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Computational characterization of double reduction in autotetraploid natural populations
Author(s) -
Jiang Libo,
Ren Xiangyu,
Wu Rongling
Publication year - 2021
Publication title -
the plant journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.058
H-Index - 269
eISSN - 1365-313X
pISSN - 0960-7412
DOI - 10.1111/tpj.15126
Subject(s) - unobservable , biology , ploidy , allele , evolutionary biology , genetics , population , genome , identifiability , inheritance (genetic algorithm) , gene , statistics , econometrics , mathematics , demography , sociology
SUMMARY Population genetic theory has been well developed for diploid species, but its extension to study genetic diversity, variation and evolution in autopolyploids, a class of polyploids derived from the genome doubling of a single ancestral species, requires the incorporation of multisomic inheritance. Double reduction, which is characteristic of autopolyploidy, has long been believed to shape the evolutionary consequence of organisms in changing environments. Here, we develop a computational model for testing and estimating double reduction and its genomic distribution in autotetraploids. The model is implemented with the expectation–maximization (EM) algorithm to dissect unobservable allelic recombinations among multiple chromosomes, enabling the simultaneous estimation of allele frequencies and double reduction in natural populations. The framework fills an important gap in the population genetic theory of autopolyploids.