PhD Thesis Defense - Ivan de Carlos Caceres Mendieta

Event Details
Contact

Ivan Caceres

Summaries

Summary Sentence: "On-Chip Phenotypic Screening & Characterization of C. elegans Enabled by Microfluidics & Image Analysis Methods"

Full Summary: PhD Thesis Defense - Ivan de Carlos Caceres Mendieta

"On-Chip Phenotypic Screening & Characterization of C. elegans Enabled by Microfluidics & Image Analysis Methods"

Advisor:  Dr. Hang Lu (BioE / ChBE)

Committee:
Xiaoping Hu, PhD (BioE / BMED)
Oliver Brand, PhD (ECE)
Todd Streelman, PhD (Bio)
Robert Butera, PhD (BioE / ECE)

Since its introduction in 1960’s, the model organism Caenorhabditis elegans has played a crucial role towards scientific discoveries because of its relatively simple anatomy, conserved biological mechanisms, and mapped genome. The organism also has a rapid generation time and produces a large number of isogenic progeny, making C. elegans an excellent system for conducting forward genetic screens. Conventional screening methods, however, are labor intensive and introduce potential experimental bias; typically, large-scale screens can take months to years. Thus, automated screening and characterization platforms can provide an opportunity to overcome this bottleneck.

The objective of this thesis is to develop tools to perform rapid phenotypical characterization of C. elegans to enable automated genetic screening systems for neural development. To achieve this goal, I developed methods to increase throughput of worm handling using microfluidic devices and demonstrate software modules to phenotype unknown mutants using quantitative and morphological image analysis methods. Microfluidic devices are constructed from PDMS using established soft-lithography techniques. The emphasis on the simplification of existing designs greatly facilitates the adoption of our developed systems by other scientists. This thesis also includes image processing modules using various techniques to determine animal phenotypes. For example, we adapted standard thresholding methods to detect animal motor neurons, developed a modified granulometry algorithm to rapidly characterize large numbers of lipid droplets in 3D, and developed a probability model to determine neuronal process morphology.

This work is significant because it increases current capabilities of screening small animals with morphological phenotypes by enhancing throughput and reducing human bias. Genes or gene functions that can be discovered using these methods can further elucidate mechanisms relevant to neural development, degeneration, maintenance, and function; these discoveries in turn can facilitate discoveries of potential therapeutic strategies for human neurological diseases.
 

Related Links

Additional Information

In Campus Calendar
Yes
Groups

Parker H. Petit Institute for Bioengineering and Bioscience (IBB), Bioengineering Graduate Program

Invited Audience
No audiences were selected.
Categories
Student sponsored
Keywords
ivan caceres
Status
  • Created By: Colly Mitchell
  • Workflow Status: Published
  • Created On: Aug 7, 2013 - 6:44am
  • Last Updated: Oct 7, 2016 - 10:04pm