Current panel name: Cranberry_DArTag_BI_Cornell_University (2.0)
Panel name for soft release: CranDArTagBICUv2
Version description: (2.0) 100 bp insert panel
Availability: Yes
Cranberry
Description: DArTag Cranberry panel version 2 for 3,050 markers. DArTag assay uses custom designed oligos to amplify targeted SNPs, and their flanking sequences, prior to NGS sequencing. The sequenced amplicons are demultiplexed and targeted SNPs/haplotypes are analyzed using DArT P/L’s proprietary pipeline ( https://www.diversityarrays.com/services/targeted-genotying/).
The markers were selected from a diverse set of 53 cultivated cranberry parents and founders from North American breeding programs. It is an improved version of the v1 panel, in which 1,387 markers were removed and replaced with 1,378 markers that provide better genome-wide coverage, enhance detection of genetic diversity, and reduce paralogous amplification. The panel is suitable for genotyping diploid cranberry for breeding decisions and selection. Usage of the panel outside of Vaccinium macrocarpon has not been tested, and could result in higher missing data rates. Panel developed in collaboration between DArT and Breeding Insight at Cornell University, funded by USDA-ARS for public use.
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 81-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.
