ArticleBMC bioinformatics2012
The simulation of meiosis in diploid and tetraploid organisms using various genetic models.
Article in BMC bioinformatics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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46 citing papers in PubMed.
- Bridging tradition and innovation: a review of computer simulations in plant breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Tests for segregation distortion in higher ploidy F1 populations.G3 (Bethesda, Md.) · 2025Article
- ResynPy: a software for selecting pairs of complementary inbred lines to resynthesize valuable heterozygous genotypes.BMC bioinformatics · 2025Article
- Tests for segregation distortion in tetraploid F1 populations.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- ADAM-multi: software to simulate complex breeding programs for animals and plants with different ploidy levels and generalized genotypic effect models to account for multiple alleles.Frontiers in genetics · 2025Article
- Construction of relatedness matrices in autopolyploid populations using low-depth high-throughput sequencing data.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
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- Smooth Descent: A ploidy-aware algorithm to improve linkage mapping in the presence of genotyping errors.Frontiers in genetics · 2023Article
- Developing best practices for genotyping-by-sequencing analysis in the construction of linkage maps.GigaScience · 2022Article
- Privacy-aware estimation of relatedness in admixed populations.Briefings in bioinformatics · 2022Article
- Blib is a multi-module simulation platform for genetics studies and intelligent breeding.Communications biology · 2022Article
- PolyHaplotyper: haplotyping in polyploids based on bi-allelic marker dosage data.BMC bioinformatics · 2022Article
- Multiallelic models for QTL mapping in diverse polyploid populations.BMC bioinformatics · 2022Article
- Perspective for genomic-enabled prediction against black sigatoka disease and drought stress in polyploid species.Frontiers in plant science · 2022Review
- Article
- Detecting quantitative trait loci and exploring chromosomal pairing in autopolyploids using polyqtlR.Bioinformatics (Oxford, England) · 2021Article
- Article
- Genomics-based discrimination of 2n gamete formation mechanisms in polyploids: a case study in nonaploid Diospyros kaki 'Akiou'.G3 (Bethesda, Md.) · 2021Article
- Using probabilistic genotypes in linkage analysis of polyploids.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- AlphaSimR: an R package for breeding program simulations.G3 (Bethesda, Md.) · 2021Article
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundWhile the genetics of diploid inheritance are well studied and software for linkage mapping, haplotyping and QTL analysis are available, for tetraploids the available tools are limited. In order to develop such tools it would be helpful if simulated populations based on a variety of models of the tetraploid meiosis would be available.
resultsHere we present PedigreeSim, a software package that simulates meiosis in both diploid and tetraploid species and uses this to simulate pedigrees and cross populations. For tetraploids a variety of models can be used, including both bivalent and quadrivalent formation, varying degrees of preferential pairing of hom(oe)ologous chromosomes, different quadrivalent configurations and more. Simulation of quadrivalent meiosis results as expected in double reduction and recombination between more than two hom(oe)ologous chromosomes. The results are shown to match theoretical predictions.
conclusionsThis is the first simulation software that implements all features of meiosis in tetraploids. It allows to generate data for tetraploid and diploid populations, and to investigate different models of tetraploid meiosis. The software and manual are available from http://www.plantbreeding.nl/UK/software_pedigreeSim.html and as Additional files 1, 2, 3 and 4 with this publication.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.