The development of a high-density genetic map significantly improves the quality of reference genome assemblies for rose - Université Claude Bernard Lyon 1 Accéder directement au contenu
Article Dans Une Revue Scientific Reports Année : 2019

The development of a high-density genetic map significantly improves the quality of reference genome assemblies for rose

Jérémy Just
Min Chen
  • Fonction : Auteur
  • PersonId : 755831
  • IdRef : 135605172
Kaixue Tang
  • Fonction : Auteur
  • PersonId : 1067886

Résumé

Roses are important woody plants featuring a set of important traits that cannot be investigated in traditional model plants. Here, we used the restriction-site associated DNA sequencing (RAD-seq) technology to develop a high-density linkage map of the backcross progeny (BC1F1) between Rosa chinensis 'Old Blush' (OB) and R. wichuraiana 'Basyes' Thornless' (BT). We obtained 643.63 million pair-end reads and identified 139,834 polymorphic tags that were distributed uniformly in the rose genome. 2,213 reliable markers were assigned to seven linkage groups (LGs). The length of the genetic map was 1,027.425 cM in total with a mean distance of 0.96 cM per marker locus. This new linkage map allowed anchoring an extra of 1.21/23.14 Mb (12.18/44.52%) of the unassembled OB scaffolds to the seven reference pseudo-chromosomes, thus significantly improved the quality of assembly of OB reference genome. We demonstrate that, while this new linkage map shares high collinearity level with strawberry genome, it also features two chromosomal rearrangements, indicating its usefulness as a resource for understanding the evolutionary scenario among Rosaceae genomes. Together with the newly released genome sequences for OB, this linkage map will facilitate the identification of genetic components underpinning key agricultural and biological traits, hence should greatly advance the studies and breeding efforts of rose.
Fichier principal
Vignette du fichier
s41598-019-42428-y.pdf (1.99 Mo) Télécharger le fichier
Origine Publication financée par une institution
Licence

Dates et versions

hal-02541884 , version 1 (01-07-2024)

Licence

Identifiants

Citer

Shubin Li, Guoqian Yang, Shuhua Yang, Jérémy Just, Huijun Yan, et al.. The development of a high-density genetic map significantly improves the quality of reference genome assemblies for rose. Scientific Reports, 2019, 9 (1), ⟨10.1038/s41598-019-42428-y⟩. ⟨hal-02541884⟩
26 Consultations
0 Téléchargements

Altmetric

Partager

Gmail Mastodon Facebook X LinkedIn More