DArT and DArTseq are used for:
- Genome profiling and diversity analysis
- Genetic and physical mapping (applied in many genome sequencing projects)
- Identification of quantitative trait loci (QTL)
- Rapid introgression of genomic regions in accelerated backcrossing programs
- Simultaneous marker-assisted selection for several traits
- Genomic Selection
- Varietal identification of crops and genetic purity testing
- Monitoring the composition of complex DNA samples (microbial, populations, etc.)
On the microarray platform DArT markers for a new species are discovered by screening a library of several thousand fragments from a genomic representation prepared from a pool of DNA samples that encompass the diversity of the species. The microarray platform makes the discovery process very efficient because all markers on a particular DArT array are scored simultaneously.
For each complexity reduction method, an independent collection of DArT markers can be assembled on a separate DArT array. The number of markers for a given species, therefore, is only dependent on:
- The level of genetic variation within the species (or gene pool) of interest
- The number of complexity reduction methods screened.
- Gene cloning through a modified quantitative Bulked Segregant Analysis approach on DArTseq platform
On the DArTseq platform we perform similar methods of complexity reduction as on microarray platform. This platform produces significantly higher volume of data compared to the microarry platform. The DArTseq method deploys sequencing of the representations on the Next Generation Sequencing (NGS) platforms.
Complex DNA samples
DArT can be applied to complex DNA samples or "meta-genomes" comprising many organisms, in the same way as it is applied to DNA samples from individual organisms. A library is built from a "meta genomic" representation of a pool of samples, on the array platform. Thereafter, informative array features are identified by hybridising representations of individual samples to the array.
As DArT is independent of sequence information it is not restricted in the sequences it uses to search for diagnostic markers. This enables it to find markers and information other technologies are likely to miss. This is of particular importance for samples containing DNA from non-culturable microbes which represent the vast majority of bacteria in environmental samples.