Long- and short-term selective forces on malaria parasite genomes

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Standard

Long- and short-term selective forces on malaria parasite genomes. / Nygaard, Sanne; Braunstein, Alexander; Malsen, Gareth; Van Dongen, Stijn; Gardner, Paul P; Krogh, Anders; Otto, Thomas D; Pain, Arnab; Berriman, Matthew; McAuliffe, Jon; Dermitzakis, Emmanouil T; Jeffares, Daniel C.

In: P L o S Genetics, Vol. 6, No. 9, 01.09.2010.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Nygaard, S, Braunstein, A, Malsen, G, Van Dongen, S, Gardner, PP, Krogh, A, Otto, TD, Pain, A, Berriman, M, McAuliffe, J, Dermitzakis, ET & Jeffares, DC 2010, 'Long- and short-term selective forces on malaria parasite genomes', P L o S Genetics, vol. 6, no. 9. https://doi.org/10.1371/journal.pgen.1001099

APA

Nygaard, S., Braunstein, A., Malsen, G., Van Dongen, S., Gardner, P. P., Krogh, A., Otto, T. D., Pain, A., Berriman, M., McAuliffe, J., Dermitzakis, E. T., & Jeffares, D. C. (2010). Long- and short-term selective forces on malaria parasite genomes. P L o S Genetics, 6(9). https://doi.org/10.1371/journal.pgen.1001099

Vancouver

Nygaard S, Braunstein A, Malsen G, Van Dongen S, Gardner PP, Krogh A et al. Long- and short-term selective forces on malaria parasite genomes. P L o S Genetics. 2010 Sep 1;6(9). https://doi.org/10.1371/journal.pgen.1001099

Author

Nygaard, Sanne ; Braunstein, Alexander ; Malsen, Gareth ; Van Dongen, Stijn ; Gardner, Paul P ; Krogh, Anders ; Otto, Thomas D ; Pain, Arnab ; Berriman, Matthew ; McAuliffe, Jon ; Dermitzakis, Emmanouil T ; Jeffares, Daniel C. / Long- and short-term selective forces on malaria parasite genomes. In: P L o S Genetics. 2010 ; Vol. 6, No. 9.

Bibtex

@article{310365735dfc4c1d9be5a9934281698c,
title = "Long- and short-term selective forces on malaria parasite genomes",
abstract = "Plasmodium parasites, the causal agents of malaria, result in more than 1 million deaths annually. Plasmodium are unicellular eukaryotes with small ~23 Mb genomes encoding ~5200 protein-coding genes. The protein-coding genes comprise about half of these genomes. Although evolutionary processes have a significant impact on malaria control, the selective pressures within Plasmodium genomes are poorly understood, particularly in the non-protein-coding portion of the genome. We use evolutionary methods to describe selective processes in both the coding and non-coding regions of these genomes. Based on genome alignments of seven Plasmodium species, we show that protein-coding, intergenic and intronic regions are all subject to purifying selection and we identify 670 conserved non-genic elements. We then use genome-wide polymorphism data from P. falciparum to describe short-term selective processes in this species and identify some candidate genes for balancing (diversifying) selection. Our analyses suggest that there are many functional elements in the non-genic regions of these genomes and that adaptive evolution has occurred more frequently in the protein-coding regions of the genome.",
keywords = "Animals, Conserved Sequence, Genes, Protozoan, Genome, Protozoan, Malaria, Open Reading Frames, Parasites, Phylogeny, Plasmodium, Selection, Genetic, Species Specificity, Time Factors",
author = "Sanne Nygaard and Alexander Braunstein and Gareth Malsen and {Van Dongen}, Stijn and Gardner, {Paul P} and Anders Krogh and Otto, {Thomas D} and Arnab Pain and Matthew Berriman and Jon McAuliffe and Dermitzakis, {Emmanouil T} and Jeffares, {Daniel C}",
year = "2010",
month = sep,
day = "1",
doi = "10.1371/journal.pgen.1001099",
language = "English",
volume = "6",
journal = "P L o S Genetics",
issn = "1553-7390",
publisher = "Public Library of Science",
number = "9",

}

RIS

TY - JOUR

T1 - Long- and short-term selective forces on malaria parasite genomes

AU - Nygaard, Sanne

AU - Braunstein, Alexander

AU - Malsen, Gareth

AU - Van Dongen, Stijn

AU - Gardner, Paul P

AU - Krogh, Anders

AU - Otto, Thomas D

AU - Pain, Arnab

AU - Berriman, Matthew

AU - McAuliffe, Jon

AU - Dermitzakis, Emmanouil T

AU - Jeffares, Daniel C

PY - 2010/9/1

Y1 - 2010/9/1

N2 - Plasmodium parasites, the causal agents of malaria, result in more than 1 million deaths annually. Plasmodium are unicellular eukaryotes with small ~23 Mb genomes encoding ~5200 protein-coding genes. The protein-coding genes comprise about half of these genomes. Although evolutionary processes have a significant impact on malaria control, the selective pressures within Plasmodium genomes are poorly understood, particularly in the non-protein-coding portion of the genome. We use evolutionary methods to describe selective processes in both the coding and non-coding regions of these genomes. Based on genome alignments of seven Plasmodium species, we show that protein-coding, intergenic and intronic regions are all subject to purifying selection and we identify 670 conserved non-genic elements. We then use genome-wide polymorphism data from P. falciparum to describe short-term selective processes in this species and identify some candidate genes for balancing (diversifying) selection. Our analyses suggest that there are many functional elements in the non-genic regions of these genomes and that adaptive evolution has occurred more frequently in the protein-coding regions of the genome.

AB - Plasmodium parasites, the causal agents of malaria, result in more than 1 million deaths annually. Plasmodium are unicellular eukaryotes with small ~23 Mb genomes encoding ~5200 protein-coding genes. The protein-coding genes comprise about half of these genomes. Although evolutionary processes have a significant impact on malaria control, the selective pressures within Plasmodium genomes are poorly understood, particularly in the non-protein-coding portion of the genome. We use evolutionary methods to describe selective processes in both the coding and non-coding regions of these genomes. Based on genome alignments of seven Plasmodium species, we show that protein-coding, intergenic and intronic regions are all subject to purifying selection and we identify 670 conserved non-genic elements. We then use genome-wide polymorphism data from P. falciparum to describe short-term selective processes in this species and identify some candidate genes for balancing (diversifying) selection. Our analyses suggest that there are many functional elements in the non-genic regions of these genomes and that adaptive evolution has occurred more frequently in the protein-coding regions of the genome.

KW - Animals

KW - Conserved Sequence

KW - Genes, Protozoan

KW - Genome, Protozoan

KW - Malaria

KW - Open Reading Frames

KW - Parasites

KW - Phylogeny

KW - Plasmodium

KW - Selection, Genetic

KW - Species Specificity

KW - Time Factors

U2 - 10.1371/journal.pgen.1001099

DO - 10.1371/journal.pgen.1001099

M3 - Journal article

C2 - 20838588

VL - 6

JO - P L o S Genetics

JF - P L o S Genetics

SN - 1553-7390

IS - 9

ER -

ID: 33342642