IP Library › Granted Patent US 12,392,000
Granted Patent B2
US 12,392,000 · App. 17/538,145 · Granted Aug 19, 2025

Methods and compositions for producing brachytic corn plants

Inventors: Ty Jason Barten (Ankeny, IA); Alana N. Brown (St. Louis, MO); Edward James Cargill (Chesterfield, MO); Romain Fouquet (Saint-Palais, FR); Jose Rafael Gomez (Zapopan, MX); Matthew Sean Marengo (Cary, NC); Manuel Oyervides Garcia (El Palomar, MX); Jeanette M. Peevers (Chesterfield, MO); Dennis Hung Yang (Ballwin, MO)
Assignee: Monsanto Technology LLC
C12Q1/6895A01H1/045A01H5/10A01H6/4684C12Q2600/13C12Q2600/156C12Q2600/172
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Quick Facts
Patent No.
US 12,392,000
App. No.
17/538,145
Granted
Aug 19, 2025
Kind
B2
Abstract

The present disclosure is in the field of plant breeding. The disclosure provides methods for breeding corn plants having a brachytic trait using marker-assisted selection. The disclosure further provides brachytic germplasm, markers associated with a brachytic trait for introgressing the trait into elite germplasm in a breeding program. This disclosure also provides brachytic or dwarf elite corn varieties having yield equal to or higher than conventional non-brachytic corn varieties.

Claims (105)

1. A method for selecting a corn plant or seed, said method comprising:

a. isolating a nucleic acid from a corn plant or seed;

b. analyzing said nucleic acid to detect a polymorphic marker associated with a brachytic haplotype, said brachytic haplotype comprising one or more brachytic alleles of markers, wherein said markers are selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95;

c. selecting a corn plant or seed comprising said brachytic haplotype;

and wherein:

said brachytic allele at SEQ ID NO:5 comprises a 3 nucleotide deletion beginning at position 70,

said brachytic allele at SEQ ID NO:6 comprises a G nucleotide at position 70,

said brachytic allele at SEQ ID NO:8 comprises a GTCCGT nucleotide insertion beginning at position 72,

said brachytic allele at SEQ ID NO:11 comprises an A nucleotide at position 62,

said brachytic allele at SEQ ID NO:12 comprises a T nucleotide at position 70,

said brachytic allele at SEQ ID NO:13 comprises a T nucleotide at position 72,

said brachytic allele at SEQ ID NO:14 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:15 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:16 comprises an A nucleotide at position 72,

said brachytic allele at SEQ ID NO:17 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:18 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:19 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:20 comprises a T nucleotide at position 72,

said brachytic allele at SEQ ID NO:21 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:22 comprises a CTCG nucleotide insertion beginning at position 72,

said brachytic allele at SEQ ID NO:86 comprises a 6 nucleotide deletion beginning at position 72,

said brachytic allele at SEQ ID NO:87 comprises a TG nucleotide insertion beginning at position 76,

said brachytic allele at SEQ ID NO:88 comprises a GGTA nucleotide insertion beginning at position 66,

said brachytic allele at SEQ ID NO:89 comprises a 6 nucleotide deletion beginning at position 71,

said brachytic allele at SEQ ID NO:90 comprises a T nucleotide at position 77,

said brachytic allele at SEQ ID NO:91 comprises a TT nucleotide insertion beginning at position 60,

said brachytic allele at SEQ ID NO:92 comprises a multi-kilobase insertion beginning at position 63,

said brachytic allele at SEQ ID NO:93 comprises an 85 nucleotide deletion beginning at position 51,

said brachytic allele at SEQ ID NO:94 comprises an 18 nucleotide insertion beginning at position 52, or

said brachytic allele at SEQ ID NO:95 comprises a 579 nucleotide insertion beginning at position 66.

2. The method of claim 1 , wherein said polymorphic marker is within 20 cM of said brachytic haplotype.

3. The method of claim 1 , wherein said polymorphic marker is selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, 86 to 95.

4. The method of claim 1 , wherein said multi-kilobase insertion of said brachytic allele at SEQ ID NO:92 comprises SEQ ID NO:111.

5. The method of claim 1 , wherein said 579 nucleotide insertion of said brachytic allele at SEQ ID NO:95 comprises SEQ ID NO:110.

6. A method for selecting a corn plant or seed, said method comprising:

a. genotyping a population of corn plants or seeds at a polymorphic locus, wherein a brachytic allele of the polymorphic locus is associated with a marker selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95; and

b. selecting a corn plant or seed comprising the brachytic allele at said polymorphic locus.

7. The method of claim 6 , wherein:

said brachytic allele at SEQ ID NO:5 comprises a 3 nucleotide deletion beginning at position 70,

said brachytic allele at SEQ ID NO:6 comprises a G nucleotide at position 70,

said brachytic allele at SEQ ID NO:8 comprises a GTCCGT nucleotide insertion beginning at position 72,

said brachytic allele at SEQ ID NO:11 comprises an A nucleotide at position 62,

said brachytic allele at SEQ ID NO:12 comprises a T nucleotide at position 70,

said brachytic allele at SEQ ID NO:13 comprises a T nucleotide at position 72,

said brachytic allele at SEQ ID NO:14 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:15 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:16 comprises an A nucleotide at position 72,

said brachytic allele at SEQ ID NO:17 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:18 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:19 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:20 comprises a T nucleotide at position 72,

said brachytic allele at SEQ ID NO:21 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:22 comprises a CTCG nucleotide insertion beginning at position 72,

said brachytic allele at SEQ ID NO:86 comprises a 6 nucleotide deletion beginning at position 72,

said brachytic allele at SEQ ID NO:87 comprises a TG nucleotide insertion beginning at position 76,

