ArticleGenetics2000
Nonrandom spatial distribution of synonymous substitutions in the GP63 gene from Leishmania.
Article in Genetics, 2000. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Exploring the genomic landscape of the GP63 family in Trypanosoma cruzi: Evolutionary dynamics and functional peculiarities.PLoS neglected tropical diseases · 2025Article
- Variation in Leishmania chemokine suppression driven by diversification of the GP63 virulence factor.PLoS neglected tropical diseases · 2021Article
- Pathogen Evasion of Chemokine Response Through Suppression of CXCL10.Frontiers in cellular and infection microbiology · 2019Article
- An evolutionary analysis of trypanosomatid GP63 proteases.Parasitology research · 2011Article
- Genetic history of hepatitis C virus in Venezuela: high diversity and long time of evolution of HCV genotype 2.PloS one · 2010Article
- Positive selection differs between protein secondary structure elements in Drosophila.Genome biology and evolution · 2010Article
- Sequence-based prediction of protein-protein interactions by means of codon usage.Genome biology · 2008Article
- DNA Vaccines against Protozoan Parasites: Advances and Challenges.Journal of biomedicine & biotechnology · 2007Article
- Evidence of structural genomic region recombination in Hepatitis C virus.Virology journal · 2006Article
- Molecular evolution of hepatitis A virus: a new classification based on the complete VP1 protein.Journal of virology · 2002Article
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In this work we analyze the variability in substitution rates in the GP63 gene from Leishmania. By using a sliding window to estimate substitution rates along the gene, we found that the rate of synonymous substitutions along the GP63 gene is highly correlated with both the rate of amino acid substitution and codon bias. Furthermore, we show that comparisons involving genes that represent independent phylogenetic lines yield very similar divergence/conservation patterns, thus suggesting that deterministic forces (i.e., nonstochastic forces such as selection) generated these patterns. We present evidence indicating that the variability in substitution rates is unambiguously related to functionally relevant features. In particular, there is a clear relationship between rates and the tertiary structure of the encoded protein since all divergent segments are located on the surface of the molecule and facing one side (almost parallel to the cell membrane) on the exposed surface of the organism. Remarkably, the protein segments encoded by these variable regions encircle the active site in a funnel-like distribution. These results strongly suggest that the pattern of nucleotide divergence and, notably, of synonymous divergence is affected by functional constraints.
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