Nature Communications (Jan 2020)
Haplotyping the Vitis collinear core genome with rhAmpSeq improves marker transferability in a diverse genus
- Cheng Zou,
- Avinash Karn,
- Bruce Reisch,
- Allen Nguyen,
- Yongming Sun,
- Yun Bao,
- Michael S. Campbell,
- Deanna Church,
- Stephen Williams,
- Xia Xu,
- Craig A. Ledbetter,
- Sagar Patel,
- Anne Fennell,
- Jeffrey C. Glaubitz,
- Matthew Clark,
- Doreen Ware,
- Jason P. Londo,
- Qi Sun,
- Lance Cadle-Davidson
Affiliations
- Cheng Zou
- BRC Bioinformatics Facility, Institute of Biotechnology, Cornell University
- Avinash Karn
- School of Integrative Plant Science, Cornell AgriTech, Cornell University
- Bruce Reisch
- School of Integrative Plant Science, Cornell AgriTech, Cornell University
- Allen Nguyen
- Integrated DNA Technologies
- Yongming Sun
- Integrated DNA Technologies
- Yun Bao
- Integrated DNA Technologies
- Michael S. Campbell
- 10x Genomics, Inc.
- Deanna Church
- 10x Genomics, Inc.
- Stephen Williams
- 10x Genomics, Inc.
- Xia Xu
- USDA-ARS, Grape Genetics Research Unit
- Craig A. Ledbetter
- USDA-ARS, Crop Diseases, Pests and Genetics Research
- Sagar Patel
- Agronomy, Horticulture and Plant Science Department, South Dakota State University
- Anne Fennell
- Agronomy, Horticulture and Plant Science Department, South Dakota State University
- Jeffrey C. Glaubitz
- BRC Bioinformatics Facility, Institute of Biotechnology, Cornell University
- Matthew Clark
- Department of Horticultural Science, University of Minnesota
- Doreen Ware
- Cold Spring Harbor Laboratory
- Jason P. Londo
- USDA-ARS, Grape Genetics Research Unit
- Qi Sun
- BRC Bioinformatics Facility, Institute of Biotechnology, Cornell University
- Lance Cadle-Davidson
- USDA-ARS, Grape Genetics Research Unit
- DOI
- https://doi.org/10.1038/s41467-019-14280-1
- Journal volume & issue
-
Vol. 11,
no. 1
pp. 1 – 11
Abstract
Trait introgression requires universal markers, but cross-species transferability of current SNP markers can be as low as 2%. Here, the authors use an AmpSeq haplotype strategy targeting the collinear core genome for marker development and show transferability increases to 91.4% in the Vitis genus.