said brachytic allele at SEQ ID NO:88 comprises a GGTA nucleotide insertion beginning at position 66,

said brachytic allele at SEQ ID NO:89 comprises a 6 nucleotide deletion beginning at position 71,

said brachytic allele at SEQ ID NO:90 comprises a T nucleotide at position 77,

said brachytic allele at SEQ ID NO:91 comprises a TT nucleotide insertion beginning at position 60,

said brachytic allele at SEQ ID NO:92 comprises a multi-kilobase insertion beginning at position 63,

said brachytic allele at SEQ ID NO:93 comprises an 85 nucleotide deletion beginning at position 51,

said brachytic allele at SEQ ID NO:94 comprises an 18 nucleotide insertion beginning at position 52, or

said brachytic allele at SEQ ID NO:95 comprises a 579 nucleotide insertion beginning at position 66.

8. The method of claim 6 , wherein said polymorphic locus is within 20 cM of said marker selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95.

9. The method of claim 6 , wherein said polymorphic locus is selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95.

10. The method of claim 7 , wherein said multi-kilobase insertion of said brachytic allele at SEQ ID NO:92 comprises SEQ ID NO:111.

11. The method of claim 7 , wherein said 579 nucleotide insertion of said brachytic allele at SEQ ID NO:95 comprises SEQ ID NO:110.

12. A method for introgressing a brachytic trait into a corn variety, said method comprising:

a. crossing a first corn variety comprising a brachytic trait with a second corn variety not comprising said brachytic trait to produce one or more progeny corn plants;

b. analyzing said one or more progeny corn plants to detect a brachytic allele, wherein said brachytic allele is linked to a marker selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95; and

c. selecting a progeny corn plant comprising said brachytic allele.

13. The method of claim 12 , wherein:

said brachytic allele at SEQ ID NO:5 comprises a 3 nucleotide deletion beginning at position 70,

said brachytic allele at SEQ ID NO:6 comprises a G nucleotide at position 70,

said brachytic allele at SEQ ID NO:8 comprises a GTCCGT nucleotide insertion beginning at position 72,

said brachytic allele at SEQ ID NO:11 comprises an A nucleotide at position 62,

said brachytic allele at SEQ ID NO:12 comprises a T nucleotide at position 70,

said brachytic allele at SEQ ID NO:13 comprises a T nucleotide at position 72,

said brachytic allele at SEQ ID NO:14 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:15 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:16 comprises an A nucleotide at position 72,

said brachytic allele at SEQ ID NO:17 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:18 comprises a G nucleotide at position 72,

said brachytic allele at SEQ ID NO:19 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:20 comprises a T nucleotide at position 72,

said brachytic allele at SEQ ID NO:21 comprises a C nucleotide at position 72,

said brachytic allele at SEQ ID NO:22 comprises a CTCG nucleotide insertion beginning at position 72,

said brachytic allele at SEQ ID NO:86 comprises a 6 nucleotide deletion beginning at position 72,

said brachytic allele at SEQ ID NO:87 comprises a TG nucleotide insertion beginning at position 76,

said brachytic allele at SEQ ID NO:88 comprises a GGTA nucleotide insertion beginning at position 66,

said brachytic allele at SEQ ID NO:89 comprises a 6 nucleotide deletion beginning at position 71,

said brachytic allele at SEQ ID NO:90 comprises a T nucleotide at position 77,

said brachytic allele at SEQ ID NO:91 comprises a TT nucleotide insertion beginning at position 60,

said brachytic allele at SEQ ID NO:92 comprises a multi-kilobase insertion beginning at position 63,

said brachytic allele at SEQ ID NO:93 comprises an 85 nucleotide deletion beginning at position 51,

said brachytic allele at SEQ ID NO:94 comprises an 18 nucleotide insertion beginning at position 52, or

said brachytic allele at SEQ ID NO:95 comprises a 579 nucleotide insertion beginning at position 66.

14. The method of claim 12 , wherein said brachytic allele is within 20 cM of said marker selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95.

15. The method of claim 12 , wherein said brachytic allele is at said marker selected from the group consisting of SEQ ID NOs: 5, 6, 8, 11 to 22, and 86 to 95.

16. The method of claim 12 , further comprising:

d. crossing said selected progeny plant with itself or with said second corn plant to produce one or more further progeny corn plants; and

e. selecting a further progeny plant comprising said brachytic allele.

17. The method of claim 16 , wherein step (e) of selecting comprises marker-assisted selection.

18. The method of claim 13 , wherein said multi-kilobase insertion of said brachytic allele at SEQ ID NO:92 comprises SEQ ID NO:111.

19. The method of claim 13 , wherein said 579 nucleotide insertion of said brachytic allele at SEQ ID NO:95 comprises SEQ ID NO:110.

Assignments (2)
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Oct 27, 2022
From: PEEVERS, JEANETTE M.; BROWN, ALANA N.
To: MONSANTO TECHNOLOGY LLC
Reel/Frame 061562/0756 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Oct 27, 2022
From: CARGILL, EDWARD JAMES; YANG, DENNIS HUNG; BARTEN, TY JASON; MARENGO, MATTHEW SEAN; FOUQUET, ROMAIN; GARCIA, MANUEL OYERVIDES; GOMEZ, JOSE RAFAEL
To: MONSANTO TECHNOLOGY LLC
Reel/Frame 061562/0823 →
Continuity (5)
Division 16589702 · Oct 1, 2019
Continuation 15139733 · Apr 27, 2016
Provisional Application 62180430 · Jun 16, 2015
Provisional Application 62153831 · Apr 28, 2015
Related Publication 20220162713A1 · May 26, 2022
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