PUBLICATION
Phosphoglucose isomerases of hagfish, zebrafish, gray mullet, toad, and snake, with reference to the evolution of the genes in vertebrates
- Authors
- Kao, H.W. and Lee, S.C.
- ID
- ZDB-PUB-020520-1
- Date
- 2002
- Source
- Mol. Biol. Evol. 19(4): 367-374 (Journal)
- Registered Authors
- Keywords
- gene duplication; nonsynonymous substitution; purifying selection; radical amino acid change; synonymous substitution
- MeSH Terms
-
- Amino Acid Sequence
- Animals
- Bufonidae/genetics*
- Bufonidae/metabolism
- Cloning, Molecular
- Codon
- Conserved Sequence
- DNA/chemistry
- Evolution, Molecular
- Glucose-6-Phosphate Isomerase/genetics*
- Hagfishes/genetics*
- Hagfishes/metabolism
- Isoelectric Focusing
- Molecular Sequence Data
- Molecular Weight
- Phylogeny
- Sequence Homology, Amino Acid
- Smegmamorpha/genetics*
- Smegmamorpha/metabolism
- Snakes/genetics*
- Snakes/metabolism
- Zebrafish/genetics*
- Zebrafish/metabolism
- PubMed
- 11919278 Full text @ Mol. Biol. Evol.
Citation
Kao, H.W. and Lee, S.C. (2002) Phosphoglucose isomerases of hagfish, zebrafish, gray mullet, toad, and snake, with reference to the evolution of the genes in vertebrates. Mol. Biol. Evol.. 19(4):367-374.
Abstract
Phosphoglucose isomerase (PGI) is a protein with multiple functions. To infer its structure changes and evolution in vertebrates, we cloned cDNAs encoding PGI genes from hagfish (Paramyxine yangi), gray mullet (Mugil cephalus), zebrafish (Danio rerio), toad (Bufo melanosticus), and snake (Boiga kraepelini). Only one PGI gene was cloned in each of hagfish, toad, and snake, but two PGI genes were found in zebrafish and gray mullet, respectively. The PGI of hagfish encodes 554 amino acids, in contrast to the PGIs of bonyfishes, toad, and snake which encode 553 amino acids and the PGIs of mammals which encode 558 amino acids. Among 558 aligned amino acid sites, there are 314 sites (56.27%) totally conserved. To see if diversifying selection acts on PGI amino acids of vertebrates, we calculated the pairwise ratio of nonsynonymous versus synonymous substitution per site (Ka/Ks) and the ratio of radical amino acid changes versus conservative amino acid changes per sites (dR/dC) between PGI sequences. The average pairwise ratio between nonsynonymous substitutions per nucleotide (Ka) and synonymous substitutions per nucleotide (Ks) among vertebrate PGI sequences equals 0.047 +/- 0.019. The average pairwise ratio between radical amino acid changes and conservative amino acid changes (dR/dC) among the vertebrate PGIs equal 0.938 +/- 0.158 for charge changes, 0.558 +/- 0.085 for polarity changes, and 0.465 +/- 0.0714 when both polarity and volume are considered. There is no amino acid within the vertebrate PGIs under diversifying selection as analyzed by the method of Yang et al. (2000b). The results suggest that the present vertebrate PGIs are at evolutionary stasis and are being subjected to intense purifying selection. The purifying selection is to maintain polarity and volume of the protein but not the charge groups of amino acids. Phylogenetic analysis reveals that vertebrate PGIs can be classified into three major groups: the mammalian, amphibian-reptilian, and teleostean PGIs. The gene tree suggests that the gene duplication event of PGI in bonyfishes occurred before diversification of Acanthopterygii but after the split of bonyfishes and tetrapods. The evolution of multiple functions of PGI is discussed.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping