SCA7 gene and method of use

• US 6,280,938 B1
• Filed: 08/18/1998
• Issued: 08/28/2001
• Est. Priority Date: 08/19/1997
• Status: Expired due to Term

• Current Assignee: Regents of the University Minnesota
• Original Assignee: Regents of The University of Minnesota (University of Minnesota)
• Inventors: Koob, Michael D., Benzow, Kellie A., Ranum, Laura P. W., Moseley-Alldredge, Melinda L.
• Primary Examiner(s): Schwartzman, Robert A.
• Assistant Examiner(s): WANG, ANDREW J
• Application Number:
  US09/135,994
• Time in Patent Office: 1,106 Days
• Field of Search: 435/6, 435/91.1, 536/23.1, 536/24.31, 536/24.33, 514/44
• US Class Current: 435/6.13
• CPC Class Codes: C12Q 1/6883 for diseases caused by alterations of genetic material
• CPC Class Codes: C12Q 2600/156 Polymorphic or mutational markers

Abstract

The present invention provides diagnostic methods of identifying individuals at risk and not at risk of developing spinocerebellar ataxia type 7. The present invention also provides for methods for identifying expanded repeats, and the DNA flanking the expanded repeats, from genomic DNA.

Claims

1. A method for identifying human individuals at risk for developing spinocerebellar ataxia type 7 comprising:

analyzing a CAG repeat region of an isolated spinocerebellar ataxia type 7 gene to detect CAG repeats in the CAG repeat region, wherein the isolated spinocerebellar ataxia type 7 gene comprises the nucleotide sequence of SEQ ID NO;

9 or the nucleotide sequence of SEQ ID NO;

10, and wherein human individuals at risk for developing spinocerebellar ataxia type 7 have at least about 30 CAG repeats in the CAG repeat region.

2. The method of claim 1 wherein individuals at risk for developing spinocerebellar ataxia type 7 have at least about 37 CAG repeats in the CAG repeat region.

3. The method of claim 1 wherein individuals at risk for developing spinocerebellar ataxia type 7 have at least about 38 CAG repeats in the CAG repeat region.

4. The method of claim 1 wherein the analyzing comprises:

amplifying the CAG repeat region located within the spinocerebellar ataxia type 7 gene to form amplified DNA fragments; and

detecting the amplified DNA fragments containing the CAG repeat region.

5. A method for detecting the presence of a DNA molecule containing a CAG repeat region of a SCA7 gene comprising:

(a) digesting genomic DNA with a restriction endonuclease to obtain DNA fragments;

(b) probing said DNA fragments under hybridizing conditions with a detectably labeled gene probe, which hybridizes to a nucleic acid molecule containing a CAG repeat region of an isolated SCA7 gene having at least about 11 nucleotides, wherein the probe is capable of hybridizing to a region of DNA flanking the CAG repeat;

(c) detecting probe DNA which has hybridized to said DNA fragments; and

(d) analyzing the DNA fragments for detecting the presence of a DNA containing a CAG repeat region characteristic of normal or affected forms of the SCA7 gene;

wherein analyzing comprises analyzing for a (CAG)n region wherein n is less than about 19.

6. The method of claim 5 wherein analyzing comprises analyzing for a (CAG)_n region wherein n is less than about 15.

7. The method of claim 5 wherein analyzing comprises analyzing for a (CAG)_n region wherein n is less than about 5.

8. The method of claim 5, wherein the probe is further capable of hybridizing to the DNA sequence encoding the CAG repeat.

9. A method for determining whether an individual is not at risk for developing spinocerebellar ataxia type 7 comprising:

analyzing a CAG repeat region of a spinocerebellar ataxia type 7 gene wherein individuals who are not at risk for developing spinocerebellar ataxia type 7 have less then 19 CAG repeats in the CAG repeat region.

10. The method of claim 9 wherein individuals who are not at risk for developing spinocerebellar ataxia type 7 have less than about 15 CAG repeats in the CAG repeat region.

11. The method of claim 9 wherein individuals who are not at risk for developing spinocerebellar ataxia type 7 have less than about 5 CAG repeats in the CAG repeat region.

12. An oligonucleotide comprising at least 15 nucleotides from SEQ ID NO:

9.

13. An oligonucleotide comprising at least 15 nucleotides from SEQ ID NO:

10.

