- Document Number:
20070224623
- Appl. No:
11/709307
- Application Filed:
February 21, 2007
- نبذة مختصرة :
Particular aspects provide an inexpensive QTL mapping approach for genome-wide scans of QTL linked markers and for narrowed locations of QTL regions, which may comprise integration of the amplified fragment length polymorphism (AFLP) with DNA pooling and selective genotyping and comparative bioinformatics tools. AFLP simultaneously screens high numbers of loci for polymorphisms and detects many more polymorphic DNA markers than any other PCR based detection systems, and provides for identification of “responsible mutations” for a QTL. Aspects of the present invention also provide novel compositions and methods based on novel DOPEY2 and/or KIAA1462 single nucleotide polymorphisms such as AAFC03071397.1:g.12881G>C, g.12925G>A, g.12951T>C, g.13013A>G, g.13125G>A and g.13173C>T in the DOPEY2 gene and AAFC02113318.1:g.1367G>A and g.1372G>A in the KIAA1462 gene, which may provide novel markers for beef marbling and subcutaneous fat. Additional aspects provide for novel methods which may comprise marker-assisted selection to improve beef marbling and subcutaneous fat in cattle.
- Inventors:
Jiang, Zhihua (Pullman, WA, US); Michal, Jennifer J. (Albion, WA, US); Xiao, Qianjun (Madison, WI, US); Wibowo, Tito A. (Pullman, WA, US)
- Claim:
1. A method for identifying an animal having desirable beef marbling and/or subcutaneous fat, as compared to the general population of animals of that species, comprising determining the presence of one or more single nucleotide polymorphisms in a DOPEY2 and/or KIAA1462 gene of the animal, wherein the single nucleotide polymorphism is indicative of beef marbling, subcutaneous fat, or a combination thereof.
- Claim:
2. The method of claim 1 further comprising sub-grouping animals according to genotype, wherein the animals of each sub-group have a similar polymorphism in the DOPEY2 and/or KIAA1462 gene, said method comprising: (a) determining the genotype of each animal to be sub-grouped by determining the presence of a single nucleotide polymorphism in the DOPEY2 and/or KIAA1462 gene, and (b) segregating individual animals into sub-groups depending on whether the animals have, or do not have, the single nucleotide polymorphisms in the DOPEY2 and/or KIAA1462 gene.
- Claim:
3. The method of claim 1, wherein the single nucleotide polymorphism(s) is selected from the group consisting of AAFC03071397.1:g.12881G>C, g.12925G>A, g.12951T>C, g.13013A>G, g.13125G>A and g.13173C>T in the DOPEY2 gene and AAFC02113318.1:g.1367G>A and g.1372G>A in the KIAA1462 gene.
- Claim:
4. The method of claim 1 wherein the animal is a bovine.
- Claim:
5. The method of claim 1 wherein the DOPEY2 and/or KIAA1462 gene is a bovine DOPEY2 and/or KIAA1462 gene.
- Claim:
6. An interactive computer-assisted method for tracking the rearing of livestock bovines comprising, using a computer system comprising a programmed computer comprising a processor, a data storage system, an input device, an output device, and an interactive device, the steps of: (a) inputting into the programmed computer through the input device data comprising a breeding history of a bovine or herd of bovines and a genotype of a bovine; correlating a physical characteristic predicted by the genotype using the processor and the data storage system, (b) inputting into the programmed computer through the input device data comprising a veterinary history of a bovine or herd of bovines, (c) correlating the veterinary data with the breeding history of the bovine or herd of bovines using the processor and the data storage system, and (d) outputting to the output device the breeding history, the veterinary history of the bovine or herd of bovines and the physical characteristic correlated to the genotype for a bovine or population of bovines, wherein the physical characteristic is desirable beef marbling, subcutaneous fat, or a combination thereof, as compared to the general population of bovines, and the genotype is a single nucleotide polymorphism in a DOPEY2 and/or KIAA1462 gene.
