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ARS Home » Pacific West Area » Corvallis, Oregon » National Clonal Germplasm Repository » Research » Publications at this Location » Publication #272409
Title: A universal fingerprinting set for red raspberry

Author
item Bassil, Nahla
item Nyberg, April
item Hummer, Kim
item GRAHAM, JULIE - Scottish Crop Research Institute
item DOSSETT, MICHAEL - Oregon State University
item Finn, Chad

Submitted to: Acta Horticulturae
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 1/1/2012
Publication Date: 5/8/2012
Citation: Bassil, N.V., Nyberg, A.M., Hummer, K.E., Graham, J., Dossett, M., Finn, C.E. 2012. A universal fingerprinting set for red raspberry. Acta Horticulturae. 946:83-87.

Interpretive Summary: Red raspberry is an economically important fruit crop in the Pacific Northwestern United States. Other major world production occurs in Europe, South and North America including central highlands of Mexico, California and British Columbia (Canada). The USDA-ARS National Clonal Germplasm Repository (Corvallis, Ore.), is responsible for preserving a collection of that includes 370 red raspberry genotypes originating from 26 countries. The red raspberry clones are maintained as potted plants in screenhouses. DNA-based ‘markers’ called ‘microsatellite markers’ can be used for rapid identity verification. The objective of this study was to develop a universal fingerprinting set for red raspberries and to enable comparison of foundation plants between national and international collections in the United States and Scotland. We tested 24 of these DNA ‘markers’ for ease of use and ability to distinguish 35 named red raspberries commonly grown in the United States and Scotland. Six of these markers were easy to use and were successful in comparing fingerprints from eight red raspberries at both collections. This fingerprinting set will become a protocol for those scientists or industry personnel who wish to confirm the identity of red raspberries in the United States, across Europe and elsewhere.

Technical Abstract: Red raspberry, Rubus idaeus L., is the most economically important fruit crop in the highly diverse Rubus subgenus Idaeobatus. This subgenus also includes black raspberry R. occidentalis L. The USDA-ARS National Clonal Germplasm Repository (Corvallis, Ore.), is responsible for preserving a Rubus collection of 1940 accessions that includes 370 red raspberry genotypes originating from 26 countries. These red raspberry clones are maintained as potted plants in screenhouses. Microsatellite or simple sequence repeat (SSR) markers can be used for rapid identity verification. The objective of this study was to develop a universal SSR fingerprinting set for establishing genetic profiles for red raspberry accessions and enabling comparison of genotypes between collections. We tested 24 SSRs for ease of scoring and polymorphism in 35 red raspberry accessions common to both the NCGR and the James Hutton Institute. Ten additional species genotypes with edible berries, including Rubus subsp. Rubus and R. trivialis Mich.), the American black raspberry (R. occidentalis), purple raspberry (R. ×neglectus Peck) and two Asian black raspberry species (R. biflorus Buch.-Ham. ex Sm. and R. niveus Thunb.) were also examined. Six SSRs were easy to score, polymorphic, and mapped to five of the seven red raspberry linkage groups. They were amplified in two multiplexes and were successful in comparing fingerprints from eight red raspberry accessions at both genebanks. The fingerprinting set differentiated between the unique accessions. This protocol is recommended for scientists and industry for raspberry identity verification.