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Biology subjects

Akita, T.

Publications and source records attributed to Akita, T..

2 recordsLinked to original sources

Nearly unbiased estimator of adult population size based on within-cohort half-sibling pairs incorporating flexible reproductive variation

Close-kin mark-recapture (CKMR) is a kinship-based method for estimating adult abundance. However, the application of CKMR is limited to using a kinship relationship that is not affected by family-correlated survivorship, which leads to a biased estimation. We developed a nearly unbiased estimator of the number of mothers in a population, which is based on the known maternal half-sibling relationship found within the same cohort. Our method allowed for variance of the averaged offspring number per mother (between-age variation) and for variance of the offspring number among mothers with the same reproductive potential (within-age variation). Estimators of its variance and coefficient variation were also provided. The performance of the estimators was quantitatively evaluated by running an individual-based model. Our results provide guidance for (i) a sample size to archive the required accuracy and precision when the order of mother size is available and (ii) a degree of uncertainty regarding the estimated mother size when information about the mother size is not available. Taken together, these findings offer an opportunity to shed light on the usefulness of analysing within-cohort half-sibling pairs and will greatly widen the scope of the CKMR method.

ecology

The coalescent for prokaryotes with homologous recombination from external source

The coalescent process for prokaryote species is theoretically considered. Prokaryotes undergo homologous recombination not only with other individuals within the same species (intra-specific recombination) but also with other species (inter-specific recombination). This work particularly focuses the latter because the former has been well incorporated in the framework of the coalescent. We here developed a simulation framework for generating patterns of SNPs (single nucleotide polymorphisms) allowing integration of external DNA out of the focal species, and a simulator named msPro was developed. We found that the joint work of intra- and inter-specific recombination creates a complex pattern of SNPs. The direct effect of inter-specific recombination is to increase the amount of polymorphism. Because inter-specific recombination is very rare in general, it creates a regions with an exceptionally high level of polymorphisms. Following an inter-specific recombination event, intra-specific recombination chop the integrated foreign DNA into small pieces, making a complicated pattern of SNPs that looks as if foreign DNAs were integrated multiple times. This work with the msPro simulator would be useful to understand and evaluate the relative contribution of intra- and inter specific recombination to creating complicated patterns of SNPs in prokaryotes.

evolutionary biology