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Markers associated with soybean rust resistance and methods of use therefor

a technology of soybean rust and markers, which is applied in the field of markers associated with soybean rust (sbr) resistance, can solve the problems of sbr having the potential to cause significant yield loss in the u.s., significant agricultural losses, and early leaf drop that inhibits pod s

Inactive Publication Date: 2011-07-28
YU JU KYUNG +3
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Benefits of technology

Thus, it is an object of the presently disclosed subject matter to provide methods for conveying SBR resistance into non-resistant soybean germplasm, which object is achieved in whole or in part by the presently disclosed subject matter.

Problems solved by technology

Plant pathogens are known to cause massive damage to important crops, resulting in significant agricultural losses with widespread consequences for both the food supply and other industries that rely on plant materials.
SBR has the potential to cause significant yield losses in the U.S., as indicated by fungicide trials in Georgia and Florida that reported yield losses of 30 to 33% in untreated control plots.
Yield losses up to 80% have been reported due to severe outbreaks of SBR, which result in early leaf drop that inhibits pod set.

Method used

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  • Markers associated with soybean rust resistance and methods of use therefor
  • Markers associated with soybean rust resistance and methods of use therefor
  • Markers associated with soybean rust resistance and methods of use therefor

Examples

Experimental program
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Effect test

example 1

SNP Analysis

There are SSR markers which are associated with soybean rust resistant qualitative and quantitative genes Rpp1, Rpp2, Rpp3, Rpp4, and Rpp5. This SSR information was employed to identify SNP markers that map to the regions of qualitative genes and quantitative trait loci (QTL) regions defined for each of the Rpp1, Rpp2, Rpp3, Rpp4, and Rpp5 genes. The identified SNPs were validated on soybean rust resistant and susceptible lines. Analyses indicated that these SNPs mapped more closely and showed better associations to the Rpp gene than did the SSRs. The information of validated SNPs for soybean rust is new and is used for appropriate breeding programs.

example 2

SNP Genotyping Data

Molecular markers were identified for the Rpp1, Rpp2, Rpp3, Rpp4, and Rpp5 genes, and the resistance gene first identified in the Japanese cultivar, Hyuuga. Hyten et al., 2007 used PI200492 to map Rpp1 to linkage group (LG) G between the SSR markers Sct—187 and Sat—064. Rpp2 was mapped in PI230970 to the region on LG J between Sat—255 and Satt620. Rpp4 was mapped in PI459025 on LG G between SSR Satt288 and RFLP marker A885—1 (Silva et al. 2008, supra). The cultivar Hyuuga (PI506764) was once thought to contain Rpp3 (the resistance gene contained in PIs 462312 and 459025B), but it is now believed that there are 2 separate rust resistance genes located near each other on LG C2, flanked by SSRs Satt460 and Sat—263. Rpp5 was recently identified in several lines (PI200487, PI200526, PI471904, PI200456) by Garcia et al., 2008, and mapped to LG N in a region flanked by the SSRs Sat—275 and Sat—280. The approximate positions of these genes and various markers are depicted...

example 3

Allelic Discrimination Assays

In allelic discrimination assays, a PCR assay included a forward and reverse primer and a specific, fluorescent, dye-labeled probe for each of two alleles for a given SNP. The probes contained different fluorescent reporter dyes (VIC®; Applied Biosystems, Inc., Foster City, Calif., United States of America; and 6-carboxyfluorescein-aminohexyl amidite (FAM), or N-TET-6-Aminohexanol (TET) and FAM) to differentiate the amplification of each allele. A non-fluorescent quencher on each probe suppressed the fluorescence until amplification by PCR. During PCR, each probe annealed specifically to complementary sequences between the forward and reverse primer sites. Taq polymerase then cleaved the probes that were hybridized to each allele. Cleavage separated the reporter dye from the quencher, which resulted in increased fluorescence by the reporter dye.

Thus, the fluorescent signals generated by PCR amplification indicated that one or both alleles were present in...

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Abstract

Methods for conveying soybean rust (SBR) resistance into non-resistant soybean germplasm are provided. In some embodiments, the methods include introgressing SBR resistance into a non-resistant soybean using one or more nucleic acid markers for marker-assisted breeding among soybean lines to be used in a soybean breeding program, wherein the markers are linked to and / or associated with SBR resistance. Also provided are single nucleotide polymorphisms (SNPs) associated with resistance to SBR; soybean plants, seeds, and tissue cultures produced by any of the disclosed methods; seed produced by the disclosed soybean plants; and compositions including amplification primer pairs capable of initiating DNA polymerization by a DNA polymerase on soybean nucleic acid templates to generate soybean marker amplicons.

Description

TECHNICAL FIELDThe presently disclosed subject matter relates to markers associated with soybean rust (SBR) resistance and methods of use therefor. More particularly, the presently disclosed subject matter relates to screening soybean lines for resistance to SBR and for producing soybean lines with improved resistance to SBR, the methods involving genetic marker analysis.BACKGROUNDPlant pathogens are known to cause massive damage to important crops, resulting in significant agricultural losses with widespread consequences for both the food supply and other industries that rely on plant materials. As such, there is a long felt need to reduce the incidence and / or impact of agricultural pests on crop production.Soybean rust (SBR), which is caused by the obligate fungal pathogen Phakopsora pachyrhizi H. Sydow & Sydow, was first reported in Japan in 1902. By 1934, the pathogen was reported in several other Asian countries and in Australia. More recently, P. pachyrhizi infection has been ...

Claims

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Application Information

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Patent Type & Authority Applications(United States)
IPC IPC(8): A01H1/02A01H5/00G01N33/50C07H21/04A01H5/10
CPCA01H5/10C12N15/8282Y10T436/143333C12Q2600/156C12Q1/6895A01H6/542A01H1/045C12Q2600/13
Inventor YU, JU-KYUNGBREITINGER, BECKYBOWERS, GLENNCHAKRABORTY, NANDA
Owner YU JU KYUNG
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