A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line

Handle URI:
http://hdl.handle.net/10754/626402
Title:
A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line
Authors:
Benavente, Ernest Diez; de Sessions, Paola Florez; Moon, Robert W.; Grainger, Munira; Holder, Anthony A; Blackman, Michael J.; Roper, Cally; Drakeley, Christopher J.; Pain, Arnab ( 0000-0002-1755-2819 ) ; Sutherland, Colin J.; Hibberd, Martin L.; Campino, Susana; Clark, Taane G
Abstract:
Plasmodium knowlesi, a common parasite of macaques, is recognized as a significant cause of human malaria in Malaysia. The P. knowlesi A1H1 line has been adapted to continuous culture in human erythrocytes, successfully providing an in vitro model to study the parasite. We have assembled a reference genome for the PkA1-H.1 line using PacBio long read combined with Illumina short read sequence data. Compared with the H-strain reference, the new reference has improved genome coverage and a novel description of methylation sites. The PkA1-H.1 reference will enhance the capabilities of the in vitro model to improve the understanding of P. knowlesi infection in humans.
KAUST Department:
Biological and Environmental Sciences and Engineering (BESE) Division; Bioscience Program
Citation:
Benavente ED, de Sessions PF, Moon RW, Grainger M, Holder AA, et al. (2017) A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line. International Journal for Parasitology. Available: http://dx.doi.org/10.1016/j.ijpara.2017.09.008.
Publisher:
Elsevier BV
Journal:
International Journal for Parasitology
Issue Date:
16-Dec-2017
DOI:
10.1016/j.ijpara.2017.09.008
PubMed ID:
29258833
Type:
Article
ISSN:
0020-7519
Sponsors:
TGC is funded by the Medical Research Council (MRC), UK (Grant no. MR/K000551/1, MR/M01360X/1, MR/N010469/1). SC and CR are funded by the MRC (Grant no. MR/M01360X/1). RWM is supported by an MRC Career Development Award jointly funded by the MRC and UK Department for International Development. This work was supported in part by the Francis Crick Institute, UK which receives its core funding from Cancer Research, UK (FC001097, FC001043), the MRC (FC001097, FC001043), and the Wellcome Trust, UK (FC001097, FC001043) We gratefully acknowledge the Scientific Computing Group for data management and computer infrastructure at Genome Institute of Singapore for their help. Bioinformatic analysis was performed on the MRC, UK, funded eMedLab computing resource.
Additional Links:
http://www.sciencedirect.com/science/article/pii/S0020751917303466
Appears in Collections:
Articles; Bioscience Program; Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorBenavente, Ernest Diezen
dc.contributor.authorde Sessions, Paola Florezen
dc.contributor.authorMoon, Robert W.en
dc.contributor.authorGrainger, Muniraen
dc.contributor.authorHolder, Anthony Aen
dc.contributor.authorBlackman, Michael J.en
dc.contributor.authorRoper, Callyen
dc.contributor.authorDrakeley, Christopher J.en
dc.contributor.authorPain, Arnaben
dc.contributor.authorSutherland, Colin J.en
dc.contributor.authorHibberd, Martin L.en
dc.contributor.authorCampino, Susanaen
dc.contributor.authorClark, Taane Gen
dc.date.accessioned2017-12-21T13:57:03Z-
dc.date.available2017-12-21T13:57:03Z-
dc.date.issued2017-12-16en
dc.identifier.citationBenavente ED, de Sessions PF, Moon RW, Grainger M, Holder AA, et al. (2017) A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line. International Journal for Parasitology. Available: http://dx.doi.org/10.1016/j.ijpara.2017.09.008.en
dc.identifier.issn0020-7519en
dc.identifier.pmid29258833-
dc.identifier.doi10.1016/j.ijpara.2017.09.008en
dc.identifier.urihttp://hdl.handle.net/10754/626402-
dc.description.abstractPlasmodium knowlesi, a common parasite of macaques, is recognized as a significant cause of human malaria in Malaysia. The P. knowlesi A1H1 line has been adapted to continuous culture in human erythrocytes, successfully providing an in vitro model to study the parasite. We have assembled a reference genome for the PkA1-H.1 line using PacBio long read combined with Illumina short read sequence data. Compared with the H-strain reference, the new reference has improved genome coverage and a novel description of methylation sites. The PkA1-H.1 reference will enhance the capabilities of the in vitro model to improve the understanding of P. knowlesi infection in humans.en
dc.description.sponsorshipTGC is funded by the Medical Research Council (MRC), UK (Grant no. MR/K000551/1, MR/M01360X/1, MR/N010469/1). SC and CR are funded by the MRC (Grant no. MR/M01360X/1). RWM is supported by an MRC Career Development Award jointly funded by the MRC and UK Department for International Development. This work was supported in part by the Francis Crick Institute, UK which receives its core funding from Cancer Research, UK (FC001097, FC001043), the MRC (FC001097, FC001043), and the Wellcome Trust, UK (FC001097, FC001043) We gratefully acknowledge the Scientific Computing Group for data management and computer infrastructure at Genome Institute of Singapore for their help. Bioinformatic analysis was performed on the MRC, UK, funded eMedLab computing resource.en
dc.publisherElsevier BVen
dc.relation.urlhttp://www.sciencedirect.com/science/article/pii/S0020751917303466en
dc.rights© 2017. This manuscript version is made available under the CC-BY-NC-ND 4.0 license http://creativecommons.org/licenses/by-nc-nd/4.0/en
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/en
dc.subjectPlasmodium knowlesien
dc.subjectReference genomeen
dc.subjectPkA1-H.1en
dc.subjectSequencingen
dc.subjectMalariaen
dc.subjectMethylationen
dc.titleA reference genome and methylome for the Plasmodium knowlesi A1-H.1 lineen
dc.typeArticleen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.contributor.departmentBioscience Programen
dc.identifier.journalInternational Journal for Parasitologyen
dc.eprint.versionPost-printen
dc.contributor.institutionFaculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, London, United Kingdomen
dc.contributor.institutionGenomics Institute Singapore, Singaporeen
dc.contributor.institutionThe Francis Crick Institute, 1 Midland Road, London NW1 1AT, United Kingdomen
dc.contributor.institutionFaculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, United Kingdomen
kaust.authorPain, Arnaben

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