Interactive learning modules with 3D printed models improve student understanding of protein structure-function relationships.
3D printing
allosteric regulation
amino acids
model-based learning
molecular visualization
protein structure-function
student misconceptions
undergraduate
Journal
Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology
ISSN: 1539-3429
Titre abrégé: Biochem Mol Biol Educ
Pays: United States
ID NLM: 100970605
Informations de publication
Date de publication:
07 2020
07 2020
Historique:
received:
13
07
2019
revised:
01
04
2020
accepted:
27
04
2020
pubmed:
27
6
2020
medline:
9
2
2021
entrez:
27
6
2020
Statut:
ppublish
Résumé
Ensuring undergraduate students become proficient in relating protein structure to biological function has important implications. With current two-dimensional (2D) methods of teaching, students frequently develop misconceptions, including that proteins contain a lot of empty space, that bond angles for different amino acids can rotate equally, and that product inhibition is equivalent to allostery. To help students translate 2D images to 3D molecules and assign biochemical meaning to physical structures, we designed three 3D learning modules consisting of interactive activities with 3D printed models for amino acids, proteins, and allosteric regulation with coordinating pre- and post-assessments. Module implementation resulted in normalized learning gains on module-based assessments of 30% compared to 17% in a no-module course and normalized learning gains on a comprehensive assessment of 19% compared to 3% in a no-module course. This suggests that interacting with these modules helps students develop an improved ability to visualize and retain molecular structure and function.
Substances chimiques
Proteins
0
Types de publication
Journal Article
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
356-368Subventions
Organisme : National Science Foundation
ID : DUE-1625804
Pays : International
Informations de copyright
© 2020 International Union of Biochemistry and Molecular Biology.
Références
Southard K, Wince T, Meddleton S, Bolger MS. Features of knowledge building in biology: Understanding undergraduate students' ideas about molecular mechanisms. CBE Life Sci Educ. 2016;15(1):1-16 ar7, Spring. https://doi.org/10.1187/cbe.15-05-0114.
Srivastava A. Building mental models by dissecting physical models. Biochem Mol Biol Educ. 2016;44(1):7-11. https://doi.org/10.1002/bmb.20921.
Roberts JR, Hagedorn E, Dillenburg P, Patrick M, Herman T. Physical models enhance molecular three-dimensional literacy in an introductory biochemistry course. Biochem Mol Biol Educ. 2005;33(2):105-110. https://doi.org/10.1002/bmb.2005.494033022426.
Jittivadhna K, Ruenwongsa P, Panijpan B. Beyond textbook illustrations: Hand-held models of ordered DNA and protein structures as 3D supplements to enhance student learning of helical biopolymers. Biochem Mol Biol Educ. 2010;38(6):359-364. https://doi.org/10.1002/bmb.20427.
Canning DR, Cox JR. Teaching the structural nature of biological molecules: Molecular visualization in the classroom and in the hands of students. Chem Educ Res Pract Europe. 2001;2(2):109-122.
Newcombe N. Picture this: Increasing math and science learning by improving spatial thinking. Am Educ. 2010;34(2):29-43.
Jenkinson J. Molecular biology meets the learning sciences: Visualizations in education and outreach. J Mol Biol. 2018;430(21):4013-4027. https://doi.org/10.1016/j.jmb.2018.08.020.
DeSutter D, Stieff M. Teaching students to think spatially through embodied actions: Design principles for learning environments in science, technology, engineering, and mathematics. Cogn Res Prin Implic. 2017;2(1):22-22. https://doi.org/10.1186/s41235-016-0039-y.
D. R. Dries, D. M. Dean, L. L. Listenberger, W. R. Novak, M. A. Franzen, and P. A. Craig, "An expanded framework for biomolecular visualization in the classroom: Learning goals and competencies," Biochem Mol Biol Educ, vol. 45, no. 1, pp. 69-75, 2017, doi: https://doi.org/10.1002/bmb.20991.
Cooper AK, Oliver-Hoyo MT. Creating 3D physical models to probe student understanding of macromolecular structure. Biochem Mol Biol Educ. 2017;45(6):491-500. https://doi.org/10.1002/bmb.21076.
Harris MA, Peck RF, Colton S, Morris J, Chaibub Neto E, Kallio J. A combination of hand-held models and computer imaging programs helps students answer oral questions about molecular structure and function: A controlled investigation of student learning. CBE Life Sci Educ. 2009;8(1):29-43. https://doi.org/10.1187/cbe.08-07-0039.
