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Biochemistry and Molecular Biology Education

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https://www.readbyqxmd.com/read/29314649/approaching-the-thermodynamic-view-of-protein-folding-through-the-reproduction-of-anfinsen-s-experiment-by-undergraduate-physical-biochemistry-students
#1
Andres Fernandez-Reche, Eva S Cobos, Irene Luque, Javier Ruiz-Sanz, Jose C Martinez
In 1972 Christian B. Anfinsen received the Nobel Prize in Chemistry for "…his work on ribonuclease, especially concerning the connection between the amino acid sequence and the biologically active conformation." The understanding of this principle is crucial for physical biochemistry students, since protein folding studies, bio-computing sciences and protein design approaches are founded on such a well-demonstrated connection. Herein, we describe a detailed and easy-to-follow experiment to reproduce the most relevant assays carried out at Anfinsen's laboratory in the 60s...
January 4, 2018: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29285877/rna-isolation-from-plant-tissues-a-hands-on-laboratory-experimental-experience-for-undergraduates
#2
Nianhui Zhang, Dong Yu, Xiaofeng Zhu
The practice of RNA isolation in undergraduate experimental courses is rare because of the existence of robust, ubiquitous and stable ribonucleases. We reported here modifications to our original protocol for RNA isolation from plant tissues, including the recovery of nucleic acids by ethanol precipitation at 0 °C for 10 min and the assessment of RNA quality by visualizing the banding profile of the separated RNAs on a standard nondenaturing agarose gel to shorten the duration of the whole procedure and simplify the operation...
December 29, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29285862/grade-distribution-digests-a-novel-tool-to-enhance-teaching-and-student-learning-in-laboratory-practicals
#3
Peter G Arthur, Reza Zareie, Paul Kirkwood, Martha Ludwig, Paul V Attwood
Assessment is a central component of course curriculums and is used to certify student learning, but it can also be used as a tool to improve teaching and learning. Many laboratory courses are structured such that there is only a grade for a particular laboratory, which limits the insights that can be gained in student learning. We developed a laboratory program that incorporates assessments designed to probe student understanding of different components of the individual modules making up the program. The challenge was to analyze and present grades from these assessment tasks in a format that was readily interpretable by academics...
December 29, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29285857/update-on-research-and-application-of-problem-based-learning-in-medical-science-education
#4
Chuifeng Fan, Biying Jiang, Xiuying Shi, Enhua Wang, Qingchang Li
Problem-based learning (PBL) is a unique form of pedagogy dedicated to developing students' self-learning and clinical practice skills. After several decades of development, although applications vary, PBL has been recognized all over the world and implemented by many medical schools. This review summarizes and updates the application and study of PBL in medical education through the literature published between 1993 and early 2017. It focuses on understanding real medical PBL courses and ways to improve PBL to achieve better learning outcomes...
December 29, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29274256/small-laccase-from-streptomyces-coelicolor-an-ideal-model-protein-enzyme-for-undergraduate-laboratory-experience
#5
Ryan Cook, Drew Hannon, Jonathan N Southard, Sudipta Majumdar
A one semester undergraduate biochemistry laboratory experience is described for an understanding of recombinant technology from gene cloning to protein characterization. An integrated experimental design includes three sequential modules: molecular cloning, protein expression and purification, and protein analysis and characterization. Students perform the tasks of cloning, expression, purification, analysis, and characterization of small laccase (SLAC) from Streptomyces coelicolor. SLAC is an extremely robust well-characterized protein/enzyme, which serves as an ideal model for undergraduate teaching laboratories...
December 23, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29274248/stem-cell-education-for-medical-students-at-tongji-university-primary-cell-culture-and-directional-differentiation-of-rat-bone-marrow-mesenchymal-stem-cells
#6
Caixia Jin, Haibin Tian, Jiao Li, Song Jia, Siguang Li, Guo-Tong Xu, Lei Xu, Lixia Lu
Stem cells are cells that can self-renew and differentiate into a variety of cell types under certain conditions. Stem cells have great potential in regenerative medicine and cell therapy for the treatment of certain diseases. To deliver knowledge about this frontier in science and technology to medical undergraduate students, we designed an innovative practical experiment for freshmen in their second semester. The lab exercise focused on rat bone marrow mesenchymal stem cell (BMSC) isolation, cell culture and differentiation, and it aimed to help students master the aseptic techniques for cell culture, the basic methods and procedures for the primary culture and passage of BMSCs, the basic procedure for the directional differentiation of BMSCs into adipocytes and their subsequent identification by oil-red-O staining...
December 23, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29244243/metabolic-interaction-between-urea-cycle-and-citric-acid-cycle-shunt-a-guided-approach
#7
Rossana Pesi, Francesco Balestri, Piero L Ipata
This article is a guided pedagogical approach, devoted to postgraduate students specializing in biochemistry, aimed at presenting all single reactions and overall equations leading to the metabolic interaction between ureagenesis and citric acid cycle to be incorporated into a two-three lecture series about the interaction of urea cycle with other metabolic pathways. We emphasize that citrate synthetase, aconitase, and isocitrate dehydrogenase, three enzymes of the citric acid cycle are not involved, thus creating a shunt in citric acid cycle...
