A foundational knowledge of the relationship between structure and function is critical to understanding how enzymes work. The seemingly invisible nature of these molecular interactions makes it challenging for undergraduate students to conceptualize the dynamic changes that occur during a catalytic cycle. In this Lesson, we describe an interactive, collaborative modeling activity that we use in introductory biology courses to teach students how enzymes catalyze chemical reactions. First, the students imagine a fictitious enzyme and its associated reaction, and use modeling compound to demonstrate the progression of the reaction while focusing on the three-dimensional shape of active site and substrate in facilitating this catalysis. Second, they then select one of four types of enzymatic regulation (competitive inhibition, allosteric inhibition, allosteric activation, or feedback inhibitions) to incorporate into their model. They then demonstrate these reactions to groups of peers. This student-centered approach uses active learning and peer instruction to provide students with prompt feedback to strengthen their understanding of the inter-relatedness of structure and function. This modeling activity concludes with student reflection and discussion, and student learning is assessed with exam questions.

Teaching scientific literacy skills can help combat the propagation of misinformation online. This lesson is intended to give students practice identifying reliable scientific information on the Internet, in the context of vaccine safety. It was designed for a first-year seminar taught fully through remote instruction but can be adapted for any in-person or blended course. It can also be easily modified to use for other biologically-relevant topics and is especially well suited for controversial topics. This lesson consists of three activities. First, students review an article about identifying reliable Internet resources and search online for vaccine safety information. Then, students meet in small groups to review and rank the resources that each of them found from most to least reliable, referencing the criteria laid out by the CRAAP test (Currency, Relevance, Accuracy, Authority, Purpose). After ranking each resource, students reflect on how their thinking about online resources has changed during the activity and how they will evaluate scientific information online in the future. Finally, students use the reliable resources that they and their classmates compiled during the activity as references to write about how the biology of vaccines relates to the five Core Concepts. Following this lesson, 100% of student groups were able to correctly identify at least one reliable and unreliable online resource and 95% of groups were able to articulate particular qualities of resources that helped them establish their reliability. Further, 100% of groups could articulate how their thinking had changed throughout this activity.

Primary Image: A drawing of vaccines and a vial, used with permission from Pixabay. 

As the basic unit of life, cells are a foundational concept for all of biology. Before students can appreciate how eukaryotic cells function either in isolation or in higher order and multicellular organisms, they must first have a basic understanding of the organelles that make up these cells. The primary objective of this lesson is to provide a fun and engaging way for students to learn the function and arrangement of eukaryotic organelles. This lesson uses familiar and easy to learn games, such as Pictionary® and Bingo, to help students enrolled in introductory, non-majors biology courses better recognize cellular organelles and understand their functions.

cellular respiration and weight loss

Surface to area volume-detailed

surface area to volume ratio

University capstone projects can offer science students a rich research experience that illustrates the process of doing scientific research, and can also help students better choose future academic and career pathways. While capstone projects are an effective component of students' learning in the sciences, they are resource and labor intensive for supervising faculty and are not always logistically feasible in understaffed and/or under-resourced departments and colleges. A good compromise is to incorporate a significant research component into upper division classes. This article documents a project I have incorporated into a plant ecology course that I teach every spring. This project gives students a taste of what practicing ecologists do in their professional lives. Students learn how to survey vegetation and environmental factors in the field, apply several statistical analysis techniques, formulate testable hypotheses relevant to a local plant community, analyze a large shared data set, and communicate their findings both in writing and in a public presentation. Over the weeks required for this project, students learn that doing science is quite different from how they typically learn about science. Most say that, while this project is one of the hardest they have completed in their time in university, they appreciate being treated like a fellow scientist rather than as "just a student." Additionally, students' findings often reveal complex and subtle interactions in the plant community sampled, providing further insight to and examples of emergent properties of biological communities.

A successful scientist combines skill, creativity, and the art of persuasion to excel in his or her field of study. Critically important for the professional scientist is the ability to not only conduct research, but also to conceive a project and obtain funding to support research goals. As students grow in their scientific process skills over the course of their training, they are often surprised by the structures and processes used by professional scientists to procure funds for their work. We describe a semester-long experience in which students engage the process of science to design an innovative research plan on a topic that is relevant to the scientific community and society. Research teams seek funding to pursue a novel, high-impact research question, and submit proposals for peer review in a mock NSF-style study section. The module design uses a scaffolded series of writing and peer review activities, and culminates in a Pecha Kucha event in which students orally pitch and defend their proposal and vote for the best in session. The module may be scaled and adapted to suit a wide range of contexts where proposal writing and peer review is emphasized.

