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ARS Home » Pacific West Area » Corvallis, Oregon » National Clonal Germplasm Repository » Research » Publications at this Location » Publication #402757

Research Project: Management of Temperate-Adapted Fruit, Nut, and Specialty Crop Genetic Resources and Associated Information

Location: National Clonal Germplasm Repository

Title: A black raspberry fingerprinting set identifies seedlings in two populations

item Bassil, Nahla
item King, Ryan
item Peterson, Mary
item DOSSETT, MICHAEL - British Columbia Blueberry Council
item Hardigan, Michael

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: 4/15/2023
Publication Date: 7/20/2023
Citation: Bassil, N.V., King, R., Peterson, M.E., Dossett, M., Hardigan, M.A. 2023. A black raspberry fingerprinting set identifies seedlings in two populations. Meeting Abstract.

Interpretive Summary:

Technical Abstract: Black raspberry (Rubus occidentalis L) is a horticultural specialty crop of interest in North America. While the majority of black raspberry acreage is in Oregon and intended for the processing market, fresh market production occurs along the Ohio River Valley and the Great Lakes. The United States Department of Agriculture (USDA) Agricultural Research Service (ARS) National Collection and breeding program are housed in Corvallis, Oregon, at the National Clonal Germplasm Repository (NCGR), and Horticultural Crops Production and Genetic Improvement Research Unit (HCPGIRU), respectively. Seedlings from two breeding populations [ORUS 4304 (ORUS 4158-2 x ORUS 3021-2) or ORUS 4305 (ORUS 3021-2 x ORUS 4153-1)] growing in the field had lost their labels. Since these plants were highly productive for over nine years, they may be important sources of resistance to the Raspberry mosaic virus complex including Black raspberry necrosis virus that can cause a shortened life span and small fruit size. The objective of this study was to develop a long core simple sequence repeat (SSR)-based fingerprinting set that could identify the two populations to which these 14 field plants belong. Of 44 SSRs previously screened in the parents of these two populations, seven tri-nucleotide and 16 di-nucleotide containing SSRs were polymorphic. A fingerprinting set of six tri-SSRs was optimized in a multiplexed test and identified nine plants to belong to the ORUS 4304 family and five to the ORUS 4305 population. Two of four additional di-SSRs tested confirmed this conclusion. Of the 10 SSRs tested, two tri-SSRs (Ro2173 and Ro20267) and two di-SSRs (Ro9206 and Ro15590) had parent-specific alleles for each of the two unique parents (ORUS 4158-2 and ORUS 4153-1) and were most informative in these populations. This black raspberry fingerprinting set of six SSRs is easy to use and economic and is a new tool for identity confirmation in black raspberry.