Abstract

Malaria is caused by parasites of the genus Plasmodium. All human-infecting Plasmodium species can establish long-lasting chronic infections1,​2,​3,​4,​5, creating an infectious reservoir to sustain transmission1,6. It is widely accepted that the maintenance of chronic infection involves evasion of adaptive immunity by antigenic variation7. However, genes involved in this process have been identified in only two of five human-infecting species: Plasmodium falciparum and Plasmodium knowlesi. Furthermore, little is understood about the early events in the establishment of chronic infection in these species. Using a rodent model we demonstrate that from the infecting population, only a minority of parasites, expressing one of several clusters of virulence-associated pir genes, establishes a chronic infection. This process occurs in different species of parasites and in different hosts. Establishment of chronicity is independent of adaptive immunity and therefore different from the mechanism proposed for maintenance of chronic P. falciparum infections7,​8,​9. Furthermore, we show that the proportions of parasites expressing different types of pir genes regulate the time taken to establish a chronic infection. Because pir genes are common to most, if not all, species of Plasmodium10, this process may be a common way of regulating the establishment of chronic infections.

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Acknowledgements

This work was supported by the Francis Crick Institute, which receives its core funding from Cancer Research UK (FC001101), the UK Medical Research Council (FC001101), and the Wellcome Trust (FC001101); by the Wellcome Trust (grant reference WT101777MA). The Wellcome Trust Sanger Institute is funded by the Wellcome Trust (grant no. WT098051). C.N. is supported by the Wellcome Trust (WT104792) and S.C. and P.E.D. are supported by the Intramural Research Program of the US National Institute of Allergy and Infectious Diseases. The authors acknowledge the Biological Research Facility and Flow Cytometry facility at the Francis Crick Institute for their skilled technical assistance and the staff of the Illumina Bespoke Sequencing team at the Wellcome Trust Sanger Institute for their contribution. The authors thank E. Smith for assistance in making constructs for fluorescence tagging of the parasites, and M. Blackman, C. van Ooij, G. Kassiotis and J. Rayner for critical reading of the manuscript.

Author information

Author notes

    • Philip Spence

    Present address: Institute of Immunology and Infection Research (IIIR), School of Biological Sciences, The University of Edinburgh, Edinburgh EH9 3FL UK

    • Thibaut Brugat
    •  & Adam James Reid

    These authors contributed equally to this work.

Affiliations

  1. The Francis Crick institute, London NW1 1AT, UK

    • Thibaut Brugat
    • , Jing-wen Lin
    • , Deirdre Cunningham
    • , Irene Tumwine
    • , Garikai Kushinga
    • , Sarah McLaughlin
    •  & Jean Langhorne
  2. Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK

    • Adam James Reid
    • , Ulrike Böhme
    • , Mandy Sanders
    • , Ellen Bushell
    • , Tom Metcalf
    • , Oliver Billker
    • , Chris Newbold
    •  & Matthew Berriman
  3. MRC National Institute for Medical Research, London NW7 1AA, UK

    • Philip Spence
  4. Laboratory of Malaria Immunology and Vaccinology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Rockville, Maryland 20852, USA

    • Solomon Conteh
    •  & Patrick E. Duffy
  5. Weatherall Institute of Molecular Medicine, Oxford OX3 9DS, UK

    • Chris Newbold

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Contributions

T.B., A.J.R., C.N., M.B. and J.La. designed the study. T.B. designed and performed the mouse experiments with the help of I.T., G.K., S.M. and P.S. A.J.R. designed the sequencing experiments and performed the bioinformatic analyses. M.S. coordinated sequencing experiments. U.B. manually annotated the Plasmodium chabaudi AS genome sequence. D.C. and J.Li. created transgenic parasites. P.E.D. and S.C. performed thicket rat experiments, T.M., E.B. and O.B carried out the experiments in the Brown Norway rats. T.B., A.J.R., C.N., M.B. and J.La. wrote the manuscript.

Competing interests

The authors declare no competing financial interests.

Corresponding authors

Correspondence to Thibaut Brugat or Adam James Reid or Jean Langhorne.

Supplementary information

PDF files

  1. 1.

    Supplementary Information

    Supplementary Figures 1-15, Supplementary Tables 2–4 and Supplementary Tables 8–10.

Excel files

  1. 1.

    Supplementary Table 1

    Lists of genes differentially expressed between acute and chronic phases for wild-type and knockout parasites.

  2. 2.

    Supplementary Table 5

    Expression levels of pir genes during chronic and acute stages of infection of wild-type mice, B6 µMT mice, B6.TCRα–/– mice with P. chabaudi AS, wild-type mice with P. chabaudi CB, brown rats with P. berghei and G. surdaster with P. chabaudi AS.

  3. 3.

    Supplementary Table 6

    Expression levels of pir genes in cloned parasite lines.

  4. 4.

    Supplementary Table 7

    Genes where expression level during the acute phase correlated with the time at recrudescence.

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DOI

https://doi.org/10.1038/nmicrobiol.2016.276

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