Perturbation of gene expression using RNA interference (RNAi) or CRISPR interference (CRISPRi) is a useful strategy to explore the function of essential genes. In the archaeon "Haloferax volcanii," the CRISPR-Cas system has been adapted as a CRISPRi tool to silence the expression of specific genes. We developed a laboratory class (LC) to…

Using crystal structure data, site directed mutagenesis, and real-time kinetic assays, students designed, expressed, and purified engineered mutants of human insulin-degrading enzyme (IDE). Students designed their own IDE mutants following "in silico" analysis, used inverse PCR to generate mutant plasmid expression constructs, expressed…

DNA structure has been leveraged in a variety of facets that allow scientists to perform a range of assays, including ones for identification of species, establishing evolutionary relationships between taxa, or even identifying individuals. Here, we present a DNA barcoding method as practical, hands-on approach that connects several experimental…

Anthocyanins are natural pigments belonging to the flavonoid family that generate the red, blue, and purple colors of fruits, vegetables, and flowers. Their structure and color are dependent on various factors, like the pH. Anthocyanins appear red in acidic, purple in neutral, and blue in basic solutions, making them suitable for use as natural pH…

There is a disconnect between the cutting-edge research done in academic laboratories, such as nanotechnology, and what is taught in undergraduate laboratories. In the current undergraduate curriculum, very few students get a chance to do hands-on experiments in nanotechnology-related fields, most of which are through selective undergraduate…

The design of undergraduate laboratory courses that provide meaningful research-based experiences enhances undergraduate curricula and prepares future graduate students for research careers. In this article, a course-based undergraduate research experience (CURE) laboratory module was designed for upper-division undergraduate biochemistry and…

A simple one-dimensional [superscript 1]H NMR experiment that quantifies protein bound to gold nanoparticles has been developed for upper-division biochemistry and physical chemistry students. This laboratory experiment teaches the basics of NMR techniques, which is a highly effective tool in protein studies and supports students to understand the…

Polyacrylamide gel electrophoresis (PAGE) is the most classical technique favored worldwide for resolution of macromolecules in many biochemistry laboratories due to its incessant advanced developments and wide modifications. These ever-growing advancements in the basic laboratory equipments lead to emergence of many expensive, complex, and tricky…

Project-based (research-driven) laboratory courses stimulate student involvement, improve critical thinking and initiate cooperative learning. To this end, a 7-week laboratory project was designed for a sophomore cell biology course to reinforce the fundamental relationship between genotype and phenotype using yeast alcohol dehydrogenase I (ADH1).…

Metabolomics is the data-driven science of small molecules. Untargeted metabolomics, using liquid chromatography-high resolution mass spectrometry (LC-HRMS), differs greatly from targeted metabolite assays, using nominal mass LC-MS instruments, as it generates thousands of metabolite features which are not quantified and are identified "post…

The laboratory practice "Primary culture and directional differentiation of rat bone marrow mesenchymal stem cells (BMSCs)" is part of a required course for sophomore medical students at Tongji university, which has been conducted since 2012. Blended learning has been widely applied in medical courses. Based on a student-centered…

Structures and functions of protein motifs are widely included in many biology-based course syllabi. However, little emphasis is placed to link this knowledge to applications in biotechnology to enhance the learning experience. Here, the conserved motifs of nucleotide binding site-leucine rich repeats (NBS-LRR) proteins, successfully used for the…

Here, we present a 10-week project-oriented laboratory module designed to provide a course-based undergraduate research experience in biochemistry that emphasizes the importance of biomolecular structure and dynamics in enzyme function. This module explores the impact of mutagenesis on an important active site loop for a biomedically-relevant…

Plasma protein binding measurements are an important aspect of pharmacology and drug development. Therefore, performing these measurements can provide a valuable and highly practical learning experience for students across many scientific disciplines. Here, we describe the design and characterization of a 3D-printed device capable of performing…

A bioinformatics laboratory experiment was designed to help undergraduate students learn RNA structure and function in biochemistry courses. In this laboratory experiment, students used 5S rRNAs as material to predict secondary structure and visualize three-dimensional (3D) structure. Students first downloaded molecular information from the 5S…