Agrigenomics

Characterizing agricultural crops, livestock, and pest genomes has led to tremendous improvements in crop productivity and disease resistance.

However, the need to rapidly screen key genome regions in hundreds or even thousands of individuals at a time remains a major challenge for leveraging genomic discoveries across whole crops and cultivars. Daicel Arbor Biosciences offers a number of solutions to meet and overcome this challenge, in both research and industry settings.

Genotyping

Targeted sequencing with myBaits^® Custom Kits provides a powerful solution for both trait discovery as well as genotyping thousands of samples in a rapid, cost-effective process. Easily overcome the barriers of massive, highly repetitive polyploid genomes found in many of the most important food crops and yield successful screening with next-gen sequencing (NGS). We offer the most cost-effective and versatile panel design options on the market, so screening thousands of individuals for novel mutations, successful gene insertions, or pathogens can be easily performed with NGS. Our myBaits technology delivers an efficient process to replace cumbersome PCR-based assays.

Genome Organization

Large and repeat-rich plant genomes can be difficult to assemble from sequencing data alone. myTags^® FISH probes can help with the challenges to piece together the unique architecture associated with plant genome organization. Daicel Arbor Biosciences works with unassembled scaffolds to design probes for FISH assays that illuminate the physical location and relation of scaffolds on chromosomes. Our probe design algorithm can identify thousands of probes sequences on each scaffold that are distinct from the rest of the sequenced genome and disqualify repeat-rich regions which likely to produce unintended background signal in order to deliver highly specific probes. myTags probes allow the use of multiple fluorophores and libraries concurrently to identify the presence and location of various scaffolds or chromosomes. Homologous chromosome sets can be identified by the generation of barcode patterns designed to hybridize to conserved regions in related species. Learn about how myTags can help you contribute to the discovery and development of new traits and strains in agricultural research.

Featured Publications

Y. Holtz et al. (2016). “Genotyping by Sequencing Using Specific Allelic Capture to Build a High-Density Genetic Map of Durum Wheat.” PLoS One

O.A. Ali et al. (2016). “RAD Capture (Rapture): Flexible and Efficient Sequence-Based Genotyping.” Genetics

M. Giolai et al. (2017). “Comparative analysis of targeted long read sequencing approaches for characterization of a plant’s immune receptor repertoire.” BMC Genomics

J.A. Tennessen et al. (2017). “A Targeted Capture Linkage Map Anchors the Genome of the Schistosomiasis Vector Snail, Biomphalaria glabrata.” G3: Genes, Genomes, Genetics

R.A. Beagrie et al. (2017). “Complex multi-enhancer contacts captured by genome architecture mapping.” Nature

K. Li et al. (2016). “Divergence between C. melo and African Cucumis Species Identified by Chromosome Painting and rDNA Distribution Pattern.” Cytogenetic and Genomic Research