ArticleBMC genomics2011
The landscape of inherited and de novo copy number variants in a Plasmodium falciparum genetic cross.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 28 citations in OpenAlex.
- Target gene mutation discovery and amplicon sequencing for evaluating maduramicin resistance in Eimeria tenella.Communications biology · 2025Article
- Article
- Copy Number Variation Regions Differing in Segregation Patterns Span Different Sets of Genes.Animals : an open access journal from MDPI · 2023Article
- Review
- Complex DNA structures trigger copy number variation across the Plasmodium falciparum genome.Nucleic acids research · 2019Article
- The origins of malaria artemisinin resistance defined by a genetic and transcriptomic background.Nature communications · 2018Article
- Gene copy number variation in natural populations of Plasmodium falciparum in Eastern Africa.BMC genomics · 2018Article
- Indels, structural variation, and recombination drive genomic diversity in Plasmodium falciparum.Genome research · 2016Article
- DNA repair mechanisms and their biological roles in the malaria parasite Plasmodium falciparum.Microbiology and molecular biology reviews : MMBR · 2014Review
- A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data.BMC genomics · 2013Article
- Asexual populations of the human malaria parasite, Plasmodium falciparum, use a two-step genomic strategy to acquire accurate, beneficial DNA amplifications.PLoS pathogens · 2013Article
- Application of genomics to field investigations of malaria by the international centers of excellence for malaria research.Acta tropica · 2012Review
- Module-based subnetwork alignments reveal novel transcriptional regulators in malaria parasite Plasmodium falciparum.BMC systems biology · 2012Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundCopy number is a major source of genome variation with important evolutionary implications. Consequently, it is essential to determine copy number variant (CNV) behavior, distributions and frequencies across genomes to understand their origins in both evolutionary and generational time frames. We use comparative genomic hybridization (CGH) microarray and the resolution provided by a segregating population of cloned progeny lines of the malaria parasite, Plasmodium falciparum, to identify and analyze the inheritance of 170 genome-wide CNVs.
resultsWe describe CNVs in progeny clones derived from both Mendelian (i.e. inherited) and non-Mendelian mechanisms. Forty-five CNVs were present in the parent lines and segregated in the progeny population. Furthermore, extensive variation that did not conform to strict Mendelian inheritance patterns was observed. 124 CNVs were called in one or more progeny but in neither parent: we observed CNVs in more than one progeny clone that were not identified in either parent, located more frequently in the telomeric-subtelomeric regions of chromosomes and singleton de novo CNVs distributed evenly throughout the genome. Linkage analysis of CNVs revealed dynamic copy number fluctuations and suggested mechanisms that could have generated them. Five of 12 previously identified expression quantitative trait loci (eQTL) hotspots coincide with CNVs, demonstrating the potential for broad influence of CNV on the transcriptional program and phenotypic variation.
conclusionsCNVs are a significant source of segregating and de novo genome variation involving hundreds of genes. Examination of progeny genome segments provides a framework to assess the extent and possible origins of CNVs. This segregating genetic system reveals the breadth, distribution and dynamics of CNVs in a surprisingly plastic parasite genome, providing a new perspective on the sources of diversity in parasite populations.
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