Abstract/Details

Functional divergence after gene duplication and sequence-structure relationship: A case-study of G-protein alpha subunits


2007 2007

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Abstract (summary)

In this study, I use animal G-protein alpha subunit family as an example to illustrate a comprehensive analytical pipeline for detecting different types of functional divergence of protein families, which is phylogeny-dependent, combined with ancestral sequence inference and available protein structure information. In particular, I focus on (i) Type-I functional divergence, or site-specific rate shift, as typically exemplified by amino acid residue highly conserved in a subset of homologous genes but highly variable in a different subset of homologous genes, and (ii) Type-II functional divergence, or the shift of cluster-specific amino acid property, as exemplified by a radical shift of amino acid property between duplicate genes, which is otherwise evolutionally conserved. We utilized the software DIVERGE2 to carry out these analyses. In the case of G-protein alpha subunit gene family, I have tested the significance of functional divergence between subfamily Gq and Gs, and predicted the candidate amino acid residues related to either Type-I or Type-II functional divergence. Then, the inferred ancestral sequences and current amino acid configuration of these candidate sites were combined with phylogenies to explore the trends of functional divergence. Finally, these predicted residues are mapped to the protein structures to test whether these residues may have structures or solvent accessibility preferences.

Indexing (details)


Subject
Bioinformatics
Classification
0715: Bioinformatics
Identifier / keyword
Biological sciences
Title
Functional divergence after gene duplication and sequence-structure relationship: A case-study of G-protein alpha subunits
Author
Zheng, Ying
Number of pages
37
Publication year
2007
Degree date
2007
School code
0097
Source
MAI 46/01M, Masters Abstracts International
Place of publication
Ann Arbor
Country of publication
United States
ISBN
9780549142270
Advisor
Gu, Xun; Dorman, Karin
University/institution
Iowa State University
Department
Genetics, Development and Cell Biology
University location
United States -- Iowa
Degree
M.S.
Source type
Dissertations & Theses
Language
English
Document type
Dissertation/Thesis
Dissertation/thesis number
1446062
ProQuest document ID
304858171
Copyright
Database copyright ProQuest LLC; ProQuest does not claim copyright in the individual underlying works.
Document URL
http://search.proquest.com/docview/304858171
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