

BIO231: Cannabis: History, Culture, Science & Medicinal Uses

Provide a sound background in all aspects of cannabis, including the history of use worldwide, cannabis plant biology, the chemistry of cannabinoids and endocannabinoids, and the relationship to political, legal, and racism issues throughout history to the present. The purpose of this broad familiarization is to prepare students to contribute knowledgeably to the discussion and debate regarding the present and future uses of cannabis.

Advisory prerequisite: BIO 202

SBC: STAS

3 credits

BIO299: Advanced Microbiology for Nursing and Allied Health

This course will include lectures, laboratory recitations, and laboratory sessions focused on fundamental clinical Microbiology techniques. The lectures will cover Bacteria, Viruses, Helminths, and medically important Protozoans. In the laboratory, students will learn basic and applied clinical microbiology methods, including microscopy; staining and quantitative analysis of bacteria; analysis of throat and urine cultures; and determination of sensitivity to various antimicrobial agents. Priority for this course will be given to allied health, pre-nursing, and pre-veterinary students. May not be used for credit towards either the Biology major or minor. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information. Formerly offered as BIO 266; not for credit in addition to BIO 266.

Prerequisite: C or higher in BIO 202 and C or higher in BIO 204

4 credits

BIO310: Cell Biology

The cell is studied as the unit of structure, biochemical activity, genetic control, and differentiation. The principles of biochemistry and genetics are applied to an understanding of nutrition, growth, and development.

Prerequisites: C or higher in BIO 202; and C or higher in BIO 203; and CHE 321 or CHE 331 or CHE 341

3 credits

BIO312: Bioinformatics and Computational Biology

This course uses computational methods to analyze current problems and solutions in molecular biology research. Students are exposed to algorithms and tools available for both single gene and larger scale genome research. Emphasis is on practical application. Laboratories allow students to apply their knowledge to real life molecular biology problems. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 312.

Prerequisites: C or higher in BIO 202; and C or higher in BIO 204; and MAT 125 or higher or AMS 151 or higher

Advisory Pre- or Corequisite: AMS 110, or BIO 211

SBC: ESI, TECH

3 credits

BIO314: Cancer Biology

An examination of the biology of cancer. Emphasis is on molecular and cellular events, such as regulation of gene expression, genome maintenance, cell growth and death, differentiation, cell-cell recognition, signaling and homeostasis that are frequently disrupted in cancer. Recent advances in diagnosis and therapy will also be discussed.

Prerequisite: C or higher in BIO 202

3 credits

BIO315: Microbiology

The organization, structure, energetics, and reproduction of microorganisms. Interactions of bacteria and viruses are discussed. This course does not include a laboratory component. Not for credit in addition to HBM 320. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so.

Prerequisites: C or higher in BIO 202

Advisory Pre- or Corequisite: BIO 201

3 credits

BIO316: Molecular Immunology

Structure, function, and organization of the immune response at the molecular and cellular levels. Molecular mechanisms of immunological responses to microorganisms and various disease states are explored.

Prerequisites: C or higher in BIO 202 and C or higher in BIO 203

Pre- or corequisite: CHE 322 or CHE 326 or CHE 332

3 credits

BIO317: Principles of Cellular Signaling

Basic principles of cellular signaling and maintenance of cellular and organismic homeostasis through intra- and intercellular signaling mechanisms. The roles of membrane and nuclear receptors, second-messenger pathways and gene regulation in controlling diverse mammalian systems such as sensory physiology, organic metabolism, growth control, and neuronal development are discussed.

Prerequisite: C or higher in BIO 202

Advisory Prerequisite: BIO 203

3 credits

BIO319: Landscape Ecology Laboratory

A computer lab course focusing on spatial concepts, methods, and tools for addressing ecological and environmental problems. The course will be based on fundamental concepts in ecology and environmental science and extend that knowledge, as well as teaching technical skills, including the use of geographic information systems (GIS) software, image processing, spatially explicit modeling, and spatial statistics. The lab exercises will introduce a variety of spatial approaches addressing problems in environmental protection, ecotoxicology, natural resource management, conservation biology, and wildlife management.