Gilbert JK. Models and modelling: Routes to more authentic science education. Int J Sci Math Educ. 2004;2(2):115-130. https://doi.org/10.1007/s10763-004-3186-4.
Howell ME, Dijk KV, Booth CS, Helikar T, Couch BA, Roston RL. Visualizing the invisible: A guide to designing, printing, and incorporating dynamic 3D molecular models to teach structure-function relationships. J Microbiol Biol Educ. 2018;19(3):1-3. https://doi.org/10.1128/jmbe.v19i3.1663.
Forbes-Lorman RM, Harris MA, Chang WS, Dent EW, Nordheim EV, Franzen MA. Physical models have gender-specific effects on student understanding of protein structure-function relationships. Biochem Mol Biol Educ. 2016;44(4):326-335. https://doi.org/10.1002/bmb.20956.
Crouch CH, Mazur E. Peer instruction: Ten years of experience and results. Am J Phys. 2001;69(9):970-977. https://doi.org/10.1119/1.1374249.
Howell ME, Booth CS, Sikich SM, et al. Student understanding of DNA structure-function relationships improves from using 3D learning modules with dynamic 3D printed models. Biochem Mol Biol Educ. 2019;47(3):303-317. https://doi.org/10.1002/bmb.21234.
Berman HM, Westbrook J, Feng Z, et al. The protein data bank. Nucleic Acids Res. 2000;28:235-242.
L. Schrödinger, The PyMOL molecular graphics system, version 2.0, Schrödinger, LLC. New York, NY. 2015.
Community BO. Blender - a 3D modelling and rendering package, Stichting Blender Foundation, Amsterdam. 2018. Available at: http://www.blender.org.
Couch BA, Hubbard JK, Brassil CE. Multiple-true-false questions reveal the limits of the multiple-choice format for detecting students with incomplete understandings. Bioscience. 2018;68(6):455-463. https://doi.org/10.1093/biosci/biy037.
Hubbard JK, Potts MA, Couch BA. How question types reveal student thinking: An experimental comparison of multiple-true-false and free-response formats. CBE Life Sci Educ. 2017;16(2):ar26. https://doi.org/10.1187/cbe.16-12-0339.
Brassil CE, Couch BA. Multiple-true-false questions reveal more thoroughly the complexity of student thinking than multiple-choice questions: A Bayesian item response model comparison. Int J STEM Educ. 2019;6(1):16. https://doi.org/10.1186/s40594-019-0169-0.
Fennema E, Tartre LA. The use of spatial visualization in mathematics by girls and boys. J Res Math Educ. 1985;16(3):184-206. https://doi.org/10.2307/748393.
AAAS. Vision and change in undergraduate biology education: A call to action. Washington, DC: American Association for the Advancement of Science, 2011.
ASBMB. Biochemistry/molecular biology and liberal education: A report to the Teagle foundation. Vol 95. Washington, DC: The American Society for Biochemistry and Molecular Biology, 2008.
Tansey JT, Baird T Jr, Cox MM, et al. Foundational concepts and underlying theories for majors in "biochemistry and molecular biology". Biochem Mol Biol Educ. 2013;41(5):289-296. https://doi.org/10.1002/bmb.20727.
Schonborn KJ, Anderson TR. The importance of visual literacy in the education of biochemists*. Biochem Mol Biol Educ. 2006;34(2):94-102. https://doi.org/10.1002/bmb.2006.49403402094.
Newcombe NS, Stieff M. Six myths about spatial thinking. Int J Sci Educ. 2012;34(6):955-971. https://doi.org/10.1080/09500693.2011.588728.
M. Stieff and D. Uttal, "How much can spatial training improve STEM achievement?," Educ Psychol Rev, 27, no. 4, pp. 607-615, 2015, doi: https://doi.org/10.1007/s10648-015-9304-8.
Linenberger KJ, Holme TA. Biochemistry instructors' views toward developing and assessing visual literacy in their courses. J Chem Educ. 2015;92(1):23-31. https://doi.org/10.1021/ed500420r.
Linenberger KJ, Holme TA. Results of a National Survey of biochemistry instructors to determine the prevalence and types of representations used during instruction and assessment. J Chem Educ. 2014;91(6):800-806. https://doi.org/10.1021/ed400201v.
M. Barak and R. Hussein-Farraj, "Integrating model-based learning and animations for enhancing students' understanding of proteins structure and function," Res Sci Educ, 43, no. 2, pp. 619-636, 2013, doi: https://doi.org/10.1007/s11165-012-9280-7.