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Making Better Poison Eaters

Metabolic Engineering for Bioremediation


Author(s)

Kelsie J. Anson
DNA Learning Center NYC
Cold Spring Harbor Laboratories
kelsiejaness@gmail.com
Briana N. Van Treeck
Department of Molecular and Cell Biology
University of California, Berkeley
briana.van.treeck@berkeley.edu
Jake J. Flood
Department of Bioengineering
University of California, Berkeley
jake.flood@colorado.edu

Abstract

Cellular metabolism is traditionally taught in undergraduate biochemistry courses through the memorization of complex biochemical pathways. As such, many students find it difficult to relate the subject to current research in biology and in medicine. In an effort to build student interest in learning about metabolic pathways, we developed a case study that asks students to apply course topics to a current metabolic engineering challenge. The α-proteobacterium Sphingobium chlorophenolicum has evolved to break down the toxic environmental pollutant pentachlorophenol (PCP), albeit at a relatively slow rate. This case study uses a jigsaw activity in which students are presented with a variety of biological data including enzyme kinetics, phylogenetic alignment, metabolomics results, and bacterial growth curves. They are then challenged to devise strategies for engineering a bacterial strain with improved rates of PCP degradation. The case is ideally suited for upper-level undergraduate courses in biochemistry, cell biology, or biotechnology, and is designed to improve students’ abilities to interpret experimental data, design well-controlled experiments, and communicate findings in a peer-based setting.


Objectives

  • Interpret experimental biology and biochemistry data.
  • Identify a testable and falsifiable hypothesis based on provided data.
  • Design an experiment, including appropriate control variables.
  • Evaluate possible experimental results.
  • Explain an aspect of metabolic engineering to their peers.
  • Apply the case study to what they have learned in lecture.
  • Work cooperatively toward a scientific goal.

Keywords

Bioremediation; metabolic engineering; metabolism; metabolic pathway; poison eaters; microbial genetics; biochemistry; pentachlorophenol; PCP; Sphingobium chlorophenolicum; S. chlorophenolicum;

Topical Areas

N/A

Educational Level

Undergraduate upper division

Format

PDF

Type / Methods

Jig-Saw, Problem-Based Learning

Language

English

Subject Headings

Biology (General)  |   Biotechnology  |   Biochemistry  |   Cell Biology  |   Environmental Engineering  |   Evolutionary Biology  |   Microbiology  |   Molecular Biology  |  


Date Posted

06/14/2021

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