Pre- or Corequisite: BIO 201

Advisory Prerequisites: AMS 110 or BIO 211; and BIO 351

SBC: ESI

3 credits

BIO320: General Genetics

Integrates classical and molecular approaches to the transmission and expression of biological information. Topics include: Mendelian and non-Mendelian inheritance; linkage analysis; population genetics; DNA replication, mutation and recombination; gene expression and its regulation; current genetic technology; developmental and cancer genetics, quantitative and complex traits, and relevant ethical issues. Cannot be taken for major credit with BIO 321 (applies to Biology majors Only). This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 320.

Prerequisite: C or higher in BIO 202; and C or higher in MAT 125 or AMS 151, or completion of MAT 126 or higher, or MPE score of 6+

3 credits

BIO321: Ecological Genetics

An introduction to the concepts, research questions, and methods involved in modern ecological genetics. The goal of the course is to provide a broad conceptual framework and an introduction to basic quantitative methods for students planning to engage in empirical work in conservation, management, ecology, and evolutionary biology. The course will cover basic Mendelian genetics, meiosis, and mating systems, standard population genetics methods for describing variation within and between populations, basic quantitative genetics, methods for molecular marker genotyping, informatic and genomic concepts, and organism-specific methods and case studies. Cannot be taken for major credit with BIO 320 (applies to Biology majors only). This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 321.

Prerequisites: C or higher in BIO 201 and C or higher in BIO 202

Advisory Pre- or Corequisite: BIO 351

3 credits

BIO325: Animal Development

An overview of animal embryonic development, emphasizing molecular mechanisms regulating embryonic growth and differentiation. General areas to be discussed include: molecular basis of human birth defects, stem cells, identification of developmental genes, establishing polarity in Drosophila and vertebrates, regulation of cell differentiation, morphogenesis and organ development, development of cancer.

Prerequisite: C or higher in BIO 202

3 credits

BIO327: Developmental Genetics Laboratory

Exploration of the fundamental concepts in developmental biology and genetics through a combination of classical and modern molecular genetic approaches. Experiments are conducted using Drosophila and Nematostella, two important animal models for research in developmental biology and genetics. Students gain hands-on experience with the approaches used to investigate processes that control embryonic development on these two model systems, including the use of modern molecular methods for examining the regulation of gene expression during development. Exposure to the genetic approaches that are available in the Drosophila system will include participation in a genetic screen. This course includes assignments that can be used to satisfy the SBC objective SPK if co-registered for BIO 458. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 327. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisites: C or higher in BIO 325; and C or higher in BIO 205 or BIO 207

Pre- or corequisite: BIO 320 or BIO 321 or EBH 302

SBC: ESI

3 credits

BIO328: Mammalian Physiology

A continuation of the fundamental principles of cellular and organ physiology introduced in BIO 203. The subject matter includes advanced topics covering the origins of membrane potentials, describing properties of synaptic transmission, identifying the genetics and consequences of channelopathies in cellular and organ cardiac physiology, and advanced treatment of selected topics in endocrine, cardiac, respiratory, renal and nervous system physiology. The focus is on mammals in general and humans more particularly. May not be taken for credit in addition to HBY 350.

Prerequisite: C or higher in BIO 203 and C or higher in CHE 132 or CHE 152 or CHE 331

3 credits

BIO332: Computational Modeling of Physiological Systems

Introduces students to the fundamental principles underlying computational modeling of complex physiological systems. A major focus of the course will be on the process by which a model of a biological system is developed. Students will be introduced to the mathematical methods required for the modeling of complex systems (including stochastic processes and both temporal and spatial dynamics) as well as to tools for computational simulation. Roughly one half of the class will focus on models for general cellular physiology, while the remaining half will focus on the development of higher-level models of a particular physiological system (for example, the neurobiological systems underlying learning). This course is offered as both AMS 332 and BIO 332 and is intended for STEM majors who have already completed the foundational courses in their major. Students who satisfy the pre-requisites but do not have a deeper background in some STEM field may find the class very challenging and should ask the instructor for guidance before registering.

