Project Goals
| Project Goal | Status |
|---|---|
| BAC library | completed |
| BAC end sequences | completed |
| Virtual sheep genome | version 1.2 released November 2006 Genome Biology 2007 manuscript |
| RH panels | completed |
| Public EST resources | initial sequences released to public September 2006 |
| Expression arrays | cDNA and oligo arrays available from various groups |
| Sanger resequencing & pilot 1.5k Illumina sheep SNP chip | resequencing and genotyping completed 2007, PLOS ONE 2009 manuscript |
| 3k linkage and RH maps including 1.5k SNP chip | Started November 2007 and subsequently used in the genome assembly |
| 3x Ovine Genome sequence & 50k SNP chip Updated 13/1/09 |
completed 2008 |
| Ovine HapMap based on 50k SNP chip | animal DNA collection 2008, genotyping completed Jan 2009, PLOS Biology 2012 manuscript |
| 50k linkage and RH maps | commenced January 2009 and subsequently used in the genome assembly |
| high quality reference genome sequence | Completed and published as version OARv3.1, Science 2014 manuscript |
| SNP loci for parentage | SNP Based Parentage Assignment in Sheep: Application in Australian Flocks ISAG Sheep Presentation |
| Success rates of commercial SNP based parentage assignment in sheep AAABG 2013 paper |
|
| A High Throughput Single Nucleotide Polymorphism Multiplex Assay for Parentage Assignment in New Zealand Sheep Clarke PLOS ONE 2014 |
|
| SNPs for Parentage Testing and Traceability in Globally Diverse Breeds of Sheep Heaton PLOS ONE 2014 |
|
| Resequencing of sheep breed diversity panel and HD SNP chip development (606K SNPs) | Creation and Utilisation of the ovine HD SNP chip for meat quality traits in NZ composite terminal sire breeds Clarke PAG 2015 |
| Linkage disequilibrium over short physical distances measured in sheep using a high‐density SNP chip Kijas Animal Genetics 2014 |
|
| SheepGenome Database project | Run 2: 935 samples, 21 countries, 69 breeds complete, Run3 3522 animals completed Metadata |
| LD SNP chip creation to enable industry application | The ISGC have developed and made available via Illumina low (15k), mid (50K) and High (600K) SNP arrays. The 15K and 50K are publicly available with the 600K available on request from Illumina and shannon.clarke@agresearch.co.nz. Please acknowledge the ISGC when utilising these chips. Mapping for public ovine chips onto OARv3.1, OARv4.0 and Rambouillet genomes are available at SNP chip genome mappings |
| ARS-UI_Ramb_v2.0 genome assembly | The ISGC has been involved in updated genome assemblies of the sheep genome including the latest: An improved ovine reference genome assembly to facilitate in-depth functional annotation of the sheep genome Davenport et al. GigaScience, Volume 11, 2022, giab096, link |