Methods and compositions for producing corn plants with resistance to late wilt

Abstract

The present disclosure is in the field of plant breeding and disease resistance. The disclosure provides methods for breeding corn plants having late wilt (LW) resistance using marker-assisted selection. The disclosure further provides corn germplasm resistant to LW. The disclosure also provides markers associated with LW resistance loci for introgressing these loci into elite germplasm in a breeding program, thus producing novel LW resistant germplasm.

1 - 21 . (canceled) 
     
     
         22 . A method of creating a population of Late Wilt (LW) resistant corn plants or corn seeds, said method comprising:
 a) obtaining a first progeny population of corn plants or corn seeds;   b) genotyping said first progeny population of corn seeds or plants grown therefrom at one or more marker loci linked to, and within 10 centimorgans (cM) of LW resistance quantitative trait locus (QTL) LW_3.02;   c) selecting from said first progeny population one or more corn plants or corn seeds comprising said one or more marker loci linked to said LW resistance QTL LW_3.02 linked to an LW resistance allele selected from the group consisting of: SEQ ID NO: 44, SEQ ID NO: 258, SEQ ID NO: 259, SEQ ID NO: 260, SEQ ID NO: 261, SEQ ID NO: 262, SEQ ID NO: 263, and SEQ ID NO: 264; and   d) crossing said selected one or more corn plants or corn plants grown from said seeds with a second corn plant to produce a second progeny corn seed or plant grown therefrom comprising said one or more of said marker loci linked to said LW resistance allele at said LW resistance QTL LW_3.02.   
     
     
         23 . The method of  claim 22 , further comprising: crossing a first LW resistant corn plant comprising said LW resistance QTL LW_3.02 with a second corn plant of a different genotype to produce said first progeny population of corn plants or corn seeds. 
     
     
         24 . The method of  claim 22 , wherein said LW resistance QTL LW_3.02 provides mild resistance or resistance to infection by  Harpophora maydis.    
     
     
         25 . The method of  claim 22 , wherein said second progeny corn seed or corn plant exhibits reduced dark yellow to brownish macerated pith, brownish-black vascular bundle, or both compared to a corn plant or a corn seed lacking said LW resistance QTL LW_3.02 under a similar growth condition. 
     
     
         26 . The method of  claim 22 , wherein said step b) comprises assaying a single nucleotide polymorphism (SNP) marker. 
     
     
         27 . The method of  claim 22 , wherein said step b) comprises the use of an oligonucleotide probe. 
     
     
         28 . The method of  claim 27 , wherein said oligonucleotide probe is adjacent to a polymorphic nucleotide position in said marker locus. 
     
     
         29 . The method of  claim 22 , wherein said step b) comprises detecting a haplotype. 
     
     
         30 . The method of  claim 22 , wherein said second progeny corn plant or corn seed further comprises a second LW resistance allele linked to an LW resistance QTL selected from LW_1.01, LW_1.02, LW_1.03, LW_1.04, LW_2.01, LW_3.01, LW_3.03, LW_4.01, LW_4.02, LW_5.01, LW_5.02, LW_6.01, LW_7.01, LW_8.01, or LW_10.01. 
     
     
         31 . The method of  claim 30 , wherein said second LW resistance allele is located in a chromosomal interval flanked by:
 any two of marker loci SEQ ID NOs: 1 to 3;   any two of marker loci SEQ ID Nos: 8 to 17, 21 to 23, and 26 to 38,   marker loci SEQ ID NOs: 47 and 48;   marker loci SEQ ID NOs: 41 and 42;   marker loci SEQ ID NOs: 45 and 46;   marker loci SEQ ID NOs: 24 and 25;   marker loci SEQ ID NOs: 49 and 50;   marker loci SEQ ID NOs: 256 and 257; or   any two of marker loci SEQ ID NOs: 4 to 7 and 18 to 20.   
     