Prerequisite: MAT 127 or MAT 132 or AMS 161 or MPE level 9 and any one of the following: BIO 202 or BIO 203 or CHE 132 or CHE 331 or PHY 127 or PHY 132

3 credits

BIO334: Principles of Neurobiology

The ionic basis of nerve potentials, the physiology of synapses, sense organs and effectors, and the integrative action of the nervous system are discussed.

Prerequisite: C or higher in BIO 203

3 credits

BIO335: Neurobiology Laboratory

A laboratory course in physiology with a focus on neuromuscular function. Topics include acquisition and analysis of electrophysiological data; ion channels, electrical excitability and action potentials; synaptic transmission and muscular contraction; development of physiological functions; central control of movement; sensory function and behavior; cardiac function and regulation; and ethical and political issues of physiological relevance. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 335. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 203; and C or higher in BIO 205 or 207; and C or higher in

PHY 122 or PHY 127 or PHY 132

SBC: ESI

3 credits

BIO336: Conservation Biology

Society and individual lives are increasingly affected by environmental degradation at different scales. From the decline of local fisheries to global climate change, multiple crises threaten the biodiversity and ecosystems that sustain us humans. This course introduces the scientific foundations of conservation biology, along with examples from real-world conservation. The course reviews the biological concepts that underlie conservation including habitat requirements, population dynamics, biogeography, and population genetics. Analysis of case studies on the effects of human activities on biological diversity and ecosystem services will be used to explore the interdisciplinary nature of the practice of conservation. This course will prepare students for careers in environmental sciences and ecology. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 336.

Prerequisite: C or higher in BIO 201

Advisory Pre- or Corequisite: BIO 320 or BIO 321; and BIO 351

DEC:H
SBC: STAS

3 credits

BIO337: Neurotransmission and Neuromodulation: Implications for Brain Function

Exploration of fundamental concepts of neurotransmission and neuromodulation of synaptic transmission. The subject matter includes an overview of the basic principles of neurotransmission and of the neuromodulatory systems in the brain. The involvement of these systems in behavior and neurological disorders is emphasized. We will discuss how specific neurological disorders can be investigated experimentally and how experimental results can contribute to understanding and treating these disorders.

Prerequisite: C or higher in BIO 203

3 credits

BIO338: From Synapse to Circuit: Self-organization of the Brain

Exploration of basic neural and synaptic mechanisms and the operation of representative brain circuits, using both theoretical approaches and experimental evidence. Particular attention is given to Hebb's Rule, its cellular basis, its consequences for circuit selforganization, and its limits. A solid background in a mathematical, physical, or biological science is desirable, but most relevant background material is covered in the course.

Prerequisite: Instructor permission and BIO 203 or CHE 132 or CHE 331 or PHY 122

Advisory Prerequisite: BIO 334

3 credits

BIO339: Neurobiology of Disease

An introduction to the molecular events that underlie the normal function of the nervous system, with a focus on the origins of neuronal diseases including neurodevelopmental disorders (e.g. autism, intellectual disability), neurodegenerative diseases (e.g. Parkinson's, Alzheimer's) and neuro-immune disorders (e.g. Multiple sclerosis). Molecular and genetic approaches for the study of these disorders as well as therapeutic approaches and ethical aspects are discussed.

Prerequisite: C or higher in BIO 202 or C or higher in BIO 203

3 credits

BIO341: Plant Diversity

An introduction to the study of plants, especially green plants, including the origin and evolution of land plants. Topics include cellular structure and function, photosynthesis and respiration, gross anatomy, taxonomy and the diversity of organisms, plant ecology, agriculture. Three hours of lecture and one three-hour laboratory per week. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisites: C or higher in the following: BIO 201; and BIO 202; and BIO 204

4 credits

BIO342: Invertebrate Zoology

Aspects of the diversity, comparative and functional morphology, natural history,evolution, and water-land transitions of invertebrate animals. Three hours of lecture per week. Must be taken concurrently with the Invertebrate Zoology Laboratory, BIO 343.

