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ARS Home » Pacific West Area » Corvallis, Oregon » Forage Seed and Cereal Research Unit » Research » Publications at this Location » Publication #322488
Title: Genomics of the hop psuedo-autosomal regions

Author
item HILL, STEVEN - Oregon State University
item COGGINS, J - Oregon State University
item LISTON, A - Oregon State University
item HENDRIX, D - Oregon State University
item Henning, John

Submitted to: Euphytica
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 2/1/2016
Publication Date: 2/23/2016
Citation: Hill, S.T., Coggins, J., Liston, A., Hendrix, D., Henning, J.A. 2016. Genomics of the hop psuedo-autosomal regions. Euphytica. 209:171-179. doi: 10.1007/s10681-016-1655-9.

Interpretive Summary: Hop is one of the few crop species with female and male plants with sex being determined by either XX or XY chromosomes. Hop cones are only produced in female hops with or without fertilization. This has lead to most genomic research being directed toward female plants. Very little work has been done looking at male hop genetics or genomics. The work we present provides genomic resources surrounding male plants. We have produced a draft genome for the male hop line USDA 21422M using a novel genome assembly method. In addition, we identified DNA that appears to be specific to the Y-chromosome. The genes located on this chromosome were identified and several appear to be involved in development of male hop flowers.

Technical Abstract: Hop is one of the few crop species with female and male plants with sex being determined by either XX or XY chromosomes. Hop cones are only produced in female hops with or without fertilization. This has lead to most genomic research being directed toward female plants. Very little work has been done looking at male hop genetics or genomics. The work we present provides genomic resources surrounding male plants. We have produced a draft genome for the male hop line USDA 21422M using a novel genome assembly method. In addition, we identified a 1.3Mb set of scaffolds, which appear to be specific to the Y-chromosome. This set includes a smaller high confidence 18Kb set of scaffolds, which are supported by over 500 individuals, including the USDA world collection of hop varieties and germplasm and two mapping populations, with genotyping by sequencing. We also have identified a portion of the Downy Mildew linkage map to be associated with the Pseudo-autosomal region (PAR). Within the genomic scaffolds, we identified a set of genes that are sex-linked and likely located in the region where the X and Y-chromosomes recombine.