Current panel name: Hemp_DArTag_BI_Cornell_University (1.0)
Panel name for soft release: HempDArTagBICUv1
Version description: (1.0) original 125 bp insert size
Availability: Yes
Hemp
Description: Hemp (Cannabis sativa) DArTag panel v1 for 3,040 marker loci developed in collaboration with DArT and funded by USDA-ARS for public use. The DArTag assay employs custom oligos to target SNPs/InDels (<50 bp) and their flanking regions, producing 109 bp amplicons for next-generation sequencing; SNPs and microhaplotypes are called using DArT’s proprietary pipeline. Markers were discovered from whole‑genome sequencing of 92 diverse accessions from the USDA National Plant Germplasm System combined with public WGS, aligned to the ‘Otto II’ reference. The final set includes autosomal, pseudoautosomal, and sex‑specific loci, prioritizes overlap with existing marker resources and known trait‑linked sites, and was pruned to maintain broad genomic coverage (~3K loci) without large inter‑marker gaps. The panel was validated by genotyping a mapping population and an independent diversity panel and supported construction of a contiguous linkage map. It enables cost‑effective, mid‑density genotyping for relatedness, trait mapping, marker‑assisted selection, and genomic prediction across C. sativa market classes. Usage of the panel outside of C. sativa is likely to result in higher missing data and fewer data points. Access to the panel is available via DArT’s Targeted Genotyping service (https://www.diversityarrays.com/services/targeted-genotying/).
Results and Data Sharing: DArT offers multiple data output formats. Users are encouraged to work with DArT to ensure the data type they desire is provided. Users are also strongly encouraged to request the Missing Allele Discovery Counts (MADC) file from DArT when placing orders. This file contains the read counts of each 109-bp michrohaplotype detected in each sample and at each locus. Breeding Insight requests that the MADC file and sample metadata also be sent to bi-genotyping@ufl.edu to be added to the public microhaplotype database for fixed allele naming and public data sharing. Proprietary sample metadata can be privatized in the database for IP protection.
Citation: In preparation. Please contact Breeding Insight for the most up-to-date citation information.