Prerequisite: C or higher in BIO 201 or MAR 104

Corequisite: BIO 343

SBC: STEM+

3 credits

BIO343: Invertebrate Zoology Laboratory

Aspects of the diversity, comparative and functional morphology, natural history, evolution, and water-land transitions of invertebrate animals. One three-and-one-half hour laboratory per week plus a recitation. Must be taken concurrently with the Invertebrate Zoology lecture, BIO 342. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information

Prerequisites: C or higher in BIO 201 or MAR 104

Corequisite: BIO 342

2 credits

BIO344: Chordate Zoology

Introduction to the diversity, natural history, and evolution of chordates, emphasizing the living vertebrates. Three hours of lecture or discussion and one three-hour laboratory per week. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 344. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 201

4 credits

BIO347: Introduction to Neural Computation

A broad introduction to neural computation. This course will discuss what counts as 'computation' and in what sense the brain computes, how it computes, and whether those computations look anything like those performed by digital computers. These ideas and concepts will be introduced through examples of computation in the brain, including the neural bases of sensory perception, decision making, learning and memory, and motor control. Students will learn through in-class demonstrations and activities, as well as homework assignments that give students the opportunity to analyze real neural recordings relevant to each of the topic modules.

Prerequisite: MAT 126, MAT 132, AMS 161, or higher; and BIO 211, or AMS 110, or AMS 310; and any one of BIO 202, BIO 203, CHE 132, CHE 331, PHY 127 or PHY 132. It is recommended that students take MAT 127.

SBC: STEM+

3 credits

BIO348: Diversity and Evolution of Reptiles and Amphibians

The course will survey the diversity and natural history of the major groups of reptiles and amphibians, including snakes, lizards, turtles, crocodilians, frogs, and salamanders. Extinct groups (such as dinosaurs and pterosaurs) will also be covered. Furthermore, the course will showcase how studies of reptiles and amphibians have increased our general understanding of evolution and ecology, and will illustrate how diverse aspects of organismal biology (such as physiology, ecology, behavior, morphology) evolve and are interconnected.

Prerequisite: C or higher in BIO 201

3 credits

BIO351: Ecology

An examination of the interactions of living organisms with their physical and biological environments. Attention is given to population dynamics, the interactions among organisms, the structure and function of biological communities, the evolution of organisms and their interactions, spatial relationships and scale, and patterns and explanations for biodiversity and its loss.

Prerequisite: C or higher in BIO 201

DEC:H
SBC: STEM+

3 credits

BIO352: Ecology Laboratory

Stresses the collection, analysis, and interpretation of ecological data, mostly in terrestrial settings. Laboratory and field exercises demonstrate the operation of general ecological principles in specific populations and communities. One lecture, one three-hour field trip or laboratory, and one hour of recitation per week. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology major. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 352. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 205 or BIO 207

Pre- or corequisite: BIO 351

SBC: ESI

3 credits

BIO353: Marine Ecology

A survey of biotic responses to ecological challenges in different marine realms. Controls of diversity and trophic structure in the marine ecosystem, historical aspects of marine realms, productivity in the oceans, plankton, soft-bottom communities, intertidal habitats, coral reefs, deep-sea environments, and effects of pollution in the ocean are discussed. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 353.

Prerequisite: C or higher in BIO 201 or MAR 104

Advisory Prerequisite: BIO 343

SBC: STEM+

3 credits

BIO354: Evolution

A detailed discussion of the mechanisms of evolution, focusing on the ways in which genetic changes in populations lead to adaptation, speciation, and historical patterns of evolutionary change. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 354.

Prerequisites: C or higher in BIO 201 and C or higher in BIO 202

Advisory pre- or corequisite: BIO 320 or 321

3 credits

BIO356: Population and Community Ecology Computer Laboratory

A computer laboratory course where population and community ecology concepts are applied to real-world datasets and simulated data. Laboratories are based on free interactive software. Techniques for data wrangling and computer simulation of ecological models are emphasized.

