Porcine Reproductive and Respiratory Syndrome (PRRS); genetics of host responses
Lead Research Organisation:
University of Edinburgh
Department Name: College of Medicine and Veterinary Medic
Abstract
Abstracts are not currently available in GtR for all funded research. This is normally because the abstract was not required at the time of proposal submission, but may be because it included sensitive information such as personal details.
Technical Summary
Porcine Reproductive and Respiratory Syndrome which is caused by a viral pathogen (PRRSv) is an endemic disease with major effects on pig production. We will investigate the host's response to PRRSv infection in cultured alveolar macrophages and whole animals. We will identify genes involved in the host's response to PRRSv infection by expression profiling using microarray technology. We will identify loci determining the host's response to PRRSv through a genome scan exploiting linkage disequilibrium to single nucleotide polymorphisms. This project represents a paradigm for exploiting genomic and post-genomic knowledge and technology to identify the genes involved in the host's response to infectious disease in pigs. The knowledge acquired from this project will underpin improvements in healthier animal production. (Joint with grants 104/EGA16309 and 8/EGA16308).
Publications
Ait-Ali T
(2009)
Functional analysis of the porcine USP18 and its role during porcine arterivirus replication.
in Gene
Ait-Ali T
(2008)
Dynamic differential regulation of innate immune transcripts during the infection of alveolar macrophages by the porcine reproductive and respiratory syndrome virus.
in Developments in biologicals
Archibald A
(2008)
Animal genomics for animal health report: critical needs, problems to be solved, potential solutions, and a roadmap for moving forward.
in Developments in biologicals
Jafer O
(2009)
Identification of SNPs in porcine genes expressed during porcine respiratory and reproductive syndrome virus infection.
in Animal genetics
Lewis, C
(2009)
A genome wide association analysis identifying SNPs for PRRS tolerance on a commercial pig farm
in Association for the advancement of animal breeding and genetics. Proceedings of the 18th conference, Barossa Valley, South Australia, 28 September - 1 October 2009
| Description | Exploiting Genomics PRRS consortium |
| Organisation | Sygen International |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | This collaborative project was led from the Roslin Institute, which was integrated into the University of Edinburgh as The Roslin Institute towards the end of the project. In addition to overall leadership of the project staff based at Roslin undertook the expression profiling experiments and analysis of the microarray results, the in vitro challenges of macrophages with PRRSV, and the genetic analysis of the field data. |
| Collaborator Contribution | The Veterinary Laboratory Agency acting as a sub-contractor to the Cambridge partner undertook the animal challenge experiments - a PRRSV challenge of growing pigs and a PSSRV challenge of pregnant gilts. The Wellcome Trust Sanger Institute undertook a programme of SNP (single nucleotide polymorphism) discovery. The University of Cambridge performed SNP discovery experiments on physiological candidate genes. Sygen/PIC provided animals for the challenge experiments and as a source of cells for the in vitro experiments. Sygen/PIC also provided DNA samples for the SNP discovery experiments |
| Impact | The SNPs discovered within this project together with SNPs discovered by collaborators in Denmark and Norway were used to design the first genomewide SNP panel for genetic studies in pigs (Gregersen et al., 2008). The 7K SNP chip was developed in collaboration with Illumina Inc. In addition to being used in this PRRS project (ca. 1000 samples) the chip has also been used by Roslin Institute in another BBSRC-funded project (ca. 1000 samples) and an EU-funded project (ca. 1000 samples). At least 20,000 samples have been genotyped with this chip in a range of research projects across Europe. SNPs discovered in this BBSRC PRRS project have also been incorporated into the design of the second generation pig (60K) SNP chip in collaboration with research groups in Europe and the USA and Illumina Inc. This 60K SNP chip is currently being manufactured. Orders from around the globe have been placed for sufficient chips to genotype > 40,000 samples. The Expressed Sequence Tags (ESTs) generated within this project were included in the sequence data from which the second generation international pig long oligonucleotide set for microarray fabrication was designed (Fahrenkrug et al., 2007). The oligonucleotides were synthesised and marketed by Invitrogen. |
| Description | Exploiting Genomics PRRS consortium |
| Organisation | The Wellcome Trust Sanger Institute |
| Country | United Kingdom |
| Sector | Charity/Non Profit |
| PI Contribution | This collaborative project was led from the Roslin Institute, which was integrated into the University of Edinburgh as The Roslin Institute towards the end of the project. In addition to overall leadership of the project staff based at Roslin undertook the expression profiling experiments and analysis of the microarray results, the in vitro challenges of macrophages with PRRSV, and the genetic analysis of the field data. |
| Collaborator Contribution | The Veterinary Laboratory Agency acting as a sub-contractor to the Cambridge partner undertook the animal challenge experiments - a PRRSV challenge of growing pigs and a PSSRV challenge of pregnant gilts. The Wellcome Trust Sanger Institute undertook a programme of SNP (single nucleotide polymorphism) discovery. The University of Cambridge performed SNP discovery experiments on physiological candidate genes. Sygen/PIC provided animals for the challenge experiments and as a source of cells for the in vitro experiments. Sygen/PIC also provided DNA samples for the SNP discovery experiments |
