Using the ACE estimate of var type richness and a statistical predictor of the number of new species or types encountered in further sampling of a population [38], we estimated the proportion of var types in a population that will be identified given a range of sample sizes in each population.
Notably, the proportion of var genes in each Ups type is similar between isolates.
Together, our results show that the MEE2-interacting factor (MIF) also binds to related motifs found in a large proportion of var upstream regions.
On the other hand, the proportion of Var-4 protein was higher in KI NMCM transduced with U7-AON-5 or U7-AON-5+6 than in NT KI NMCMs or those transduced with GFP (Fig 4).
The proportion of Var-4 mRNA was 5 6-fold higher in KI NMCMs transduced with U7-AON-5 6-foldhigherON-5+6 than in NT or GFP-transduced KI NMCMs (Fig 4).
As we found no evidence of gene-environmental interactions, we could assume that Cov G, E) = 0. We also estimated the contribution of genetic factors in our models by calculating the average proportion of variation, Var(E)/ Var(P), for 1,000 simulation studies.
In order to estimate the proportion of IT4 var genes represented by these sequences, we searched the 1× coverage IT4 genome sequence at the Wellcome Trust Sanger Institute [ 52] for additional var sequences.
Proportion of variance (Prop Var) explained for Jersey (JER-AUS), Australian Holstein (HOL-AUS) and Nordic Holstein (HOL-NOR) populations.
Whereas in VarP, genetic contributions are expressed as a proportion of the total phenotypic variance Var(Y i), in TReVarP, we target a subcomponent of this variance.
We also note that the proportion of expressed group A-like var sequences in the isolate from the only CD36 T188G homozygote in our dataset (12.7%) was below the lower 95% confidence interval of the mean expression levels in isolates from heterozygote (mean = 26.1%, 95%CI15.4%4%, 36.9%) and wild type children (mean = 24.1%, 95%CI20.4%4%, 27.8%).
This proportion is in accordance with the known distribution of var groups within the genomes of 3D7, IT4/25/4 and HB3 (Table S1).
