Journal Article

Comparison and Evolutionary Analysis of the Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase from Different Kinetoplastida

Opperdoes, Fred R., Michels, Paul A.M., Hannaert, Véronique

1998

Overview

In this work, we present the sequences and a comparison of the glycosomal GAPDHs from a number of Kinetoplastida. The complete gene sequences have been determined for some species (Crithidia fasciculata, Herpetomonas samuelpessoai, Leptomonas seymouri, and Phytomonas sp), whereas for other species (Trypanosoma brucei gambiense, Trypanosoma congolense, Trypanosoma vivax, and Leishmania major), only partial sequences have been obtained by PCR amplification. The structure of all available glycosomal GAPDH genes was analyzed in detail. Considerable variations were observed in both their nucleotide composition and their codon usage. The GC content varies between 64.4% in L. seymouri and 49.5% in the previously sequenced GAPDH gene from Trypanoplasma borreli. A highly biased codon usage was found in C. fasciculata, with only 34 triplets used, whereas in T. borreli 57 codons were employed. No obvious correlation could be observed between the codon usage and either the nucleotide composition or the level of gene expression. The glycosomal GAPDH is a very well-conserved enzyme. The maximal overall difference observed in the amino acid sequences is only 25%. Specific insertions and extensions are retained in all sequences. The residues involved in catalysis, substrate, and inorganic phosphate binding are fully conserved, whereas some variability is observed in the cofactor-binding pocket. The implications of these data for the design of new trypanocidal drugs targeted against GAPDH are discussed. All available gene and amino acid sequences of glycosomal GAPDHs were used for a phylogenetic analysis. The division of the Kinetoplastida into two suborders, Bodonina and Trypanosomatina, was well supported. Within the letter group, the Trypanosoma species appeared to be monophyletic, whereas the other trypanosomatids form a second clade.

• Publisher: Springer Nature B.V
• Subject: Amino Acid Sequence / Amino Acid Substitution / Amino acids / Animals / Base Composition / Base Sequence / Bodonina / Catalysis / Codon - genetics / Codons / Crithidia fasciculata / Data processing / DNA Primers - genetics / DNA, Protozoan - chemistry / DNA, Protozoan - genetics / Drug development / Drugs / Enzymes / Evolution, Molecular / Evolutionary biology / Gene expression / Genes, Protozoan / Glyceraldehyde-3-phosphate dehydrogenase / Glyceraldehyde-3-Phosphate Dehydrogenases - genetics / Guanylate cyclase / Herpetomonas samuelpessoai / Kinetoplastida / Kinetoplastida - enzymology / Kinetoplastida - genetics / Leishmania major / Leptomonas seymouri / Microbiology / Microbodies - enzymology / molecular evolution / Molecular Sequence Data / Nucleotides / Phosphate / Phylogeny / Phytomonas / Polymerase chain reaction / Population genetics / Sequence Homology, Amino Acid / Sequence Homology, Nucleic Acid / Species Specificity / Trypanoplasma borreli / Trypanosoma brucei gambiense / Trypanosoma congolense / Trypanosoma vivax / Trypanosomatina