To prepare biology undergraduates to be able to read and evaluate the primary literature, it is beneficial to teach students how to write documents in the style of professional science style manuscripts. By breaking manuscripts into individual section assignments, we can distribute instruction across a four-year undergraduate curriculum to scaffold writing practice mastery. These skills are aided by peer review, writing tutor instruction, and assignment repetition. Students gain not only competency in writing about the discipline, but can better understand and critically evaluate the written work of others. The science writing and communication skills gathered over the course of this curricular framework provide all students with expertise in accessing science themselves and disseminating science to others.

Reading primary scientific literature enhances students’ understanding of material, increases their self-efficacy, and critical thinking skills. However, scientific articles often present multiple challenges to the students, the first among them is the unfamiliar nature of scientific texts: their high information density, formal language, and abundance of scientific jargon. In this lesson, students are taught the Talking to the Text method to metacognitively read scientific texts. The Talking to the Text method, which is part of the Reading Apprenticeship approach, enables students to have a metacognitive conversation with a scientific text, annotating it with their own questions, connections to previous knowledge, predictions, and drawings. The method is introduced through instructor’s modeling, individual practice, peer interactions, and class discussions. The collaborative approach of this lesson normalizes the struggles that students face when reading complex scientific texts. We have successfully used the Talking to the Text method in an introductory biology course with diverse students who often do not have experience in reading dense scientific texts. We find that this method promotes inclusion and holds students accountable to address what they do not understand in the text. In a survey, half of the students indicated that they were still using the method at the end of the semester. Students commented that the method improved their understanding of concepts, built their metacognitive skills, and helped them connect new information with what they already know. We believe that this method can be valuable for all students who are starting to read complex scientific texts.

Primary Image: Using Talking to the Text to metacognitively read scientific literature. A student reads a scientific text using the Talking to the Text method. The student engages in metacognitive conversation with the text by identifying the confusing parts of the text, making connections between new and existing knowledge, and drawing pictures of concepts or experiments.

A compilation of videos to support teaching the concepts and protocols for discovering and working with phage.

Week 1 Potential

Week 1 Potential

Students build on fundamental concepts of ecosystem production and carbon cycling, combining this knowledge with open long-term data from ecological and meteorological networks to uncover the environmental drivers of carbon fluxes.

This multi part case on hemoglobin structure as it relates to oxygen binding and sickle cell disease focuses on utilizing bioinformatics and molecular visualization tools to learn about the sickle cell disease, its cause, symptoms and possible cures.

This 3 part case on sickle cell disease focuses on visualizing and understanding the molecular basis of its cause, symptoms, complications, management, treatment, and possible cures.

The mathematical modeling of populations utilizing field-collected demographic data is an important component of lab curricula in a variety of undergraduate biology lab courses. During the global pandemic brought about by the SARS-CoV-2 virus in 2020, we successfully converted an in-person lab on demographic population modeling to a lab that could be run remotely. We used a Google Earth Web Project to simulate a population study of the Northern Spotted Owl. In the simulation, students collected both demographic and mark-recapture data, based on surveying images of Northern Spotted Owls as they navigated four different wildlife transects. After conducting the survey, students used the data to determine population size using the mark-recapture method, derived a life table, calculated the net reproductive rate, and used the information to assess the current management plan for the population studied. Here we outline the lesson and provide materials required to duplicate the lab or to use Google Earth to create a similar simulation centered around a different species in any location around the globe.

Primary Image: Population Ecology with Google Earth. This population ecology lesson utilizes the Google Earth Project to provide students a simulated mark-recapture study. This lesson framework can be applied to any species or location; we chose to focus our lesson on the Northern Spotted Owl.

Evolutionary trees communicate both the diversity and unity of life, a central and important scientific concept, as highlighted by the Vision and Change undergraduate biology education movement. Evolutionary trees and cladograms are diagrams viewed by biologists as Rosetta Stone-like in how well they convey an enormous amount of information with clarity and precision. However, the majority of undergraduates in introductory biology courses find the non-linear diagram confusing and do not immediately understand the tree-thinking central to interpreting the evolutionary tree’s branching structure. Go Extinct! is an original board game featuring land vertebrates (i.e., amphibians, mammals, birds and reptiles) and it is designed to engage students in reading this evolutionary tree. Go Extinct! won the Society for the Study of Evolution’s Huxley Award for outstanding outreach achievements in recognition for how the gameplay itself incentivizes students to identify clades and common ancestors on a stylized tree. The game can be completed in about 30 minutes, which allows instructors time to give follow-up activity sheets that help students transfer their new ability to read a stylized tree into the ability to read more traditional-looking trees found in textbooks and the literature. Overall, teaching the game, playing the game, and completing the follow-up transfer activity can be completed in a 50-minute section. Each game can serve up to 6 students, which means 3 games can cover a section of 18 students. Go Extinct! provides a fun and effective learning experience that students will remember and may even request to play again.

Primary Image: Biologists play Go Extinct! Students who play Go Extinct! gain a mastery of reading an evolutionary tree or cladogram. The winning strategy depends on identifying common ancestors of animal cards in your hand. Photo taken by the author.

Role-playing activities in the classroom promote students’ critical thinking, research, and communication skills. We present an activity where students debate a current controversy in conservation. In our case study, students debate the topic of wolf reintroduction in California. Each student is assigned a stakeholder role (e.g., rancher, environmental scientist, hunter, or politician) and a position (either pro or con). First, the whole class participates in a vote on the debate topic so as to register pre-debate sentiment. Then, in the first part of the activity (75 minutes or as homework), students prepare arguments with others representing their stakeholder group by reading the primary and secondary literature and answering guided questions. In the second part of the activity (75 minutes), students participate in a live debate divided into three sections: introductory arguments, questions from the jury, and concluding arguments. The whole class then votes again to decide the winner of the debate, leading to a discussion about which factors do and do not lead to changes in understanding and opinion. The interdisciplinary nature of this activity reinforces student knowledge on ecological networks, keystone species, and natural history, as well as introduces the importance of non-scientific stakeholders in conservation. While this case study focuses on the reintroduction of wolves in California, the activity can be adapted to the reintroduction of controversial species in other regions, or used as a framework for any debatable topic in conservation biology.

Primary Image: The reintroduction of the gray wolf Canis lupus is a controversial topic in conservation biology and environmental policy.

The central dogma of biology is a foundational concept that provides a scaffold to understand how genetic information flows in biological systems. Despite its importance, undergraduate students often poorly understand central dogma processes (DNA replication, transcription, and translation), how information is encoded and used in each of these processes, and the relationships between them. To help students overcome these conceptual difficulties, we designed a clicker-based activity focused on two brothers who have multiple nucleotide differences in their dystrophin gene sequence, resulting in one who has Duchenne muscular dystrophy (DMD) and one who does not. This activity asks students to predict the effects of various types of mutations on DNA replication, transcription, and translation. To determine the effectiveness of this activity, we taught it in ten large-enrollment courses at five different institutions and assessed its effect by evaluating student responses to pre/post short answer questions, clicker questions, and multiple-choice exam questions. Students showed learning gains from the pre to the post on the short answer questions and performed highly on end-of-unit exam questions targeting similar concepts. This activity can be presented at various points during the semester (e.g., when discussing the central dogma, mutations, or disease) and has been used successfully in a variety of courses ranging from non-majors introductory biology to advanced upper level biology.

The central dogma of biology is a foundational concept that provides a scaffold to understand how genetic information flows in biological systems. Despite its importance, undergraduate students often poorly understand central dogma processes (DNA replication, transcription, and translation), how information is encoded and used in each of these processes, and the relationships between them. To help students overcome these conceptual difficulties, we designed a clicker-based activity focused on two brothers who have multiple nucleotide differences in their dystrophin gene sequence, resulting in one who has Duchenne muscular dystrophy (DMD) and one who does not. This activity asks students to predict the effects of various types of mutations on DNA replication, transcription, and translation. To determine the effectiveness of this activity, we taught it in ten large-enrollment courses at five different institutions and assessed its effect by evaluating student responses to pre/post short answer questions, clicker questions, and multiple-choice exam questions. Students showed learning gains from the pre to the post on the short answer questions and performed highly on end-of-unit exam questions targeting similar concepts. This activity can be presented at various points during the semester (e.g., when discussing the central dogma, mutations, or disease) and has been used successfully in a variety of courses ranging from non-majors introductory biology to advanced upper level biology.

