Genomics – A New Era for Cattle Breeding. Session - ICBF

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• Report generation is carried out using GenomeStudio software. • Report files uploaded to client via a secure FTP site. • Normal throughput capacity per week (7 working days) = 864 animals. • Can potentially be increased to 1728. ICBF & Teagasc Genomics Conference 14th November 2012
Work Flow Summary • Sample assignment • Hair cutting • DNA extraction • DNA QC • Whole Genome amplification • Fragmentation, precipitation & re-suspension. • Hybridisation • Staining • Drying • Imaging • Data analysis • Reporting • Throughput ICBF & Teagasc Genomics Conference 14th November 2012
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Genomics - A New Era for Cattle Bre
Page 3 and 4:
Session 1. Genomics & parentage ide
Page 5 and 6:
Introduction to Animal Breeding & G
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Traditional Animal Breeding • Cal
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Using technology of today • At bi
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How do we use this DNA information?
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What is a SNP? • 99.9% of human D
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SNP effect on performance SNP Var M
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Indentifying Mendelian sampling ter
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Cost of sequencing has decreased Bu
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Sire …..TCACCGCTGAG….. …..CAG
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Page 25 and 26:
Page 27 and 28:
Parentage Sire 1 Sire 2 Sire 3 Sire
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Recessive genetic disorders AB AB A
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To Conclude • Differences seen be
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Genomic Advances in Parentage Verif
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U.S. Department of Agriculture, Agr
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Blood Typing >1990’s Used to dete
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Used to detect bi-allelic polymorph
Page 41 and 42: Technology Transfer via Imputation
Page 43 and 44: Impute ISAG cattle MS alleles from
Page 45 and 46: SNP haplotype to MS allele BM1824 I
Page 47 and 48: Validate Cattle with SNP and MS on
Page 49 and 50: Validate Phase, impute, check 316 S
Page 51 and 52: Validate Phase, impute, check 316 S
Page 53 and 54: Validation with DAIRY table Order:
Page 55 and 56: Microsatellite Imputation 2 nd Stud
Page 57 and 58: Initial Results 642 456 312 233 220
Page 59 and 60: Acknowledgements • BFGL (USDA-ARS
Page 61 and 62: Parentage verification Genomic sele
Page 63 and 64: LD+ content (V1-19K) • Genomic se
Page 65 and 66: Proportion allele concordance 1.00
Page 67 and 68: • CVM • BLAD Lethal Recessives
Page 69 and 70: Major genes • 14 major genes incl
Page 71 and 72: From just 1 hair sample! Calf ID CV
Page 73 and 74: Conclusions • Custom chip - value
Page 75 and 76: Implementation of Genomic Services
Page 77 and 78: What is Genotyping? • Identifying
Page 79 and 80: Typical example of processing a Bov
Page 81 and 82: ICBF & Teagasc Genomics Conference
Page 91: ICBF & Teagasc Genomics Conference
Page 95 and 96: IRISH CATTLE BREEDING FEDERATION Ge
Page 97 and 98: © Irish Cattle Breeding Federation
Page 99 and 100: User friendly, fully integrated, tr
Page 101 and 102: AI Company/Breed Society Order Scre
Page 103 and 104: HerdPlus® User genotype request sc
Page 111 and 112: VIEW YOUR RESULTS Genomic Evaluatio
Page 115 and 116: Chip Type Number of animals genotyp
Page 117 and 118: LIST OF BEEF BULLS WANTED Contact I
Page 121 and 122: Genomics & Breeding Programs • Ge
Page 123 and 124: Pedigree dairy registrations (2011)
Page 125 and 126: Moving Beef to SNP’s for parentag
Page 127 and 128: Moving beef industry to SNP’s for
Page 129 and 130: Quantifying the Benefits. A quick s
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Genomics – A New Era for Cattle Breeding. Session - ICBF

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