| Impact | The SNPs discovered within this project together with SNPs discovered by collaborators in Denmark and Norway were used to design the first genomewide SNP panel for genetic studies in pigs (Gregersen et al., 2008). The 7K SNP chip was developed in collaboration with Illumina Inc. In addition to being used in this PRRS project (ca. 1000 samples) the chip has also been used by Roslin Institute in another BBSRC-funded project (ca. 1000 samples) and an EU-funded project (ca. 1000 samples). At least 20,000 samples have been genotyped with this chip in a range of research projects across Europe. SNPs discovered in this BBSRC PRRS project have also been incorporated into the design of the second generation pig (60K) SNP chip in collaboration with research groups in Europe and the USA and Illumina Inc. This 60K SNP chip is currently being manufactured. Orders from around the globe have been placed for sufficient chips to genotype > 40,000 samples. The Expressed Sequence Tags (ESTs) generated within this project were included in the sequence data from which the second generation international pig long oligonucleotide set for microarray fabrication was designed (Fahrenkrug et al., 2007). The oligonucleotides were synthesised and marketed by Invitrogen. |
| Description | Exploiting Genomics PRRS consortium |
| Organisation | University of Cambridge |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | This collaborative project was led from the Roslin Institute, which was integrated into the University of Edinburgh as The Roslin Institute towards the end of the project. In addition to overall leadership of the project staff based at Roslin undertook the expression profiling experiments and analysis of the microarray results, the in vitro challenges of macrophages with PRRSV, and the genetic analysis of the field data. |
| Collaborator Contribution | The Veterinary Laboratory Agency acting as a sub-contractor to the Cambridge partner undertook the animal challenge experiments - a PRRSV challenge of growing pigs and a PSSRV challenge of pregnant gilts. The Wellcome Trust Sanger Institute undertook a programme of SNP (single nucleotide polymorphism) discovery. The University of Cambridge performed SNP discovery experiments on physiological candidate genes. Sygen/PIC provided animals for the challenge experiments and as a source of cells for the in vitro experiments. Sygen/PIC also provided DNA samples for the SNP discovery experiments |
| Impact | The SNPs discovered within this project together with SNPs discovered by collaborators in Denmark and Norway were used to design the first genomewide SNP panel for genetic studies in pigs (Gregersen et al., 2008). The 7K SNP chip was developed in collaboration with Illumina Inc. In addition to being used in this PRRS project (ca. 1000 samples) the chip has also been used by Roslin Institute in another BBSRC-funded project (ca. 1000 samples) and an EU-funded project (ca. 1000 samples). At least 20,000 samples have been genotyped with this chip in a range of research projects across Europe. SNPs discovered in this BBSRC PRRS project have also been incorporated into the design of the second generation pig (60K) SNP chip in collaboration with research groups in Europe and the USA and Illumina Inc. This 60K SNP chip is currently being manufactured. Orders from around the globe have been placed for sufficient chips to genotype > 40,000 samples. The Expressed Sequence Tags (ESTs) generated within this project were included in the sequence data from which the second generation international pig long oligonucleotide set for microarray fabrication was designed (Fahrenkrug et al., 2007). The oligonucleotides were synthesised and marketed by Invitrogen. |
| Description | Exploiting Genomics PRRS consortium |
| Organisation | University of Edinburgh |
| Department | The Roslin Institute |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | This collaborative project was led from the Roslin Institute, which was integrated into the University of Edinburgh as The Roslin Institute towards the end of the project. In addition to overall leadership of the project staff based at Roslin undertook the expression profiling experiments and analysis of the microarray results, the in vitro challenges of macrophages with PRRSV, and the genetic analysis of the field data. |
| Collaborator Contribution | The Veterinary Laboratory Agency acting as a sub-contractor to the Cambridge partner undertook the animal challenge experiments - a PRRSV challenge of growing pigs and a PSSRV challenge of pregnant gilts. The Wellcome Trust Sanger Institute undertook a programme of SNP (single nucleotide polymorphism) discovery. The University of Cambridge performed SNP discovery experiments on physiological candidate genes. Sygen/PIC provided animals for the challenge experiments and as a source of cells for the in vitro experiments. Sygen/PIC also provided DNA samples for the SNP discovery experiments |
