Prediction of crossover recombination using parental genomes
CGSpace
View Archive InfoField | Value | |
Title |
Prediction of crossover recombination using parental genomes
|
|
Creator |
Peñuela, Mauricio
Riccio-Rengifo, Camila Finke, Jorge Rocha, Camilo Gkanogiannis, Anestis Wing, Rod A. Lorieux, Mathias |
|
Subject |
genomes
plant breeding oryza recombination crossing over |
|
Description |
Meiotic recombination is a crucial cellular process, being one of the major drivers of evolution and adaptation of species. In plant breeding, crossing is used to introduce genetic variation among individuals and populations. While different approaches to predict recombination rates for different species have been developed, they fail to estimate the outcome of crossings between two specific accessions. This paper builds on the hypothesis that chromosomal recombination correlates positively to a measure of sequence identity. It presents a model that uses sequence identity, combined with other features derived from a genome alignment (including the number of variants, inversions, absent bases, and CentO sequences) to predict local chromosomal recombination in rice. Model performance is validated in an inter-subspecific indica x japonica cross, using 212 recombinant inbred lines. Across chromosomes, an average correlation of about 0.8 between experimental and prediction rates is achieved. The proposed model, a characterization of the variation of the recombination rates along the chromosomes, can enable breeding programs to increase the chances of creating novel allele combinations and, more generally, to introduce new varieties with a collection of desirable traits. It can be part of a modern panel of tools that breeders can use to reduce costs and execution times of crossing experiments.
|
|
Date |
2023-02-16
2023-11-02T08:50:57Z 2023-11-02T08:50:57Z |
|
Type |
Journal Article
|
|
Identifier |
Peñuela, M.; Riccio-Rengifo, C.; Finke, J.; Rocha, C.; Gkanogiannis, A.; Wing, R.A.; Lorieux, M. (2023) Prediction of crossover recombination using parental genomes. PLoS ONE 18(2): e0281804. ISSN: 1932-6203
1932-6203 https://hdl.handle.net/10568/132658 https://doi.org/10.1371/journal.pone.0281804 |
|
Language |
en
|
|
Rights |
CC-BY-4.0
Open Access |
|
Format |
e0281804
application/pdf |
|
Publisher |
Public Library of Science
|
|
Source |
PLoS ONE
|
|