Prerequisite: C or higher in BIO 201, or C or higher in BIO 202, or C or higher in BIO 203; and C or higher in BIO 204; and MAT 126 or higher

SBC: STEM+

2 credits

BIO358: Biology and Human Social and Sexual Behavior

Major features of human social and sexual behavior are examined from a biological perspective. Insights from ethology, evolutionary biology, and neurobiology are synthesized into a picture of human nature and behavior. Implications of this picture for human sexual and social behavior are considered. This course has been designated as a High Demand/Controlled Access (HD/CA) course. Students registering for HD/CA courses for the first time will have priority to do so.

Prerequisites: U3 or U4 standing; and one of the following: ANP 101, BIO 115, BIO 201, BIO 202, or BIO 203

DEC:H
SBC: ESI, STAS

3 credits

BIO361: Biochemistry I

First course of an advanced two-semester study of the major chemical constituents of the cell, including carbohydrates, lipids, and proteins. Emphasis is on enzyme structure, enzyme kinetics, reaction mechanisms, and metabolic pathways.

Prerequisite: C or higher in BIO 202 and C or higher in CHE 322 or 332 or 326

3 credits

BIO362: Biochemistry II

Second course of an advanced two-semester study of biochemistry. BIO 362 is the Molecular Biochemistry section that treats nucleic acid structure, replication, and transcription, both in vivo and in vitro. The machinery and regulation of prokaryotic and eukaryotic protein synthesis is also covered, including amino acid activation; transfer RNA; ribosomes; the genetic code; and peptide chain initiation, elongation, and termination.

Prerequisites: C or higher in BIO 361 or CHE 346

3 credits

BIO364: Laboratory Techniques in Cancer Biology

This course will introduce contemporary concepts of cancer initiation, progression, metastasis and therapy. The lectures and recitations will include discussions of appropriate review articles, textbook readings and research articles. In the laboratory, students will be introduced to and recapitulate key techniques used in the selected research articles. This course will require significant work on computers outside of class time (more than 3 hours per week). This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 364. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 205 or BIO 207

Pre- or corequisite: BIO 314 with a grade of C or higher if used as a prerequisite

3 credits

BIO365: Biochemistry Laboratory

This course consists of lecture and laboratory components. In the lecture portion of the course, students are introduced to modern technologies used to study proteins, nucleic acids, and other macromolecules as well as the application of these methods in contemporary research. Scientists at Stony Brook University will be invited to present and discuss with students the application of these methods in their current research and in assigned primary publications. The laboratory component is divided into four modules designed to teach basic biochemistry techniques as well as develop the skills of problem solving and analytical thinking. The laboratory modules include: (1) classical biochemistry techniques to extract and quantify cellular constituents such as chlorophyll, DNA, RNA and proteins from Euglena gracilis, (2) characterize bovine catalase enzyme kinetics and design experiments to measure student's blood catalase levels, (3) purification of a His-tagged protein and the evaluation of its purity using SDS gel electrophoresis and western blot analysis, and (4) students will amplify and sequence their mitochondrial control region DNA and compare their sequence to known sequences dating back to the earliest hominids. For each set of experiments the students will need to write a lab report describing their own work and discuss their results in the light of previously published research. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 365. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 205 or BIO 207

Pre- or corequisite: BIO 310 or BIO 361

SBC: ESI

3 credits

BIO366: Molecular Microbiology Laboratory

This course will include both lectures as well laboratory sessions focused on conventional and contemporary Molecular Microbiological techniques. The lectures will cover a variety of microorganisms; Bacteria, Fungi, Viruses, and Protozoans based on textbook readings and current research articles. In the laboratory, students will learn fundamental and applied microbiological methods, biochemical and DNA profiling of microorganisms, and the molecular basis of physiological processes used for the identification of unknown bacteria. This course will serve as an upper-division elective for BIO majors. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 366. The course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: BIO major; and C or higher in BIO 205 or 207; and C or higher in BIO 315

4 credits

BIO367: Molecular Diversity Laboratory

Hands-on experience with methods to detect and analyze molecular (DNA, RNA, protein) variation to study ecology, adaptation, and evolutionary history using natural populations of Drosophila, plankton, and other locally available species. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 367. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 201; and C or higher in BIO 202; and C or higher in BIO 205 or BIO 207

Advisory pre- or corequisite: One of the following: BIO 320, BIO 321, BIO 351, or BIO 354

3 credits

BIO368: Food Microbiology

This course is designed to give students an understanding of subtle relationshipbetween food borne microorganisms and human health. Course will cover various topics focused on microorganisms involved in food processing, preservation, spoilage, and methods to control their growth in food items. The lectures will be presented based on textbook readings and current research articles and cover in depth the role of food borne microorganisms in illness as well health promotion. This course will serve as an upper-division elective for BIO majors.