- Claim:
7. The method according to claim 6, wherein the computer system is an interactive system whereby modifications to the output of the computer-assisted method may be correlated according to the input from the interactive device or wherein the method further comprises the steps of inputting into the programmed computer diagnostic data related to the health of the cow or herd of cows; and correlating the diagnostic data to the breeding and veterinary histories of the cow or herd of cows or wherein the veterinary data comprises a vaccination record for a cow or herd of cows or wherein the health data is selected from the group consisting of husbandry condition data, herd history, and food safety data or wherein the method further comprises at least one further step selected from the group consisting of inputting into the programmed computer data related to the quality control of the bovine or herd of bovines and correlating the quality control data to the breeding and veterinary histories of the cow or herd of cows, inputting into the programmed computer performance parameters of the cow or herd of cows; and correlating the required performance parameters of the bovine or herd of bovines to a specific performance requirement of a customer, correlating the vaccine data to the performance parameters of the bovine or herd of bovines, correlating herd to the performance parameters of the bovine or herd of bovines, correlating the food safety data to the performance parameters of the bovine or herd of bovines, correlating the husbandry condition data to the performance parameters of the bovine or herd of bovines, inputting into the programmed computer data related to the nutritional data of the bovine or herd of bovines; and correlating the nutritional data to the performance parameters of the bovine or herd of bovines, and alerting to undesirable changes in the performance parameters of the bovine or herd of bovines or wherein the single nucleotide polymorphism(s) of interest is selected from the group consisting of AAFC03071397.1:g.12881G>C, g.12925G>A, g.12951T>C, g.13013A>G, g.13125G>A and g.13173C>T in the DOPEY2 gene and AAFC02113318.1:g.1367G>A and g.1372G>A in the KIAA1462 gene.
- Claim:
8. A method of transmitting data comprising transmission of information from such methods according to claim 6, selected from the group consisting of telecommunication, telephone, video conference, mass communication, a presentation, a computer presentation, a POWERPOINT™ presentation, internet, email, and documentary communication.
- Claim:
9. An interactive computer system according to claim 6 for tracking breeding and welfare histories of cows comprising breeding and veterinarian data corresponding to a bovine or herd of bovines, and wherein the computer system is configured to allow the operator thereof to exchange data with the device or a remote database.
- Claim:
10. The interactive computer system according to claim 9, wherein the input and output devices are a personal digital assistant or a pocket computer.
- Claim:
11. A method of doing business for tracking breeding and welfare histories of livestock comprising breeding and veterinarian data corresponding to one or more livestock animals comprising providing to a user the computer system of claim 9.
- Claim:
12. The method of doing business according to claim 11, further comprising providing the animal owner or customer with sample collection equipment, such as swabs and tags useful for collecting samples from which genetic data may be obtained, and wherein the tags are optionally packaged in a container which is encoded with identifying indicia or wherein the computer system further comprises a plurality of interactive devices and wherein the method further comprises the steps of a receiving data from the interactive devices, compiling the data, outputting the data to indicate the response of a student or class of students to a question relating to the operation of the computer-assisted method, and optionally modifying the operation of the computer-assisted method in accordance with the indication of the response.
- Claim:
13. A method of screening and mapping novel markers associated with beef marbling and/or subcutaneous fat comprising: (a) applying an amplified fragment length polymorphism (AFLP) technique in screening of quantitative trait loci (QTL) linked markers for a complex trait on DNA pools of animals with extreme phenotypes, (b) validating potential QTL-linked markers individually on high and low performance of animals, wherein truly significant QTL linked markers are further characterized by DNA sequencing, (c) identifying same gene sequences of AFLP markers in the targeted species or orthologous sequences in other species and placing the AFLP markers in the targeted genome, (d) using the flanking sequence of an AFLP marker to design primers for revealing molecular causes responsible for the amplified fragment length polymorphisms and (e) determining the genotype assay for marker-trait association analysis.
- Claim:
14. The method of claim 13 wherein step (c) comprises in silico retrieval of flanking sequences of AFLP markers and in silico mapping of AFLP markers.
- Claim:
15. The method of claim 13 wherein the AFLP marker is derived from the primer combination E+AGT/T+CAT on BTA1.
- Claim:
16. The method of claim 13 wherein the AFLP marker is derived from the primer combination E+AGT/T+ACT on BTA13.
- Claim:
17. The method of claim 15 wherein the AFLP marker is orthologous to a novel gene DOPEY2 on HSA21q22.2.
- Claim:
18. The method of claim 16 wherein the AFLP marker is orthologous to a novel gene KIAA1462 on HSA10p11.23.
- Claim:
19. The method of claim 14 wherein in silico mapping of AFLP markers identifies candidate genes for beef marbling.
- Current U.S. Class:
435006/000
- Current International Class:
12; 06; 06
- الرقم المعرف:
edspap.20070224623
Processing Request
No Comments.