     
         32 . The method of  claim 22 , wherein said second progeny plant or corn seed of step d) is homozygous for said one or more marker loci linked to said LW resistance allele. 
     
     
         33 . The method of  claim 22 , wherein said one or more marker loci is selected from the group consisting of:
 SEQ ID NO: 44, comprising an A at position 46;   SEQ ID NO: 258, comprising a C at position 101;   SEQ ID NO: 259, comprising a C at position 73;   SEQ ID NO: 260, comprising a T at position 999;   SEQ ID NO: 261, comprising a C at position 106;   SEQ ID NO: 262, comprising a T at position 101;   SEQ ID NO: 263, comprising a G at position 1946; and   SEQ ID NO: 264, comprising a C at position 101.   
     
     
         34 . A method of creating a population of Late Wilt (LW) resistant corn plants or corn seeds, said method comprising:
 a) genotyping a first population of corn plants or corn seeds at one or more marker loci linked to, and within 10 centimorgans (cM) of any one of marker loci linked to an LW resistance allele selected from the group consisting of SEQ ID NO: 44, SEQ ID NO: 258, SEQ ID NO: 259, SEQ ID NO: 260, SEQ ID NO: 261, SEQ ID NO: 262, SEQ ID NO: 263, and SEQ ID NO: 264, wherein said marker loci is associated with an LW resistance quantitative trait locus (QTL) LW_3.02;   b) selecting from said first population one or more progeny corn plants or corn seeds comprising said one or more marker loci linked to said LW resistance allele; and   c) producing from said selected one or more progeny corn plants or corn seeds via crossing a second progeny population of corn plants grown therefrom or corn seeds comprising said one or more marker loci linked to said LW resistance allele.   
     
     
         35 . The method of  claim 34 , further comprising: crossing a first LW resistant corn plant comprising said LW resistance QTL LW_3.02 with a second corn plant of a different genotype to produce said first population of corn plants or corn seeds. 
     
     
         36 . The method of  claim 34 , further comprising:
 a) crossing said first progeny corn plant with itself or a plant from said second progeny population of corn plants to produce one or more further progeny plants grown therefrom or corn seeds; and   b) selecting a further progeny corn plant or corn seed comprising said one or more marker loci linked to said LW resistance allele.   
     
     
         37 . The method of  claim 34 , wherein said second progeny corn plant or corn seed further comprises a second LW resistance allele at an LW resistance QTL selected from LW_1.01, LW_1.02, LW_1.03, LW_1.04, LW_3.01, LW_3.03, LW_4.01, LW_4.02, LW_5.01, LW_5.02, LW_6.01, LW_7.01, LW_8.01, or LW_10.01. 
     
     
         38 . The method of  claim 37 , wherein said second LW resistance allele is located in a chromosomal interval flanked by:
 any two of marker loci SEQ ID NOs: 1 to 3;   any two of marker loci SEQ ID Nos: 8 to 17, 21 to 23, and 26 to 38,   marker loci SEQ ID NOs: 47 and 48;   marker loci SEQ ID NOs: 41 and 42;   marker loci SEQ ID NOs: 45 and 46;   marker loci SEQ ID NOs: 24 and 25;   marker loci SEQ ID NOs: 49 and 50;   marker loci SEQ ID NOs: 256 and 257; or   any two of marker loci SEQ ID NOs: 4 to 7 and 18 to 20.   
     
     
         39 . The method of  claim 34 , wherein said one or more marker loci is selected from the group consisting of:
 SEQ ID NO: 44, comprising an A at position 46;   SEQ ID NO: 258, comprising a C at position 101;   SEQ ID NO: 259, comprising a C at position 73;   SEQ ID NO: 260, comprising a T at position 999;   SEQ ID NO: 261, comprising a C at position 106;   SEQ ID NO: 262, comprising a T at position 101;   SEQ ID NO: 263, comprising a G at position 1946; and   SEQ ID NO: 264, comprising a C at position 101.