14. A method for identifying individuals at risk for developing spinocerebellar ataxia type 7 comprising:

analyzing a CAG repeat region of a spinocerebellar ataxia type 7 gene to detect CAG repeats in the CAG repeat region, wherein individuals at risk for developing spinocerebellar ataxia type 7 have at least about 30 CAG repeats in the CAG repeat region, wherein analyzing comprises;

performing a polymerase chain reaction with oligonucleotide primers capable of amplifying the CAG repeat region located within the spinocerebellar ataxia type 7 gene; and

detecting amplified DNA fragments containing the CAG repeat region, wherein the oligonucleotide primers are selected from the region of SEQ ID NO;

9, that region corresponding to CGACTCTTTCCCCCTTTTTTTTGTTACATTGTACCAGGAGCGGAAA GAATGTCGGAGCGGGCCGCGGATGACGTCAGGGGGGAGCCGCG CCGCGCGGCGGCGGCGGCGGGCGGAGCAGCGGCCGCCCGG and from the region of SEQ ID NO;

10, that region corresponding to CCGCCGCCTCCGCAGCCCCAGCCGCAGCAGCACCCGCCACCGCC GCCACGGCGCACACGGCCGGAGGACGGCGGGCCCGGCGCCGCCT CCACCTCGGCCGCCGCAATGGCGACGGTCGGGGAGCGCAGGCCT CTGCCCAGTCCTGAAGTGATGCTGGGACAGTCGTGGAATCTGTG GGTTGAGGCTTCCAAA, both sequences from SEQ ID NO;

1.

15. A method for identifying individuals at risk for developing spinocerebellar ataxia type 7 comprising:

analyzing a CAG repeat region of a spinocerebellar ataxia type 7 gene to detect CAG repeats in the CAG repeat region, wherein individuals at risk for developing spinocerebellar ataxia type 7 have at least about 30 CAG repeats in the CAG repeat region, wherein analyzing comprises;

performing a polymerase chain reaction with oligonucleotide primers capable of amplifying the CAG repeat region located within the spinocerebellar ataxia type 7 gene; and

detecting amplified DNA fragments containing the CAG repeat region, wherein the oligonucleotide primers are SEQ ID NO;

5 and SEQ ID NO;

6.

16. A method for identifying individuals at risk for developing spinocerebellar ataxia type 7 comprising:

analyzing a CAG repeat region of a spinocerebellar ataxia type 7 gene to detect CAG repeats in the CAG repeat region, wherein individuals at risk for developing spinocerebellar ataxia type 7 have at least about 30 CAG repeats in the CAG repeat region, wherein analyzing comprises;

performing a polymerase chain reaction with oligonucleotide primers capable of amplifying the CAG repeat region located within the spinocerebellar ataxia type 7 gene; and

detecting amplified DNA fragments containing the CAG repeat region, wherein the oligonucleotide primers are selected from the region of SEQ ID NO;

13, that region corresponding to nucleotides from 1 to 1002, and from the region of SEQ ID NO;

14, that region corresponding to nucleotides from 1033 to 1864, both sequences from SEQ ID NO;

2.

17. A kit for detecting whether or not an individual is at risk for developing spinocerebellar ataxia type 7 comprising oligonucleotide primers selected from the region of SEQ ID NO:

9, that region corresponding to CGACTCTTTCCCCCTTTTTTTTGTTACATTGTACCAGGAGCGGAAAGAATGT CGGAGCGGGCCGCGGATGACGTCAGGGGGGAGCCGCGCCGCGCGGCGGCG GCGGCGGGCGGAGCAGCGGCCGCCCGG and from the region of SEQ ID NO;

10, that region corresponding to CCGCCGCCTCCGCAGCCCCAGCCGCAGCAGCACCCGCCACCGCCGCCACGG CGCACACGGCCGGAGGACGGCGGGCCCGGCGCCGCCTCCACCTCGGCCGC CGCAATGGCGACGGTCGGGGAGCGCAGGCCTCTGCCCAGTCCTGAAGTGAT GCTGGGACAGTCGTGGAATCTGTGGGTTGAGGCTTCCAAA, both sequences from SEQ ID NO;

1.

18. A method for detecting the presence of a DNA molecule containing a CAG repeat region of a SCA7 gene comprising:

(a) digesting genomic DNA with a restriction endonuclease to obtain DNA fragments;

(b) probing said DNA fragments under hybridizing conditions with a detectably labeled gene probe, which hybridizes to a nucleic acid molecule containing a CAG repeat region of an isolated SCA7 gene having at least about 11 nucleotides, wherein the DNA probe is selected from the region of SEQ ID NO;

9, that region corresponding to CGACTCTTTCCCCCTTTTTTTTGTTACATTGTACCAGGAGCGGAA AGAATGTCGGAGCGGGCCGCGGATGACGTCAGGGGGGAGCCGC GCCGCGCGGCGGCGGCGGCGGGCGGAGCAGCGGCCGCCCGG or from the region of SEQ ID NO;

10, that region corresponding to CCGCCGCCTCCGCAGCCCCAGCCGCAGCAGCACCCGCCACCGC CGCCACGGCGCACACGGCCGGAGGACGGCGGGCCCGGCGCCGC CTCCACCTCGGCCGCCGCAATGGCGACGGTCGGGGAGCGCAGG CCTCTGCCCAGTCCTGAAGTGATGCTGGGACAGTCGTGGAATCT GTGGGTTGAGGCTTCCAAA, both sequences from SEQ ID NO;

1;

(c) detecting probe DNA which has hybridized to said DNA fragments; and

(d) analyzing the DNA fragments for a CAG repeat region characteristic of the normal or affected forms of the SCA7 gene.