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

文献类型： 外文期刊

作者： Li, Shubin 1 ; Yang, Guoqian 2 ; Yang, Shuhua 3 ; Just, Jeremy 4 ; Yan, Huijun 1 ; Zhou, Ningning 1 ; Jian, Hongying 1 ;

作者机构： 1.Yunnan Acad Agr Sci, Flower Res Inst, Natl Engn Res Ctr Ornamental Hort, Yunnan Flower Breeding Key Lab, Kunming 650231, Yunnan, Peoples R China

2.Chinese Acad Sci, Kunming Inst Bot, CAS Key Lab Plant Divers & Biogeog East Asia, Kunming 650201, Yunnan, Peoples R China

3.Chinese Acad Agr Sci, Inst Vegetables & Flowers, Beijing 100081, Peoples R China

4.UCB Lyon 1, Univ Lyon, INRA, CNRS,Lab Reprod & Dev Plantes,ENS Lyon, F-69364 Lyon, France

5.Huazhong Agr Univ, Coll Hort & Forestry Sci, Key Lab Hort Plant Biol, Minist Educ, Wuhan 430070, Hubei, Peoples R China

6.Univ Chinese Acad Sci, Kunming Coll Life Sci, Kunming 650201, Yunnan, Peoples R China

7.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming 650201, Yunnan, Peoples R China

期刊名称：SCIENTIFIC REPORTS （ 影响因子：4.379； 五年影响因子：5.133 ）

ISSN： 2045-2322

年卷期： 2019 年 9 卷

页码：

收录情况： SCI

摘要： 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.

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