Analysis of nuclear and organellar genomes of Plasmodium knowlesi in humans reveals ancient population structure and recent recombination among host-specific subpopulations
The macaque parasite Plasmodium knowlesi is a significant concern in Malaysia where cases of human infection are increasing. Parasites infecting humans originate from genetically distinct subpopulations associated with the long-tailed (Macaca fascicularis (Mf)) or pig-tailed macaques (Macaca nemestrina (Mn)). We used a new high-quality reference genome to re-evaluate previously described subpopulations among human and macaque isolates from Malaysian-Borneo and Peninsular-Malaysia. Nuclear genomes were dimorphic, as expected, but new evidence of chromosomal-segment exchanges between subpopulations was found. A large segment on chromosome 8 originating from the Mn subpopulation and containing genes encoding proteins expressed in mosquito-borne parasite stages, was found in Mf genotypes. By contrast, non-recombining organelle genomes partitioned into 3 deeply branched lineages, unlinked with nuclear genomic dimorphism. Subpopulations which diverged in isolation have re-connected, possibly due to deforestation and disruption of wild macaque habitats. The resulting genomic mosaics reveal traits selected by host-vector-parasite interactions in a setting of ecological transition.
Keywords
Nuclear genomes; reference genome; Plasmodium knowlesiItem Type | Dataset |
---|---|
Resource Type |
Resource Type Resource Description Dataset Quantitative |
Capture method | Experiment |
Date | 22 September 2017 |
Language(s) of written materials | English |
Creator(s) |
Diez Benavente, E |
LSHTM Faculty/Department |
Faculty of Epidemiology and Population Health > Dept of Infectious Disease Epidemiology (-2023) Faculty of Infectious and Tropical Diseases > Dept of Immunology and Infection (-2019) Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology (-2019) |
Participating Institutions | London School of Hygiene & Tropical Medicine, London, United Kingdom; Genome Institute of Singapore, Biopolis, Singapore; The Francis Crick Institute, London, United Kingdom; King Abdullah University of Science and Technology, Thuwal, Kingdom of Saudi Arabia; Institute of Singapore, Biopolis, Singapore |
Funders |
Project Funder Grant Number Funder URI UNSPECIFIED UNSPECIFIED http://dx.doi.org/10.13039/501100002992 |
Date Deposited | 22 Sep 2017 16:42 |
Last Modified | 08 Jul 2021 12:52 |
Publisher | Figshare |
Explore Further
- Benavente, Ernest
- Moon, Robert W.
- Blackman, Michael J.
- Roper, Cally
- Drakeley, Chris
- Sutherland, Colin J.
- Hibberd, Martin
- Campino, Susana
- Clark, Taane
- Dept of Infectious Disease Epidemiology (-2023)
- Dept of Immunology and Infection (-2019)
- Dept of Pathogen Molecular Biology (-2019)
- Data record - Figshare (Data)
- Publication - PLOS Genetics (Online Data Resource)
No files available. Please consult associated links.
- Data record - Figshare (Data)
- Publication - PLOS Genetics (Online Data Resource)