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Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses

Author(s): Adam Kleinschmit1, Benita Brink1, Steven Roof2, Carlos Christopher Goller3, Sabrina Robertson3

1. Adams State University 2. Fairmont State University 3. North Carolina State University

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Adapt 8
Summary:
This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.

Licensed under CC Attribution-NonCommercial-ShareAlike 4.0 International according to these terms

Version 5.0 - published on 02 May 2019 doi:10.25334/Q4G45Z - cite this

Keywords

  1. phylogenetics
  2. bioinformatics
  3. sequencing
  4. FASTA
  5. NCBI
  6. NIBLSE
  7. algorithms
  8. incubators
  9. BLAST
  10. multiple sequence alignment
  11. sequence similarity
  12. BLOSUM scoring matrix
  13. neighbor-joining distance matrix
  14. CourseSource
  15. phylogram
  16. Zika virus

Alignments

  1. Resource Type
  2. Audience Level
  3. Activity Length
  4. NIBLSE Core Competencies
  5. NIBLSE Status
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    Adam Kleinschmit @ on   (Edited: @ on )

    Validated Assessment Instrument and Learning Resource Effectiveness 

    A collaborative group of faculty applied an iterative co-design process to develop a validated objective learning gains assessment instrument for this resource. The fifteen-item pre-/post-assessment instrument consists of a combination of multiple-choice and multiple-select questions to allow for scaling data collection within large enrollment courses.  

    The instrument has been utilized in diverse course implementation contexts (e.g., lower-division courses, upper-division courses, various course-content emphases) and institution types (e.g., research-intensive, primarily undergraduate institutions). Data collected as part of an educational research study indicated learning gains were observed across diverse life science courses, thus supporting the effectiveness of this learning resource. 

    This dataset can be found via the publication cited below. The validated assessment instrument can be found within the articles “supporting information” section associated with the research article for classroom use: 

    Kleinschmit AJ, Ryder EF, Kerby JL, Murdoch B, Donovan S, Grandgenett NF, et al. (2021). Community development, implementation, and assessment of a NIBLSE bioinformatics sequence similarity learning resource. PLoS ONE, 16(9): e0257404. https://doi.org/10.1371/journal.pone.0257404

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