Domain-based approaches to understanding phylogeny and orthology

Ger, Mao-Feng

Permalink

https://hdl.handle.net/2142/29798 Copy

Description

Title

Domain-based approaches to understanding phylogeny and orthology

Author(s)

Ger, Mao-Feng

Issue Date

2012-02-06T20:17:43Z

Director of Research (if dissertation) or Advisor (if thesis)

Jakobsson, Eric

Committee Member(s)

• Grosman, Claudio F.
• Zhong, Sheng
• Ma, Jian

Department of Study

School of Molecular & Cell Bio

Discipline

Biophysics & Computnl Biology

Degree Granting Institution

University of Illinois at Urbana-Champaign

Degree Name

Ph.D.

Degree Level

Dissertation

Keyword(s)

• domain
• phylogeny
• orthology
• domain-based

Abstract

Domain-based approaches are used in phylogenetic reconstruction and functional identification. Two groups of ionotropic glutamate receptors (iGluR’s) were identified with the topology of the binding core and pore-loop of the eukaryotic iGluR’s. Group 1 has a potassium-like selectivity filter and Group 2 is most closely related to eukaryotic iGluR’s. The relationship among them was investigated in this research. Then, the domain complexity of proteins was analysed on a comprehensive basis. Our results showed that bacterial and archaeal proteins are as complex as eukaryotic proteins in domain abundance, but more promiscuous. Proteins emerged in early stage are also more promiscuous, but with low domain abundance. The possible application of protein comparison based on domain content was also suggested in this research and could be used to help the identification of function and orthology. Therefore, domain-based approaches are proved to be useful in many areas of proteome research, including functional annotation, evolutionary illustration, and protein-protein network construction.

Graduation Semester

2011-12

Permalink

http://hdl.handle.net/2142/29798

Copyright and License Information

Copyright 2011 Mao-Feng Ger

Owning Collections