The central dogma of biology is a foundational concept that provides a scaffold to understand how genetic information flows in biological systems. Despite its importance, undergraduate students often poorly understand central dogma processes (DNA replication, transcription, and translation), how information is encoded and used in each of these processes, and the relationships between them. To help students overcome these conceptual difficulties, we designed a clicker-based activity focused on two brothers who have multiple nucleotide differences in their dystrophin gene sequence, resulting in one who has Duchenne muscular dystrophy (DMD) and one who does not. This activity asks students to predict the effects of various types of mutations on DNA replication, transcription, and translation. To determine the effectiveness of this activity, we taught it in ten large-enrollment courses at five different institutions and assessed its effect by evaluating student responses to pre/post short answer questions, clicker questions, and multiple-choice exam questions. Students showed learning gains from the pre to the post on the short answer questions and performed highly on end-of-unit exam questions targeting similar concepts. This activity can be presented at various points during the semester (e.g., when discussing the central dogma, mutations, or disease) and has been used successfully in a variety of courses ranging from non-majors introductory biology to advanced upper level biology.

Mutations in genes can lead to a variety of phenotypes, including various human diseases. Students often understand that a particular mutation in a single gene causes a disease phenotype, but it is more challenging to illustrate complex genetic concepts such as that similar mutations in the same gene cause very different phenotypes or that mutations in different genes cause similar phenotypes. We originally designed this lesson to build off of the CourseSource lesson “A clicker-based case study that untangles student thinking about the processes in the central dogma,” but it can also stand alone. In our lesson, students read or listen to a real-life case study featuring a patient who doggedly pursues the underlying genetic cause of her own disease—muscular dystrophy—and stumbles upon a similar mutation in the same gene that gives an athlete the seemingly opposite phenotype: pronounced muscles. The lesson also leads the students to overlay their understanding of the central dogma and mutation on protein function and disease, compares muscular dystrophy to the disease progeria, and concludes with an ethical challenge. We tested the lesson as both an independent homework assignment, as well as a small group in-class worksheet and both formats were successful.

Primary Image: Line drawing of a space filling diagram of the LMNA protein illustrating mutations that lead to progeria.

There are few instructional tools about data acquisition and management available for undergraduate students. I created this lesson as a Fellow of the Ethics Network for Course-Based Opportunities in Undergraduate Research (ENCOUR) to fill this gap by providing a lesson that introduces lab notebooks and builds connections to responsible and ethical conduct of research (RECR). While originally developed for a course-based undergraduate research experience (CURE) in microbiology, there are few disciplinary or course specific details included, making this resource easy to adapt to a variety of contexts. The lesson begins with a pre-class assignment which introduces students to the basics of keeping a lab notebook. The in-class instruction provides opportunities for student reflection, short lecture segments, and group work to identify and discuss the connections between data collection practices and RECR. Students who completed the lesson displayed a broader and more complete conception of the connections to RECR topics as well as the utility of the lab notebook.

Primary Image: Lab Notebook image (from this website used under Creative Commons license)

Our understanding of microbiomes, or the collection of microorganisms and their genes in a given environment, has been revolutionized by technological and computational advances. However, many undergraduate students do not get hands-on experiences with processing, analyzing, or interpreting these types of datasets. Recent global events have increased the need for effective educational activities that can be performed virtually and remotely. Here, we present a module that introduces STEM undergraduates to the bioinformatic and statistical analyses of bacterial communities using a combination of free, web-based data processing software. These lessons allow students to engage with the studies of microbiomes; gain valuable experiences processing large, high-throughput datasets; and practice their science communication skills. The lessons presented here walk students through two web-based platforms. The first (DNA Subway) is an easy-to-use wrapper of the popular QIIME (pronounced “chime”) pipeline, which performs quality control analysis of the raw sequence data and outputs a community matrix file with assigned bacterial taxonomies. The second, ranacapa, is an R Shiny App that allows students to compare microbial communities, perform statistical analyses and visualize community data. Students may communicate their findings with a written final report or oral presentation. While the lessons presented here use a sample dataset based on the gut-microbiome of the bean beetle (Callosobruchus maculatus), the materials are easily modified to use original next-generation amplicon sequence data from any host or environment. Additionally, options for alternative datasets are also provided facilitating flexibility within the curriculum.

Primary Image: Insects are an excellent example of a tractable biological system to study the relationship between an organism and its microbiome. Little is currently known about the gut-microbiome of many insects, such as the bean beetle (Callosobruchus maculatus).