Partial preferential chromosome pairing is genotype dependent in tetraploid rose

Publication Overview
TitlePartial preferential chromosome pairing is genotype dependent in tetraploid rose
AuthorsBourke PM, Arens P, Voorrips RE, Esselink GD, Koning-Boucoiran CF, Van't Westende WP, Santos Leonardo T, Wissink P, Zheng C, van Geest G, Visser RG, Krens FA, Smulders MJ, Maliepaard C
TypeJournal Article
Journal NamePlant J
Volume90
Year2017
Page(s)330-343
CitationBourke PM, Arens P, Voorrips RE, Esselink GD, Koning-Boucoiran CF, Van't Westende WP, Santos Leonardo T, Wissink P, Zheng C, van Geest G, Visser RG, Krens FA, Smulders MJ, Maliepaard C (2017) Partial preferential chromosome pairing is genotype dependent in tetraploid rose. Plant J. 90:330-343

Abstract

It has long been recognised that polyploid species do not always neatly fall into the categories of auto- or allopolyploid, leading to the term 'segmental allopolyploid' to describe everything in between. The meiotic behaviour of such intermediate species is not fully understood, nor is there consensus as to how to model their inheritance patterns. In this study we used a tetraploid cut rose (Rosa hybrida) population, genotyped using the 68K WagRhSNP array, to construct an ultra-high-density linkage map of all homologous chromosomes using methods previously developed for autotetraploids. Using the predicted bivalent configurations in this population we quantified differences in pairing behaviour among and along homologous chromosomes, leading us to correct our estimates of recombination frequency to account for this behaviour. This resulted in the re-mapping of 25 695 SNP markers across all homologues of the seven rose chromosomes, tailored to the pairing behaviour of each chromosome in each parent. We confirmed the inferred differences in pairing behaviour among chromosomes by examining repulsion-phase linkage estimates, which also carry information about preferential pairing and recombination. Currently, the closest sequenced relative to rose is Fragaria vesca. Aligning the integrated ultra-dense rose map with the strawberry genome sequence provided a detailed picture of the synteny, confirming overall co-linearity but also revealing new genomic rearrangements. Our results suggest that pairing affinities may vary along chromosome arms, which broadens our current understanding of segmental allopolyploidy.
Featuremaps
This publication contains information about 1 maps:
Map Name
Rose-P540xP867-F1-Integrated-2017
Stocks
This publication contains information about 3 stocks:
Stock NameUniquenameType
P540P540cultivar
P540_x_P867-F1P540_x_P867-F1population
P867P867cultivar