Abstract
Bean rust, caused by Uromyces appendiculatus, severely limits the productivity of common bean (Phaseolus vulgaris L.), an essential source of protein and micronutrients in human diets worldwide. Durable disease management relies primarily on host resistance; however, the molecular architecture of several key rust resistance loci remains unresolved. We sought to characterize the genomic structure of the Ur-3 and Ur-7 loci and develop associated molecular markers. An integrative genomic framework combining high-resolution long-read genome assemblies, recombinant inbred line populations, and single-nucleotide polymorphism-based and k-mer-based genome-wide association studies was used to fine-map both loci. Extensive structural variation was revealed for the Ur-3 locus at the distal end of chromosome Pv11, whereas Ur-7 localized to a low-recombination pericentromeric region of the same chromosome. A coiled-coil nucleotide-binding leucine-rich repeat gene embedded within an NB-ARC-rich cluster was identified as the most likely candidate underlying Ur-3 (Pv11: 50,205,868-50,209,452 bases; USDA Rattler reference). In contrast, the refined Ur-7 interval contained a toll/interleukin-1 receptor NLR gene as the leading candidate (Pv11: 36,604,755-36,611,252; UI 111 reference). Gene-based markers developed from these candidates showed complete correspondence with rust phenotypes. Marker-assisted selection for Ur-3 and Ur-7 will contribute to the development of durable rust resistance against the highly variable bean rust pathogen U. appendiculatus.
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Claims 6
Claim · model-written summary
Extensive structural variation was found at the Ur-3 locus at the distal end of common bean chromosome Pv11.
- Taxon
- common bean
Phaseolus vulgarist0 - Gene
- Ur-3 locuse0
- Outcome
- structural variatione0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“common bean”
e0“Extensive structural variation was revealed for the Ur-3 locus at the distal end of chromosome Pv11”
Claim · model-written summary
The Ur-7 locus localized to a low-recombination pericentromeric region of chromosome Pv11.
- Taxon
- common beanPhaseolus vulgarist0
- Gene
- Ur-7e0
- Outcome
- localized to a low-recombination pericentromeric regione0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“common bean”
e0“Ur-7 localized to a low-recombination pericentromeric region of the same chromosome”
Claim · model-written summary
A coiled-coil nucleotide-binding leucine-rich repeat gene within an NB-ARC-rich cluster was identified as the most likely candidate underlying Ur-3.
- Taxon
- common beanPhaseolus vulgarist0
- Gene
- coiled-coil nucleotide-binding leucine-rich repeat genee0
- Outcome
- most likely candidate underlying Ur-3e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“common bean”
e0“A coiled-coil nucleotide-binding leucine-rich repeat gene embedded within an NB-ARC-rich cluster was identified as the most likely candidate underlying Ur-3”
Claim · model-written summary
The refined Ur-7 interval contained a toll/interleukin-1 receptor NLR gene as the leading candidate.
- Taxon
- common beanPhaseolus vulgarist0
- Gene
- toll/interleukin-1 receptor NLR genee0
- Outcome
- leading candidatee0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“common bean”
e0“the refined Ur-7 interval contained a toll/interleukin-1 receptor NLR gene as the leading candidate”
Claim · model-written summary
Gene-based markers developed from the Ur-3 and Ur-7 candidates showed complete correspondence with rust phenotypes.
Verbatim
e0“Gene-based markers developed from these candidates showed complete correspondence with rust phenotypes”
Claim · model-written summary
The authors conclude that marker-assisted selection for Ur-3 and Ur-7 will contribute to durable rust resistance against Uromyces appendiculatus.
- Taxon
- common beanPhaseolus vulgarist0
- Interactor
- U. appendiculatus
.jpg?width=60)
Uromyces appendiculatuse0pathogen - Gene
- Ur-3 and Ur-7e0
- Outcome
- durable rust resistancee0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
.jpg?width=500)
Verbatim
t0“common bean”
e0“Marker-assisted selection for Ur-3 and Ur-7 will contribute to the development of durable rust resistance against the highly variable bean rust pathogen U. appendiculatus”