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Currently there is considerable confusion surrounding the use of the term "organic" as applied to food and other consumer products, but within the agriculture industry the term has a well-defined meaning related to the practices that are allowed in the production of a crop. This case study was written to inform students about organic agriculture and its implications with regard to food nutritional value as well as its costs.  The case is presented as a dilemma in the context of buying produce in the grocery store. Concepts presented include the difference between organic and conventional agricultural practices, the analysis of food to quantify nutrient levels, the history of the organic movement, and the economic and environmental impacts of organic agriculture. The activity was designed for use in a lower level general science course (with a cursory review of the scientific literature) or in an upper level chemistry course (with a thorough analysis of the literature).

Data Analysis from The Cornell Lab-Basics of Science Pipes By Yoomee Kim, Lisa Adler-Golden, and Andrea McMillen (ESA) Science pipes works by clicking and dragging the data, operations, and desired output boxes to the workspace. You create a pipeline by drawing lines between the boxes.  Activities include: Cemetery Demography, Darwin's Finches, Forest Population Structure and North American Pollen

This case study presents the story of Phil, an undergraduate majoring in biology, whose Russian cousin Dimitri has contracted tuberculosis (TB) from inmates at the prison where he works.  Phil learns that his cousin's failure to complete his antibiotic regimen likely contributed to the evolution of antibiotic-resistant TB in his body.  Phil consults with his friend Stacy, and together they try to understand Dimitri's condition by applying what they are learning in their genetics lab experiment about the role of random mutation in bacterial evolution (including the development of antibiotic resistance) through Luria- Delbrück fluctuation analysis. The same analysis includes calculation of the mutation rate, which Phil realizes is sufficient to cause MRSA and other antibiotic-resistant infections. This case study was originally developed for concurrent use in freshman/sophomore-level genetics, elementary statistics, and precalculus. However, it is also very appropriate for courses in introductory biology, evolutionary biology, and biostatistics. The teaching notes discuss various ways to run the case depending on the mathematics and biology background of students.

This interrupted case study addresses several concepts related to climate change and its effect on the American pika. Often called an indicator species for climate change, the pika has a unique set of variables specific to its environment. Factors such as temperature, snowpack, and vegetation can affect the distribution and ultimately the chances of survival. The case was designed for use in a "flipped" classroom in which students prepare in advance outside of class by filling out a worksheet while watching a video. The video, created by the author of the case, provides students with baseline information that they apply in class to come up with key ideas and predictions, followed by analysis of actual data to test the hypotheses they develop. The case study incorporates group discussion, analysis of experimental design, and data evaluation as central activities and can be taught in a single 50 minute class session. The case was designed for use in a large introductory-level class, but is also appropriate for smaller classes.

The Ethics Primer provides engaging, interactive, and classroom-friendly lesson ideas for integrating ethical issues into a science classroom. It also provides basic background on ethics as a discipline, with straightforward descriptions of major ethical theories. Several decision-making frameworks are included to help students apply reasoned analysis to ethical issues. Although the Primer is designed for secondary school science classrooms, it has been used by teachers in a variety of classes and grade levels. It is particularly suited to social studies and integrated/interdisciplinary classrooms. It has also been used with adults. The Primer is not designed to be used cover to cover. Teachers should review materials and select lessons that fit their needs. The Primer is also intended to be used as a general resource, with a wide variety of topics.

A team of scientists, in a groundbreaking analysis of data from hundreds of sources, has concluded that humans are on the verge of causing unprecedented damage to the oceans and the animals living in them. "We may be sitting on a precipice of a major extinction event," said Douglas J. McCauley, an ecologist at the University of California, Santa Barbara, and an author of the new research, which was published on Thursday in the journal Science.

"Bioethics modules serve as a guide for teachers who want to incorporate an in-depth analysis of bioethical issues and debates into their life sciences, social sciences, public policy, or theology courses. They provide lesson plans that teachers can use to lead classes and discussions on topics in bioethics. Within each module, you will find background information, readings, suggested classroom procedures and activities, and links for additional information and resources."

Despite existing for hundreds of years, the science of classification is far from dead. Classification of many species, old and new, continues to be hotly disputed as scientists find new information or interpret facts in new ways. Arguments are fierce and species do change names, but only after a wealth of information has been gathered to support such a big step. One of the new reasons why species are being re-evaluated is because of DNA analysis.

When an elementary school teacher calls in sick to work, she finds out that she is not the only one who will be missing school that day.  Children from her fifth grade class have also become ill and parents are calling to report the absences. The concerned principal of the school finds out the fifth grade class had a field trip to one of the local parks the day before. The case shows the areas visited by the class and provides discussion between the principal and a physician that teaches the readers about water quality and EPA standards for bacteria levels in recreational water. The case has an optional lab component that provides the theory for three methods that can be used to conduct microbial water analyses.  Procedures are included for teachers to lead a lab activity to test water to identify which location in the park caused the illness. This case study and accompanying laboratory activity are recommended for an environmental engineering course or a lower level science course.

In the largest study of its kind, a research team has meshed extensive genome data on more than 50,000 people with their electronic health records and identified potential new disease-causing genes. The data further suggest that about one in 250 people may harbor a gene variant that puts them at risk for heart attacks and strokes, yet aren't receiving adequate treatment.

Exploratory data analysis and common statistical assumptions in biology

In a unique twist on human genomics studies that seek to identify genetic variants linked to human disease, researchers have combined whole-exome sequencing of 50,726 adults with the individuals' long-term electronic health record (EHR) data. The effort, by researchers at the Geisinger Health System in Pennsylvania and Regeneron Genetics Center, a subsidiary of New York-based Regeneron Pharmaceuticals, has yielded novel disease-linked variants, including loss-of-function alleles. The team behind the project, called DiscovEHR, has also found that about one in 30 of the individuals harbors a deleterious genetic variant for which a screen or treatment already exists. The group's analysis is described in two papers published today (December 22) in Science.

