Document Detail


Tax & rex: overlapping genes of the Deltaretrovirus group.
MedLine Citation:
PMID:  16732475     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Bovine leukemia virus and human T-cell leukemia viruses I and II, members of the Deltaretrovirus group, have two regulatory genes, tax and rex, that are coded in overlapping reading frames. We found that sequence variations in the rex gene of each virus result in amino acid differences significantly more often than variations in the tax gene. For all three viruses the highest ratio of non-synonymous to synonymous changes was found in the rex gene. In the overlapping regions of tax and rex, the second codon position of Rex corresponds to the third codon position of Tax. Nucleotide C was present in all genes of the three viruses at the highest frequency and this bias was most pronounced in the rex gene. More specifically we found that the C bias and nucleotide variation is greatest at the second codon position of Rex and the third codon position of Tax in the area of tax/rex overlap. Changes in the second codon position of Rex always resulted in amino acid change whereas changes in the third codon position of Tax resulted in amino acid changes less than a third of the time. Analysis of the amino acid frequencies in both proteins shows that there is a disproportionately large percentage of the amino acids alanine, proline, serine and threonine (the four amino acids whose second codon position is C) in Rex. These findings led us to hypothesize that the Rex protein can withstand more amino acid changes than can the Tax protein suggesting that the Tax protein experiences higher evolutionary constraints and is the more conserved of the two proteins.
Authors:
Kathleen Margaret McGirr; Gertrude Case Buehuring
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Publication Detail:
Type:  Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  Virus genes     Volume:  32     ISSN:  0920-8569     ISO Abbreviation:  Virus Genes     Publication Date:  2006 Jun 
Date Detail:
Created Date:  2006-05-29     Completed Date:  2006-08-30     Revised Date:  2007-11-14    
Medline Journal Info:
Nlm Unique ID:  8803967     Medline TA:  Virus Genes     Country:  United States    
Other Details:
Languages:  eng     Pagination:  229-39     Citation Subset:  IM    
Affiliation:
School of Public Health, Division of Infectious Diseases, University of California, Berkeley, CA 94720, USA. katy@uclink4.berkeley.edu
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MeSH Terms
Descriptor/Qualifier:
Amino Acid Sequence
Animals
Cattle
Codon
Computational Biology
Consensus Sequence
Deltaretrovirus / genetics*
Genes, Overlapping*
Genes, pX*
Human T-lymphotropic virus 1 / genetics
Human T-lymphotropic virus 2 / genetics
Humans
Leukemia Virus, Bovine / genetics
Sequence Alignment
Software
Grant Support
ID/Acronym/Agency:
T32GM07127/GM/NIGMS NIH HHS
Chemical
Reg. No./Substance:
0/Codon

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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