The Genome Analysis Centre receives strategic funding from the BBSRC
The Computational Genomics team, led by Sarah Ayling, is responsible for implementing and executing high-throughput analysis pipelines to analyse plant, animal and viral genomes. Team interests include:
The Crop Genomics team has a focus on analysing plant species of agricultural interest; current species of interest include: wheat, barley and rice.
The Computational Genomics team is also part of the BBSRC funded LoLa project “Wheat Genomics for Sustainable Agriculture” . The project aims to generate wheat gene models assigned to specific chromosome arms, and improved assemblies for wheat chromosomes 2B, 4B and 4D.
As part of the UK's barley sequencing consortium, they have been analysing barley RNA-Seq data in collaboration with the James Hutton Institute. In addition, they will be calling variants from exome capture data from diverse barley lines.
The team is part of the EU TransPLANT project “Trans-national infrastructure for plant genomic science”, where they lead the work package on implementation of resource-intensive algorithms for plant genomics data. The team's focus is on the evaluation and development of strategies for genome sequencing and assembly.
In addition they are working on several virus projects with collaborators from the Centre for Virus Research, Institute for Animal Health and the Animal Health Trust.
As part of the International Wheat Genome Sequencing Consortium , the Crop Genomics team is working to assemble flow-sorted chromosome arms for the Chromosome Survey Sequence of hexaploid bread wheat. Assembled chromosomes are available from URGI .
The team are working to develop and implement methods for reference-free quality assessment of sequence assemblies. In addition they will continue to explore different assembly strategies for genomes and transcriptomes, including hybrid-assemblies, next generation sequencing of BACs and integration of optical-mapping data.