Strong diversifying selection on domains of the Plasmodium falciparum apical membrane antigen 1 gene


Polley, SD; Conway, DJ; (2001) Strong diversifying selection on domains of the Plasmodium falciparum apical membrane antigen 1 gene. Genetics, 158 (4). pp. 1505-12. ISSN 0016-6731

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Abstract

The surface-accessible ectodomain region of the Plasmodium falciparum apical membrane antigen 1 (AMA1) is a malaria vaccine candidate. The amino acid sequence may be under selection from naturally acquired immune responses, and previous analyses with a small number of allele sequences indicate a non-neutral pattern of nucleotide variation. To investigate whether there is selection to maintain polymorphism within a population, and to identify the parts of the ectodomain under strongest selection, a sample of 51 alleles from a single endemic population was studied. Analyses using Fu and Li's D and F tests, Tajima's D test, and the McDonald-Kreitman test (with the chimpanzee parasite P. reichenowi as outgroup) show significant departure from neutrality and indicate the selective maintenance of alleles within the population. There is also evidence of a very high recombination rate throughout the sequence, as estimated by the recombination parameter, C, and by the rapid decline in linkage disequilibrium with increasing nucleotide distance. Of the three domains (I-III) encoding structures determined by disulfide bonds, the evidence of selection is strongest for Domains I and III. We predict that these domains in particular are targets of naturally acquired protective immune responses in humans.

Item Type: Article
Keywords: Algorithms, Alleles, Animal, Base Sequence, Blood/parasitology, Codon, DNA/metabolism, Disulfides, Human, Linkage Disequilibrium, Meiosis, Membrane Proteins/*genetics, Models, Statistical, Molecular Sequence Data, Plasmodium falciparum/*genetics, Polymorphism (Genetics), Protozoan Proteins/*genetics, Recombination, Genetic, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Support, Non-U.S. Gov't, Algorithms, Alleles, Animal, Base Sequence, Blood, parasitology, Codon, DNA, metabolism, Disulfides, Human, Linkage Disequilibrium, Meiosis, Membrane Proteins, genetics, Models, Statistical, Molecular Sequence Data, Plasmodium falciparum, genetics, Polymorphism (Genetics), Protozoan Proteins, genetics, Recombination, Genetic, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Support, Non-U.S. Gov't
Faculty and Department: Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology
Research Centre: Malaria Centre
PubMed ID: 11514442
Web of Science ID: 170603700010
URI: http://researchonline.lshtm.ac.uk/id/eprint/17062

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