December 15, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29219232/fastfeedback-questions-a-new-teaching-method
#8
Magdy Mahmoud Elnashar
In Australian Universities, based on a study from 1992 to 2014, the Feedback item has been consistently poorly rated by students. In addition, Biochemistry is a complex STEM subject which many students find difficult and was considered the hardest subject according to a recent study by Antigua medical school in the United States. In this work, a new and interactive teaching method, FastFeedback Questions (FFQs), has been devised. FFQs are a rapid formative feedback method that involves embedding carefully crafted focus questions alongside PowerPoint slides (outside the slide field)...
December 8, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29219231/laboratory-exercise-for-studying-the-morphology-of-heat-denatured-and-amyloid-aggregates-of-lysozyme-by-atomic-force-microscopy
#9
Sumeyra Gokalp, William Horton, Elfa B Jónsdóttir-Lewis, Michelle Foster, Marianna Török
To facilitate learning advanced instrumental techniques, essential tools for visualizing biomaterials, a simple and versatile laboratory exercise demonstrating the use of Atomic Force Microscopy (AFM) in biomedical applications was developed. In this experiment, the morphology of heat-denatured and amyloid-type aggregates formed from a low-cost and well-characterized model protein, hen egg white lysozyme (HEWL), are compared. Structural differences between the amorphous and ordered particles are quantified using ImageJ for the analysis of AFM images as a postlaboratory assignment...
December 8, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29215197/enrichment-of-gamma-aminobutyric-acid-in-bean-sprouts-exploring-biosynthesis-of-plant-metabolite-using-common-household-reagents
#10
Theerasak Rojanarata, Samarwadee Plianwong, Praneet Opanasopit, Tanasait Ngawhirunpat
The enrichment of plant foods with gamma-aminobutyric acid (GABA) is currently an interesting issue in the field of nutraceuticals and can be used as an experiment for upper-division undergraduate students. Here, an interdisciplinary hands-on experiment to produce GABA-enriched mung bean sprouts using common household reagents is described. Based on the GABA biosynthesis pathways, two key factors, being the availability of l-glutamic acid and the acidification of the germination environment, were chosen for the study of the effects on the enhancement of GABA levels...
December 7, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29215191/comparison-of-two-different-techniques-of-cooperative-learning-approach-undergraduates-conceptual-understanding-in-the-context-of-hormone-biochemistry
#11
Ayfer Mutlu
The purpose of the research was to compare the effects of two different techniques of the cooperative learning approach, namely Team-Game Tournament and Jigsaw, on undergraduates' conceptual understanding in a Hormone Biochemistry course. Undergraduates were randomly assigned to Group 1 (N = 23) and Group 2 (N = 29). Instructions were accomplished using Team-Game Tournament in Group 1 and Jigsaw in Group 2. Before the instructions, all groups were informed about cooperative learning and techniques, their responsibilities in the learning process and accessing of resources...
December 7, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29215187/the-use-of-orientation-decision-do-discuss-reflect-od3r-method-to-increase-critical-thinking-skill-and-practical-skill-in-biochemistry-learning
#12
Yunita Arian Sani Anwar, Senam Senam, Endang W Laksono
We have developed an OD3R method that can be applied on Biochemistry learning. This OD3R consists of 5 phases: orientation, decision, do, discuss, and reflect to connect lessons in the class with practice in the laboratory. Implementation of OD3R method was done in 2 universities in Yogyakarta to increase critical thinking skill and practical skill of the students. The critical thinking skills were assessed using modified Hoyo rubric according to student's ability in writing laboratory work report. Practical skill was assessed using a rubric with 6 practical skill categories: procedural skill, manipulative skill, observation skill, drawing skill, interpretation skill, and presentation skill...
December 7, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29193628/integration-of-a-faculty-s-ongoing-research-into-an-undergraduate-laboratory-teaching-class-in-developmental-biology
#13
Sang-Chul Nam
Traditional developmental biology laboratory classes have utilized a number of different model organisms to allow students to be exposed to diverse biological phenomena in developing organisms. This traditional approach has mainly focused on the diverse morphological and anatomical descriptions of the developing organisms. However, modern developmental biology is focusing more on conserved genetic networks which are responsible for generating conserved body patterns in developing organisms. Therefore, it is necessary to develop a new pedagogical tool to educate undergraduate biology students in the laboratory class of developmental biology with the genetic principles which are responsible for generating and controlling the developing body patterns...
November 28, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29131508/an-interactive-computer-lab-of-the-galvanic-cell-for-students-in-biochemistry
#14
Emma Ahlstrand, Antoine Buetti-Dinh, Ran Friedman
We describe an interactive module that can be used to teach basic concepts in electrochemistry and thermodynamics to first year natural science students. The module is used together with an experimental laboratory and improves the students' understanding of thermodynamic quantities such as Δr G, Δr H, and Δr S that are calculated but not directly measured in the lab. We also discuss how new technologies can substitute some parts of experimental chemistry courses, and improve accessibility to course material...