| Impact | The SNPs discovered within this project together with SNPs discovered by collaborators in Denmark and Norway were used to design the first genomewide SNP panel for genetic studies in pigs (Gregersen et al., 2008). The 7K SNP chip was developed in collaboration with Illumina Inc. In addition to being used in this PRRS project (ca. 1000 samples) the chip has also been used by Roslin Institute in another BBSRC-funded project (ca. 1000 samples) and an EU-funded project (ca. 1000 samples). At least 20,000 samples have been genotyped with this chip in a range of research projects across Europe. SNPs discovered in this BBSRC PRRS project have also been incorporated into the design of the second generation pig (60K) SNP chip in collaboration with research groups in Europe and the USA and Illumina Inc. This 60K SNP chip is currently being manufactured. Orders from around the globe have been placed for sufficient chips to genotype > 40,000 samples. The Expressed Sequence Tags (ESTs) generated within this project were included in the sequence data from which the second generation international pig long oligonucleotide set for microarray fabrication was designed (Fahrenkrug et al., 2007). The oligonucleotides were synthesised and marketed by Invitrogen. |
| Description | Exploiting Genomics PRRS consortium |
| Organisation | University of Edinburgh |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | This collaborative project was led from the Roslin Institute, which was integrated into the University of Edinburgh as The Roslin Institute towards the end of the project. In addition to overall leadership of the project staff based at Roslin undertook the expression profiling experiments and analysis of the microarray results, the in vitro challenges of macrophages with PRRSV, and the genetic analysis of the field data. |
| Collaborator Contribution | The Veterinary Laboratory Agency acting as a sub-contractor to the Cambridge partner undertook the animal challenge experiments - a PRRSV challenge of growing pigs and a PSSRV challenge of pregnant gilts. The Wellcome Trust Sanger Institute undertook a programme of SNP (single nucleotide polymorphism) discovery. The University of Cambridge performed SNP discovery experiments on physiological candidate genes. Sygen/PIC provided animals for the challenge experiments and as a source of cells for the in vitro experiments. Sygen/PIC also provided DNA samples for the SNP discovery experiments |
| Impact | The SNPs discovered within this project together with SNPs discovered by collaborators in Denmark and Norway were used to design the first genomewide SNP panel for genetic studies in pigs (Gregersen et al., 2008). The 7K SNP chip was developed in collaboration with Illumina Inc. In addition to being used in this PRRS project (ca. 1000 samples) the chip has also been used by Roslin Institute in another BBSRC-funded project (ca. 1000 samples) and an EU-funded project (ca. 1000 samples). At least 20,000 samples have been genotyped with this chip in a range of research projects across Europe. SNPs discovered in this BBSRC PRRS project have also been incorporated into the design of the second generation pig (60K) SNP chip in collaboration with research groups in Europe and the USA and Illumina Inc. This 60K SNP chip is currently being manufactured. Orders from around the globe have been placed for sufficient chips to genotype > 40,000 samples. The Expressed Sequence Tags (ESTs) generated within this project were included in the sequence data from which the second generation international pig long oligonucleotide set for microarray fabrication was designed (Fahrenkrug et al., 2007). The oligonucleotides were synthesised and marketed by Invitrogen. |
| Description | Exploiting Genomics PRRS consortium |
| Organisation | Veterinary Laboratories Agency |
| Country | United Kingdom |
| Sector | Public |
| PI Contribution | This collaborative project was led from the Roslin Institute, which was integrated into the University of Edinburgh as The Roslin Institute towards the end of the project. In addition to overall leadership of the project staff based at Roslin undertook the expression profiling experiments and analysis of the microarray results, the in vitro challenges of macrophages with PRRSV, and the genetic analysis of the field data. |
| Collaborator Contribution | The Veterinary Laboratory Agency acting as a sub-contractor to the Cambridge partner undertook the animal challenge experiments - a PRRSV challenge of growing pigs and a PSSRV challenge of pregnant gilts. The Wellcome Trust Sanger Institute undertook a programme of SNP (single nucleotide polymorphism) discovery. The University of Cambridge performed SNP discovery experiments on physiological candidate genes. Sygen/PIC provided animals for the challenge experiments and as a source of cells for the in vitro experiments. Sygen/PIC also provided DNA samples for the SNP discovery experiments |
| Impact | The SNPs discovered within this project together with SNPs discovered by collaborators in Denmark and Norway were used to design the first genomewide SNP panel for genetic studies in pigs (Gregersen et al., 2008). The 7K SNP chip was developed in collaboration with Illumina Inc. In addition to being used in this PRRS project (ca. 1000 samples) the chip has also been used by Roslin Institute in another BBSRC-funded project (ca. 1000 samples) and an EU-funded project (ca. 1000 samples). At least 20,000 samples have been genotyped with this chip in a range of research projects across Europe. SNPs discovered in this BBSRC PRRS project have also been incorporated into the design of the second generation pig (60K) SNP chip in collaboration with research groups in Europe and the USA and Illumina Inc. This 60K SNP chip is currently being manufactured. Orders from around the globe have been placed for sufficient chips to genotype > 40,000 samples. The Expressed Sequence Tags (ESTs) generated within this project were included in the sequence data from which the second generation international pig long oligonucleotide set for microarray fabrication was designed (Fahrenkrug et al., 2007). The oligonucleotides were synthesised and marketed by Invitrogen. |