Prerequisite: C or higher in BIO 315

2 credits

BIO369: Animal Nutrition

Nutrient classes, requirements, use, and sources will be explored. Gastrointestinal anatomy and feeding standards for small, large, and exotic animal species during reproduction, growth, maintenance, and in disease are evaluated in the context of mechanisms underlying differences in nutritional requirements. Finally, laws, labeling, and marketing of animal feed will be examined. This course satisfies the prerequisite of an upper division animal nutrition course for AVMA-accredited veterinary schools.

Prerequisite: C or better in BIO 201 and BIO 202

Pre- or corequisite: BIO 203Advisory prerequisite: CHE 132 or CHE 152

3 credits

BIO371: Restoration of Aquatic Ecosystems

A field and laboratory course designed to introduce students to field methods in assessing the long-term effects of pollution and restoration of aquatic and marsh systems. Students will work in teams to collaborate on measuring exchange of pollutants between a restored Superfund site and adjacent areas, the long-term effects of ecological restoration, habitat assessment, aquatic community structure in restored and adjacent systems, and long-term evolutionary effects on aquatic pollutants. Other restoration systems will be compared. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisites: C or higher in BIO 201; and C or higher in BIO 202; and C or higher in BIO 204

Advisory Prerequisite: BIO 353

DEC:H
SBC: STAS

4 credits

BIO383: Paleobiology

Fossils are a fundamental component of the rock record and provide the only direct evidence of past life on Earth. They provide basic information for both geologists and biologists on topics like climate change, tectonic plate motion, the evolution of biological novelty, the nature of mass extinction, and the history of biodiversity. They are also increasingly used to establish natural baselines to inform modern conservation efforts. This course represents a process and systems-based study of the marine and terrestrial fossil record. The course will focus on preservation and taphonomy, macroevolution, biomechanics, paleoecology, ecomorphology, biogeography, and the extinction of biotas in the context of the environmental history of Earth. The course format consists of a mix of lecture, discussion, and lab activities. This course will additionally take advantage of connections with the Turkana Basin Institute here at Stony Brook University, where researchers play an important role in understanding the evolution and paleoecology of East African ecosystems, including that of our own ancestors. This course has an associated fee. Please see www.stonybrook.edu/coursefees for more information.

Prerequisite: C or higher in BIO 201

SBC: STEM+

3 credits

BIO384: Intermediate Statistics

This is an intermediate-level course in biostatistics, emphasizing the use of statistics as a tool to answer scientific questions in ecology and other biological disciplines. Topics from introductory statistics courses will be explored in greater depth using the R software package. Additional advanced topics will include experimental design, meta-analysis, general linear models, complex regression, multifactor analysis of variance, and multivariate analyses. Within each topic, the assumptions of statistical tests will be examined, as well as methods to cope with violations of those assumptions. Students will develop skills in graphical display of quantitative data, exploratory data analysis, and critical evaluation of published statistical analyses. Students will use R software throughout the course to develop their coding skills.

Prerequisite: BIO 211, AMS 110, or EBH 230; and BIO 201, BIO 202, or BIO 203

SBC: STEM+

3 credits

BIO385: Plant Ecology

Basic ecological principles as applied to the biology of individual plants, plant populations, communities, and ecosystems in relation to their environments. Examples from Long Island pine barrens, tropical rain forests, beaches, deserts, and other plant communities are studied. Examination of the connections between human societies and plant communities, which are rapidly being altered or destroyed worldwide. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 385.

