Markers associated with soybean rust resistance and methods of use therefor
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.
1. A method for producing a soybean rust (SBR) resistant soybean plant, the method comprising the steps of:
a. isolating one or more nucleic acids from a plurality of soybean plants;
b. genotyping said one or more nucleic acid for the presence of a marker associated with SBR resistance located within a chromosome interval, wherein said chromosome interval is located on soybean LG N and is defined by and comprises map positions 115 cM to 118 cM and wherein said chromosome interval further comprises at least one of a C at position 377 of SEQ ID NO: 7, a T at position 100 of SEQ ID NO: 8, and a G at position 113 of SEQ ID NO: 8;
c. selecting a first soybean plant on the basis of the presence of the marker genotyped in (b);
d. crossing the first soybean plant of (c) with a second soybean plant not having said chromosome interval;
e. collecting seed from the cross of (d); and
f. growing a progeny soybean plant from the seed of (e), wherein said progeny soybean plant comprises in its genome said chromosome interval thereby producing a SBR resistant soybean plant.
2. The method of claim 1 , wherein the marker detected in (c) comprises a C at position 377 of SEQ ID NO: 7, a T at position 100 of SEQ ID NO: 8, and a G at position 113 of SEQ ID NO: 8.
3. The method of claim 1 , wherein the genotyping in (b) comprises amplifying a marker locus or a portion of the marker locus and detecting the resulting amplified marker amplicon.
4. The method of claim 3 , wherein the amplifying comprises: (a) admixing an amplification primer or amplification primer pair with a nucleic acid isolated from the first Glycine max plant or germplasm, wherein the primer or primer pair is complementary or partially complementary to at least a portion of the marker locus, and is capable of initiating DNA polymerization by a DNA polymerase using the soybean nucleic acid as a template; and (b) extending the primer or primer pair in a DNA polymerization reaction comprising a DNA polymerase and a template nucleic acid to generate at least one amplicon.
5. The method of claim 4 , wherein the nucleic acid is selected from DNA and RNA.
6. The method of claim 4 , wherein the amplifying comprises employing a polymerase chain reaction (PCR) or ligase chain reaction (LCR) using a nucleic acid isolated from the first soybean plant or germplasm as a template in the PCR or LCR.
7. The method of claim 6 , wherein the amplifying is a PCR and the primers comprise any one of SEQ ID Nos: 50-61.