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Based on the parentage identification results using 4 polymorphic short sequence repeats (SSRs) with both parents known, we assessed the accuracy of parentage identification for a single known parent using the same 4 SSRs and 4 other additional SSRs for 2507 Chinese shrimp Fenneropenaeus chinensis recaptured from Jiaozhou Bay in a ‘molecular marker recapture’ program. We detected a high variability in the 4 SSR loci EN0033, RS0622, FCKR002, and FCKR013. The 4 polymorphic loci produced a ≥99.99% cumulative exclusion probability for both known parents. We identified 8 parentage relationships with a logarithm (base 10) of odds (LOD) score of ≥3.0. Similar results were obtained when the 4 additional SSR loci were included. The cumulative exclusion probability decreased to 99.42% for a single known parent using the old 4 SSR loci, which enabled detection of 30 and 44 parentage relationships with a ≥3.0 LOD score for known paternity and maternity, respectively. Inclusion of the additional 4 SSR loci raised, the cumulative exclusion probability to ≥99.99%. However, the number of parentage relationships detected with an LOD score of ≥3.0 was reduced to 8 for the groups with known paternity or maternity, similar to the result obtained with both parents known. In this study, the accuracy of single-parent parentage identification using SSR loci was confirmed. Authentic parentage identification with a single known parent should incorporate both the cumulative exclusion probability and LOD score. Our research provides an alternative method for parentage identification in Chinese shrimp.

Accuracy of short sequence repeats on single‑parent parentage identification in Chinese shrimp Fenneropenaeus chinensis