Generation of Antigenic Diversity in Plasmodium falciparum by Structured Rearrangement of Var Genes During Mitosis

Claessens, A, Hamilton, WL, Kekre, M, Otto, TD, Faizullabhoy, A, Rayner, JC and Kwiatkowski, D. 2014. Generation of Antigenic Diversity in Plasmodium falciparum by Structured Rearrangement of Var Genes During Mitosis. [Online]. PLOS Genetics. Available from: https://doi.org/10.1371/journal.pmed.1001893p://dx.doi.org/10.1371/journal.pmed.1001893

Claessens, A, Hamilton, WL, Kekre, M, Otto, TD, Faizullabhoy, A, Rayner, JC and Kwiatkowski, D. Generation of Antigenic Diversity in Plasmodium falciparum by Structured Rearrangement of Var Genes During Mitosis [Internet]. PLOS Genetics; 2014. Available from: https://doi.org/10.1371/journal.pmed.1001893p://dx.doi.org/10.1371/journal.pmed.1001893

Claessens, A, Hamilton, WL, Kekre, M, Otto, TD, Faizullabhoy, A, Rayner, JC and Kwiatkowski, D (2014). Generation of Antigenic Diversity in Plasmodium falciparum by Structured Rearrangement of Var Genes During Mitosis. [Data Collection]. PLOS Genetics. https://doi.org/10.1371/journal.pmed.1001893p://dx.doi.org/10.1371/journal.pmed.1001893

Methods

Data capture method	Experiment: Laboratory
Date (Date published in a 3rd party system)	18 December 2014
Language(s) of written materials	English

People & Groups

Data Creators	Claessens, A, Hamilton, WL, Kekre, M, Otto, TD, Faizullabhoy, A, Rayner, JC and Kwiatkowski, D
LSHTM Faculty/Department	Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology
Research Centre	Malaria Centre
Participating Institutions	Wellcome Trust Sanger Institute, University of Oxford, London School of Hygiene & Tropical Medicine

Projects

Funders

Project	Funder	Grant Number	Funder URI
UNSPECIFIED	Wellcome Trust	UNSPECIFIED	http://dx.doi.org/10.13039/100010269
UNSPECIFIED	Medical Research Council	UNSPECIFIED	http://dx.doi.org/10.13039/501100000265

Additional Information

Date Deposited	20 Oct 2015 09:51
Last Modified	20 Jan 2021 12:12
Publisher	PLOS Genetics

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Data / Code

S1_Table Download

Filename: S1_Table.xlsx

Description: Genome coverage for each subclone

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Content type: Dataset

File size: 70kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

S2_Table Download

Filename: S2_Table.xlsx

Description: SNPs identified in clone trees

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Content type: Dataset

File size: 69kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

S3_Table Download

Filename: S3_Table.xlsx

Description: Structural variants identified in the 3D7 clone tree, represented in Fig. 1

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Content type: Dataset

File size: 141kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

S4_Table Download

Filename: S4_Table.xlsx

Description: All var gene recombinations

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Content type: Dataset

File size: 96kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

S5_Table Download

Filename: S5_Table.xlsx

Description: Mitotic point mutation rates and var gene recombination rates measured from clone trees

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Content type: Dataset

File size: 55kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

S6_Table Download

Filename: S6_Table.xlsx

Description: Primers used for validating point mutations and var gene recombination by PCR amplification and capillary sequencing

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Content type: Dataset

File size: 11kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

S7_Table Download

Filename: S7_Table.xlsx

Description: Crosses progeny culture time and var gene recombinations

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Content type: Dataset

File size: 38kB

Mime-Type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

Data Visualisation

S1_Fig Download

Filename: S1_Fig.pdf

Description: Generating clone trees

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Content type: Textual content

File size: 782kB

Mime-Type: application/pdf

S2_Fig Download

Filename: S2_Fig.pdf

Description: Chimeric var gene created by recombination

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Content type: Still Image

File size: 336kB

Mime-Type: application/pdf

S3_Fig Download

Filename: S3_Fig.pdf

Description: Example of 7 recombination events within var gene exon2 in 3D7_1b

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Content type: Still Image

File size: 967kB

Mime-Type: application/pdf

S4_Fig Download

Filename: S4_Fig.pdf

Description: Triple recombination event within less than 50 bp

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Content type: Still Image

File size: 323kB

Mime-Type: application/pdf

S5_Fig Download

Filename: S5_Fig.pdf

Description: Duplications in internal var gene clusters can also generate chimeras

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Content type: Still Image

File size: 703kB

Mime-Type: application/pdf

S6_Fig Download

Filename: S6_Fig.pdf

Description: Another example of internal var gene clusters generating chimeras

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Content type: Still Image

File size: 602kB

Mime-Type: application/pdf

S7_Fig Download

Filename: S7_Fig.pdf

Description: Evolution of a var gene

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Content type: Still Image

File size: 583kB

Mime-Type: application/pdf

S10_Fig Download

Filename: S10_Fig.pdf

Description: Defining identity blocks. Var B/C genes recombine (A) ClustalW alignment of Dd2var34 and Dd2var45 at a crossover

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Content type: Still Image

File size: 186kB

Mime-Type: application/pdf

S13_Fig Download

Filename: S13_Fig.eps

Description: Distribution of var exon 1 recombination within each domain class

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Content type: Still Image

File size: 469kB

Mime-Type: application/postscript

S14_Fig Download

Filename: S14_Fig.eps

Description: No recombination hotspot within DBL domains

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Content type: Still Image

File size: 181kB

Mime-Type: application/postscript

S15_Fig Download

Filename: S15_Fig.pdf

Description: No conserved motifs within Identity Blocks.

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Content type: Still Image

File size: 173kB

Mime-Type: application/pdf

S8_Fig Download

Filename: S8_Fig.png

Description: All var exon 1 translocations identified in this study

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Content type: Still Image

File size: 4MB

Mime-Type: image/png

S9_Fig Download

Filename: S9_Fig.png

Description: Group B/C var genes do not necessarily recombine with var genes of highest similarity

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Content type: Still Image

File size: 2MB

Mime-Type: image/png

S11_Fig Download

Filename: S11_Fig.png

Description: Recombination in var genes occurs where sequences are similar

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Content type: Still Image

File size: 1MB

Mime-Type: image/png

S12_Fig Download

Filename: S12_Fig.png

Description: Var gene exon 1 recombine in short regions of higher homology

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Content type: Still Image

File size: 4MB

Mime-Type: image/png

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