This case study takes place at a fictional biotechnology company developing herbicides against invasive plant species. The case study focuses on five herbicides with different effects on photosynthesis. Students play the role of lab interns and explore photosynthesis and the herbicide effects by engaging in concept mapping, experimental design, data manipulation, and data analysis. The goal is to use the experimental data to predict the steps in photosynthesis that are inhibited by each herbicide. Students should come away from the case study with a process-based understanding of photosynthesis. This case study is designed for the "flipped" classroom with suggested preparatory videos and associated assessment questions included. Videos can be supplemented with textbook readings or mini-lectures. This activity was developed for a non-majors introductory biology course but it could also be used in any general biology course, including majors' courses. It might also be used to establish foundational knowledge for more advanced discussions of photosynthesis in plant biology (botany) courses.

This interrupted case study introduces the topic of bacterial sporulation and cannibalism in Bacillus subtilis. The storyline follows Susan and her lab mates who are presenting research at a lab meeting when Susan falls asleep and dreams they are stranded on a deserted island. She makes connections between their fight for survival in the dream and the survival mechanisms of the bacteria they study in the lab. The benefits of sporulation under conditions of sustained stress are fairly obvious, but Susan's dream is used to examine the idea that sporulation may not always be beneficial and that bacteria would not want to commit to entering such a state in response to temporary stresses. Through the analysis of actual data from the scientific literature, students uncover a mechanism by which B. subtilis delays its commitment to sporulation by killing members of its own species to release nutrients (i.e., cannibalism). Originally developed for a general undergraduate microbiology course when discussing the structure and growth of prokaryotic cells, the case could also be used in an introductory biology course that emphasizes bacteria and data literacy.

This dilemma/decision case study is intended to demonstrate how knowledge of signal transduction pathways can be applied to the pharmaceutical industry and within a medical setting. The case scenario revolves around a physician scientist's analysis of a chronic myelogenous leukemia (CML) patient's resistance to the cancer drug Gleevec® (imatinib). Students explore the molecular targets of drugs that inhibit cell signaling, while considering the best course of treatment for the medical patient. Written for an undergraduate sophomore level cell biology course, the case is also suitable for general biology, genetics, molecular biology, pharmacology, and cancer biology.

Before the discovery of insulin in 1921, being diagnosed with Type 1 diabetes was a death sentence. Despite the successful management of diabetes with purified animal insulin, potentially severe side effects were abundant, and alternative ways to produce insulin were needed. This case study guides students through the history of using insulin to treat diabetes, focusing on the development of recombinant DNA technology and the world's first bioengineered drug, recombinant human insulin, which is now used worldwide to treat diabetes. Through the course of this case, students consider the central dogma of molecular biology, the development of recombinant DNA technology, drug design, the importance of recombinant proteins to our society, and the ethical analysis and debates that occur as a result of some scientific discoveries. This case was developed as an introduction to an upper-division biotechnology course focusing on recombinant protein design and production, but could also be used in molecular biology, biochemistry, or introductory biology courses to highlight recombinant DNA and biotechnology.

Japanese knotweed (Fallopia japonica) is an invasive plant that can be very hard to eliminate. This PowerPoint-driven case study briefly describes this plant and asks students to identify possible solutions for its control when a homeowner discovers it growing next to his house. The case was designed for an introductory college course, either a general biology course or a plant biology course, and while it can be used as a regular case, it was actually written to assess the students' ability to solve a problem and write an analysis. If you teach with cases, shouldn't you test with cases as well?

The origin of viruses remains mysterious because of their diverse and patchy molecular and functional makeup. Although numerous hypotheses have attempted to explain viral origins, none is backed by substantive data. We take full advantage of the wealth of available protein structural and functional data to explore the evolution of the proteomic makeup of thousands of cells and viruses. Despite the extremely reduced nature of viral proteomes, we established an ancient origin of the "viral supergroup" and the existence of widespread episodes of horizontal transfer of genetic information. Viruses harboring different replicon types and infecting distantly related hosts shared many metabolic and informational protein structural domains of ancient origin that were also widespread in cellular proteomes. Phylogenomic analysis uncovered a universal tree of life and revealed that modern viruses reduced from multiple ancient cells that harbored segmented RNA genomes and coexisted with the ancestors of modern cells. The model for the origin and evolution of viruses and cells is backed by strong genomic and structural evidence and can be reconciled with existing models of viral evolution if one considers viruses to have originated from ancient cells and not from modern counterparts.

This clicker case addresses several concepts related to the evolutionary ecology of herbivore defenses. A survey of several different studies that investigated chemical defenses in Thymus vulgaris (thyme) gives students the opportunity to develop hypotheses, pose potential experiments, and interpret data to develop a better understanding of not only herbivore deterrence, but also how natural selection can involve different pressures selecting for different phenotypes. The case study incorporates group discussion, analysis of experimental design, and data evaluation as central activities. It can be taught in a single 50-minute class session, an economy that is achieved in part by using a "flipped" approach. Students prepare outside of class by watching several short videos (one of which was made by the author) that teach the basics of herbivore deterrence and abiotic and biotic forces in the environment that can influence plant adaptations. The case study was designed for use in a large introductory-level class, but would also be appropriate for smaller classes or upper-level evolution courses.

The Underrepresentation Curriculum (URC) is a free, flexible curriculum for STEM instructors to teach about injustice and change the culture of STEM. Using tools such as data analysis, hypothesis creation, and investigation, students look critically at science through the lenses of equity and inclusion. By comparing the general population to similar data describing scientists, students can explore issues of social justice in STEM.