Prerequisite: C or higher in BIO 201

Advisory Pre- or Corequisite: BIO 351

DEC:H
SBC: STAS

3 credits

BIO386: Ecosystem Ecology and the Global Environment

Ecosystem ecology with an emphasis on biogeochemical cycling in oceans and on land, as well as on biosphere-atmosphere interactions. Topics include earth system processes such as climate and atmospheric composition, the hydrological cycle, cycling of chemicals such as nutrients and metals in the oceans, the soil cycle, and the fate and transport of materials in the atmosphere. Natural and perturbed systems are discussed. This course routinely offers an opportunity to satisfy the Stony Brook Curriculum WRTD and Upper Division Writing Requirements for the Biology and Biochemistry majors. Students who intend to use the writing assignment in this course to satisfy these requirements must register for BIO 459 when they register for BIO 386. This course is offered as both BIO 386 and ENS 311.

Prerequisites: C or higher in BIO 201; and CHE 129 or CHE 131 or CHE 141 or CHE 152

Advisory Prerequisite: MAR 104

DEC:H
SBC: STAS

3 credits

BIO444: Experiential Learning

This course is designed for students who engage in a substantial, structured experiential learning activity in conjunction with another class. Experiential learning occurs when knowledge acquired through formal learning and past experience are applied to a "real-world" setting or problem to create new knowledge through a process of reflection, critical analysis, feedback and synthesis. Beyond-the-classroom experiences that support experiential learning may include: service learning, mentored research, field work, or an internship.

Prerequisite: WRT 102 or equivalent; Permission of Instructor; Approval of the EXP+ contract (http://sb.cc.stonybrook.edu/bulletin/current/policiesandregulations/degree_requirements/EXPplus.php)

SBC: EXP+

0 credit, S/U grading

BIO446: Readings in Neurobiology and Physiology

Tutorial readings in the biological sciences. These courses may be repeated, but not more than two credits may be used toward biology major requirements. Limit of one topic per semester.

Prerequisite: Undergraduate Biology program approval and permission of instructor

SBC: ESI

1-2 credits, S/U grading

BIO447: Readings in Molecular, Cellular, and Developmental Biology

Tutorial readings in the biological sciences. These courses may be repeated, but not more than two credits may be used toward biology major requirements. Limit of one topic per semester.

Prerequisite: Undergraduate Biology program approval and permission of instructor

SBC: ESI

1-2 credits, S/U grading

BIO449: Readings in Ecology and Evolution

Tutorial readings in the biological sciences. These courses may be repeated, but not more than two credits may be used toward biology major requirements. Limit of one topic per semester.

Prerequisite: Undergraduate Biology program approval and permission of instructor

SBC: ESI

1-2 credits, S/U grading

BIO458: Speak Effectively Before an Audience

A zero credit course that may be taken in conjunction with any BIO course that provides an opportunity to achieve the learning outcomes of the Stony Brook Curriculum's SPK learning objective.

Corequisite: BIO 204 or BIO 486 or BIO 487 or BIO 488 or BIO 489 or departmental permission

SBC: SPK

0 credit, S/U grading

BIO459: Write Effectively in Biology

A zero credit course that is taken in the same semester as a 300- or 400-level BIO course that provides opportunity to achieve the learning outcomes of the Stony Brook Curriculum's WRTD learning objective. For information on approved co-requisite courses and the registration form for Biology and Biochemistry majors see: https://www.stonybrook.edu/commcms/biology/advising/BIO-459.php

Corequisite: an approved upper-division course for Biochemistry,BiologyBS andBiologyBA majors; or departmental permission

SBC: WRTD

0 credit, S/U grading

BIO475: Undergraduate Teaching Practicum in College Biology I

Study of the literature, resources, and teaching strategies in a field of biology, coordinated with a supervised clinical experience in instruction. Not for major credit. Students may not serve as teaching assistants in the same course twice.

Prerequisite: Permission of instructor; and Undergraduate Biology Program approval

SBC: EXP+

0-3 credits, S/U grading

BIO476: Undergraduate Teaching Practicum in College Biology II

Study of the literature, resources, and teaching strategies in a field of biology, coordinated with a supervised clinical experience in instruction. The student should have different and/or greater responsibilities as a Teaching Assistant if the course is not different from a prior teaching practicum experience. Not for BIO major or minor credit.

