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ARS Home » Pacific West Area » Corvallis, Oregon » National Clonal Germplasm Repository » Research » Publications at this Location » Publication #402756

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

Location: National Clonal Germplasm Repository

Title: Developing a single sequence repeat (SSR) fingerprinting set to characterize the NCGR Ribes collection

item Bushakra, Jill
item ALVAREZ, ANTONIO - Oregon State University
item King, Ryan
item GREEN, JAIMIE - Former ARS Employee
item Nyberg, April
item Bassil, Nahla

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: 4/18/2023
Publication Date: 7/20/2023
Citation: Bushakra, J., Alvarez, A., King, R., Green, J., Nyberg, A.M., Bassil, N.V. 2023. Developing a single sequence repeat (SSR) fingerprinting set to characterize the NCGR Ribes collection. Meeting Abstract.

Interpretive Summary:

Technical Abstract: The US Department of Agriculture (USDA), National Clonal Germplasm Repository (NCGR) in Corvallis, Oregon preserves a diverse Ribes (currants and gooseberries) germplasm collection of more than 1,100 accessions from 41 countries. The collection consists of 371 cultivars and advanced selections of 44 species, and 8 subspecies. Ribes accessions are maintained as field-grown plants, in pots in screenhouses and as seeds of wild relatives. The objective of this study was to develop a multiplexed Ribes Single Sequence Repeat (SSR) fingerprinting set of long core repeats to develop baseline genetic profiles for the Ribes collection. Thirteen published long core repeat SSRs that appeared polymorphic in at least two Ribes species were evaluated in a testing panel of 12 accessions representing R. aureum, R. nigrum, R. uva-crispa, R. spicatum, R. petraeum, and R. × nidigrolaria. Seven primer pairs that amplified and were polymorphic across the tested species were multiplexed and their concentration optimized in a single polymerase chain reaction (PCR). This 7-SSR fingerprinting set was used to genotype 51 accessions from the NCGR collection. The results confirmed two synonyms and the identity of 13 cultivated genotypes with the same name from different sources; five cultivars with the same name but with different alleles at one or more SSR loci; two genotypes with different names but the same fingerprint; two unknown accessions; and differences among suspected synonyms. This fingerprinting set accurately separated species and will provide another tool to better manage the botanical and horticultural identity of Ribes germplasm collections.