November 13, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29131507/the-disruptive-effect-of-lysozyme-on-the-bacterial-cell-wall-explored-by-an-in-silico-structural-outlook
#15
Emiliano D Primo, Lisandro H Otero, Francisco Ruiz, Sebastián Klinke, Walter Giordano
The bacterial cell wall, a structural unit of peptidoglycan polymer comprised of glycan strands consisting of a repeating disaccharide motif [N-acetylglucosamine (NAG) and N-acetylmuramylpentapeptide (NAM pentapeptide)], encases bacteria and provides structural integrity and protection. Lysozymes are enzymes that break down the bacterial cell wall and disrupt the bacterial life cycle by cleaving the linkage between the NAG and NAM carbohydrates. Lab exercises focused on the effects of lysozyme on the bacterial cell wall are frequently incorporated in biochemistry classes designed for undergraduate students in diverse fields as biology, microbiology, chemistry, agronomy, medicine, and veterinary medicine...
November 13, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29131491/the-polygonal-model-a-simple-representation-of-biomolecules-as-a-tool-for-teaching-metabolism
#16
Carlos Francisco Sampaio Bonafe, Jose Ailton Conceição Bispo, Marcelo Bispo de Jesus
Metabolism involves numerous reactions and organic compounds that the student must master to understand adequately the processes involved. Part of biochemical learning should include some knowledge of the structure of biomolecules, although the acquisition of such knowledge can be time-consuming and may require significant effort from the student. In this report, we describe the "polygonal model" as a new means of graphically representing biomolecules. This model is based on the use of geometric figures such as open triangles, squares, and circles to represent hydroxyl, carbonyl, and carboxyl groups, respectively...
November 13, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29131478/gene-isolation-using-degenerate-primers-targeting-protein-motif-a-laboratory-exercise
#17
Brandon Pei Hui Yeo, Lian Chee Foong, Sheh May Tam, Vivian Lee, Siaw San Hwang
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 isolation and characterization of many plant resistance gene analogues (RGAs), is featured in the development of a series of laboratory experiments using important molecular biology techniques...
November 13, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29105959/design-of-a-software-for-calculating-isoelectric-point-of-a-polypeptide-according-to-their-net-charge-using-the-graphical-programming-language-labview
#18
Glomen Tovar
A software to calculate the net charge and to predict the isoelectric point (pI) of a polypeptide is developed in this work using the graphical programming language LabVIEW. Through this instrument the net charges of the ionizable residues of the polypeptide chains of the proteins are calculated at different pH values, tabulated, pI is predicted and an Excel (-xls) type file is generated. In this work, the experimental values of the pIs (pI) of different proteins are compared with the values of the pIs (pI) calculated graphically, achieving a correlation coefficient (R) of 0...
November 6, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/29105928/lego-bricks-and-the-octet-rule-molecular-models-for-biochemical-pathways-with-plastic-interlocking-toy-bricks
#19
Henry J Lin, Jennifer Lehoang, Isabel Kwan, Anita Baghaee, Priya Prasad, Stephanie J Ha-Chen, Tanesha Moss, Jeremy D Woods
The 8 studs on a 2 × 4 Lego brick conveniently represent the outer shell of electrons for carbon, nitrogen, and oxygen atoms. We used Lego bricks to model these atoms, which are then joined together to form molecules by following the Lewis octet rule. A variety of small biological molecules can be modeled in this way, such as most amino acids, fatty acids, glucose, and various intermediate metabolites. Model building with these familiar toys can be a helpful, hands-on exercise for learning-or re-learning-biochemical pathways...
November 6, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/28902453/implementing-a-web-based-introductory-bioinformatics-course-for-non-bioinformaticians-that-incorporates-practical-exercises
#20
Antony T Vincent, Yves Bourbonnais, Jean-Simon Brouard, Hélène Deveau, Arnaud Droit, Stéphane M Gagné, Michel Guertin, Claude Lemieux, Louis Rathier, Steve J Charette, Patrick Lagüe
A recent scientific discipline, bioinformatics, defined as using informatics for the study of biological problems, is now a requirement for the study of biological sciences. Bioinformatics has become such a powerful and popular discipline that several academic institutions have created programs in this field, allowing students to become specialized. However, biology students who are not involved in a bioinformatics program also need a solid toolbox of bioinformatics software and skills. Therefore, we have developed a completely online bioinformatics course for non-bioinformaticians, entitled "BIF-1901 Introduction à la bio-informatique et à ses outils (Introduction to bioinformatics and bioinformatics tools)," given by the Department of Biochemistry, Microbiology, and Bioinformatics of Université Laval (Quebec City, Canada)...
September 13, 2017: Biochemistry and Molecular Biology Education
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