Prerequisite: BIO 475; and permission of instructor; and Undergraduate Biology Program Approval

SBC: EXP+

0-3 credits, S/U grading

BIO477: Undergraduate Teaching Practicum in College Biology III

Study of the literature, resources, and teaching strategies in a field of biology, coordinated with a supervised practical experience in instruction. In the practical instructional experience, the Undergraduate Teaching Assistant works with guidance from a faculty sponsor to provide support to students in labs, recitations, conferences, tutorials, or demonstrations associated with a course being taught by the sponsor. The student should have different and/or greater responsibilities as a Teaching Assistant if the course is not different from a prior teaching practicum experience. Not for BIO major or minor credit. May be repeated.

Pre- or Corequisite: BIO 476; permission of instructor; Undergraduate Biology Program Approval

SBC: EXP+

0-3 credits, S/U grading

BIO484: Research in Biology and Society

Students work under the supervision of a faculty member in developing an individual project that makes use of the knowledge and techniques acquired in previous courses. The student reports on the project in a format agreed upon with their faculty sponsor that allows reflection on learning outcomes. This course may be repeated, but no more than four credits of research may be used for Biology major requirements. With prior permission from the faculty sponsor, this course could include assignments that can be used to satisfy the SBC objective SPK if co-registered for BIO 458, and/or the SBC objective WRTD if co-registered for BIO 459.

Prerequisite: Permission of instructor; and Undergraduate Biology Program approval

SBC: EXP+

0-6 credits, S/U grading

BIO486: Research in Neurobiology and Physiology

Students work under the supervision of a faculty member in developing an individual project that makes use of the knowledge and techniques acquired in previous courses. The student reports on the project in a format agreed upon with their faculty sponsor that allows reflection on learning outcomes. This course may be repeated, but no more than four credits of research may be used for Biology major requirements. With prior permission from the faculty sponsor, this course could include assignments that can be used to satisfy the SBC objective SPK if co-registered for BIO 458 and/or the SBC objective WRTD if co-registered for BIO 459.

Prerequisite: Permission of instructor; and Undergraduate Biology Program approval

SBC: EXP+

0-6 credits, S/U grading

BIO487: Research in Molecular, Cellular, and Developmental Biology

Students work under the supervision of a faculty member in developing an individual project that makes use of the knowledge and techniques acquired in previous courses. The student reports on the project in a format agreed upon with their faculty sponsor that allows reflection on learning outcomes. This course may be repeated, but no more than four credits of research may be used for Biology major requirements. With prior permission from the faculty sponsor, this course could include assignments that can be used to satisfy the SBC objective SPK if co-registered for BIO 458 and/or the SBC objective WRTD if co-registered for BIO 459.

Prerequisite: Undergraduate Biology program approval and permission of instructor

SBC: EXP+

0-6 credits, S/U grading

BIO488: Internship in Biological Sciences

Students work under the supervision of a faculty member or approved professional sponsor to obtain a career-related experience in the life sciences. The student reports on the project in a format agreed upon with their sponsor that allows reflection on learning outcomes. Students must be accepted into an internship program before registering for credit. May be repeated up to a limit of 12 credits. Not for biology major credit.

Prerequisite: Undergraduate Biology Program approval and permission of sponsor

SBC: EXP+

0-6 credits, S/U grading

BIO489: Research in Ecology and Evolution

Students work under the supervision of a faculty member in developing an individual project that makes use of the knowledge and techniques acquired in previous courses. The student reports on the project in a format agreed upon with their faculty sponsor that allows reflection on learning outcomes. This course may be repeated, but no more than four credits of research may be used for Biology major requirements. With prior permission from the faculty sponsor, this course could include assignments that can be used to satisfy the SBC objective SPK if co-registered for BIO 458 and/or the SBC objective WRTD if co-registered for BIO 459.

Prerequisite: Permission of instructor; and Undergraduate Biology Program approval

SBC: EXP+

0-6 credits, S/U grading

Stony Brook Undergraduate Bulletin - Fall 2024BIO (2024)

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