New online course course in development! Course dates: March 19 to April 27, 2018 (6 weeks)
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DNA barcoding encompasses a suite of highly standardized molecular analytical tools that facilitate fast and reliable taxonomic identification of organisms using DNA sequences. This technology is increasingly used outside the academic research realm in areas of direct societal importance, such as agriculture, food security, quarantine, environmental monitoring, and conservation. The expanding gamut of applications, especially in a regulatory context, calls for clear and transparent standard operating procedures. This course offers a comprehensive overview of the analytical approaches used in DNA barcoding, with emphasis on integrative operational workflows. It will provide students with theoretical background on the baseline principles and routine protocols that will prepare them for practical research and application – from specimen collection in the field through laboratory analyses, to data validation, interpretation, and publication.
Major Themes and Concepts
The course will introduce several concepts that are key to understanding standard, medium-throughput DNA barcoding operations. It will start with introducing the DNA barcoding concept, procedures, and scope of applications and will then delve into the core operational components of the DNA barcoding workflow:
- Front-end processing (collection ontologies, collection management workflows, compatibility with downstream molecular analyses);
- Molecular analysis (stages of the Sanger sequencing pipeline, good laboratory practices (GLPs), quality control);
- Bioinformatics (data validation, analysis, interpretation, and publication).
It will conclude with discussions on best practices for setting up DNA barcoding pipelines and policy considerations related to international collaboration; see ‘Outline of Course Modules’ for more details.
Students will be trained through a series of online lectures, videos, and discussions and will reinforce their skills through assignments and quizzes. Optional supplementary materials will be provided to help broaden their knowledge background in areas of particular interest.
The course is designed for professionals, graduate students and lab technicians who plan to use DNA barcoding in an applied context.
At the end of this course, students should be able to:
- Describe and comprehend the essence of the DNA barcoding concept, its premise and key applications;
- Describe and comprehend the main components of the DNA barcoding workflow and critical factors involved in establishing medium-throughput analytical operations;
- Describe and comprehend the key aspects of field-based and laboratory-based collection management that facilitate compatibility with downstream molecular analyses;
- Describe and comprehend the main stages of standard molecular analytical workflows and GLPs;
- Perform basic operations associated with collection specimen data acquisition, digitization, and upload to the Barcode of Life Data Systems (BOLD);
- Perform basic validation of DNA barcode sequence data using BOLD built-in tools;
- Describe and comprehend the procedure of identifying unknown organisms using standard DNA barcoding workflows and reference libraries;
- Demonstrate awareness of policy issues related to international transfer and analysis of genetic resources.
- Introductory Overview of the DNA Barcoding Concept
- DNA Barcoding Workflows
- Specimen Processing and Collection Management
- Molecular Analyses in the Laboratory
- Bioinformatics and Sequence Analysis
- Best Practices and International Policy Considerations
Student performance in the course will be assessed through written assignments, participation in online discussions and online quizzes as per following breakdown of the total marks (100%).
- Assignments: 3×10% = 30%
- Online discussion: 2×10% = 20%
- Online quizzes: 5×10% = 50%
A university degree in biology (BSc or equivalent) is preferable. Clear understanding of key biological principles (e.g., evolution, molecular mechanisms of heredity, DNA structure and function, principles of biological systematics, etc.) is a prerequisite for successful comprehension the course modules. Specialized background in molecular biology, collection management, taxonomy, and/or bioinformatics is not required.