Details
| Original language | English |
|---|---|
| Article number | e0227428 |
| Journal | PLOS ONE |
| Volume | 15 |
| Issue number | 1 |
| Publication status | Published - 23 Jan 2020 |
Abstract
The Rdr1 gene confers resistance to black spot in roses and belongs to a large TNL gene family, which is organized in two major clusters at the distal end of chromosome 1. We used the recently available chromosome scale assemblies for the R. chinensis ‘Old Blush’ genome, re-sequencing data for nine rose species and genome data for Fragaria, Rubus, Malus and Prunus to identify Rdr1 homologs from different taxa within Rosaceae. Members of the Rdr1 gene family are organized into two major clusters in R. chinensis and at a syntenic location in the Fragaria genome. Phylogenetic analysis indicates that the two clusters existed prior to the split of Rosa and Fragaria and that one cluster has a more recent origin than the other. Genes belonging to cluster 2, such as the functional Rdr1 gene muRdr1A, were subject to a faster evolution than genes from cluster 1. As no Rdr1 homologs were found in syntenic positions for Prunus persica, Malus x domestica and Rubus occidentalis, a translocation of the Rdr1 clusters to the current positions probably happened after the Rubeae split from other groups within the Rosoideae approximately 70–80 million years ago during the Cretaceous period.
Keywords
- Chromosomes, Plant/genetics, Evolution, Molecular, Multigene Family, Phylogeny, Plant Proteins/genetics, RNA-Dependent RNA Polymerase/genetics, Rosaceae/genetics
ASJC Scopus subject areas
- Agricultural and Biological Sciences(all)
- General Agricultural and Biological Sciences
- General
- Biochemistry, Genetics and Molecular Biology(all)
- General Biochemistry,Genetics and Molecular Biology
Cite this
- Standard
- Harvard
- Apa
- Vancouver
- BibTeX
- RIS
In: PLOS ONE, Vol. 15, No. 1, e0227428, 23.01.2020.
Research output: Contribution to journal › Article › Research › peer review
}
TY - JOUR
T1 - Analysis of the Rdr1 gene family in different Rosaceae genomes reveals an origin of an Rgene cluster after the split of Rubeae within the Rosoideae subfamily
AU - Menz, Ina
AU - Lakhwani, Deepika
AU - Clotault, Jérémy
AU - Linde, Marcus
AU - Foucher, Fabrice
AU - Debener, Thomas
N1 - Funding information: The authors received no specific funding for this work. The publication of this article was funded by the Open Access fund of Leibniz Universität Hannover.
PY - 2020/1/23
Y1 - 2020/1/23
N2 - The Rdr1 gene confers resistance to black spot in roses and belongs to a large TNL gene family, which is organized in two major clusters at the distal end of chromosome 1. We used the recently available chromosome scale assemblies for the R. chinensis ‘Old Blush’ genome, re-sequencing data for nine rose species and genome data for Fragaria, Rubus, Malus and Prunus to identify Rdr1 homologs from different taxa within Rosaceae. Members of the Rdr1 gene family are organized into two major clusters in R. chinensis and at a syntenic location in the Fragaria genome. Phylogenetic analysis indicates that the two clusters existed prior to the split of Rosa and Fragaria and that one cluster has a more recent origin than the other. Genes belonging to cluster 2, such as the functional Rdr1 gene muRdr1A, were subject to a faster evolution than genes from cluster 1. As no Rdr1 homologs were found in syntenic positions for Prunus persica, Malus x domestica and Rubus occidentalis, a translocation of the Rdr1 clusters to the current positions probably happened after the Rubeae split from other groups within the Rosoideae approximately 70–80 million years ago during the Cretaceous period.
AB - The Rdr1 gene confers resistance to black spot in roses and belongs to a large TNL gene family, which is organized in two major clusters at the distal end of chromosome 1. We used the recently available chromosome scale assemblies for the R. chinensis ‘Old Blush’ genome, re-sequencing data for nine rose species and genome data for Fragaria, Rubus, Malus and Prunus to identify Rdr1 homologs from different taxa within Rosaceae. Members of the Rdr1 gene family are organized into two major clusters in R. chinensis and at a syntenic location in the Fragaria genome. Phylogenetic analysis indicates that the two clusters existed prior to the split of Rosa and Fragaria and that one cluster has a more recent origin than the other. Genes belonging to cluster 2, such as the functional Rdr1 gene muRdr1A, were subject to a faster evolution than genes from cluster 1. As no Rdr1 homologs were found in syntenic positions for Prunus persica, Malus x domestica and Rubus occidentalis, a translocation of the Rdr1 clusters to the current positions probably happened after the Rubeae split from other groups within the Rosoideae approximately 70–80 million years ago during the Cretaceous period.
KW - Chromosomes, Plant/genetics
KW - Evolution, Molecular
KW - Multigene Family
KW - Phylogeny
KW - Plant Proteins/genetics
KW - RNA-Dependent RNA Polymerase/genetics
KW - Rosaceae/genetics
UR - http://www.scopus.com/inward/record.url?scp=85078097443&partnerID=8YFLogxK
U2 - 10.1371/journal.pone.0227428
DO - 10.1371/journal.pone.0227428
M3 - Article
C2 - 31971947
AN - SCOPUS:85078097443
VL - 15
JO - PLOS ONE
JF - PLOS ONE
SN - 1932-6203
IS - 1
M1 - e0227428
ER -