Genetic differences revealed by Genomic-SSR and EST-SSRin black locust (Robinia pseudoacacia)

doi:10.11924/j.issn.1000-6850.casb18030010

Abstract

Abstract: [Objective] The genetic differences of Genomic-SSR and EST-SSR in black locust was studied in order to lay the foundation of rational use of different SSR molecular markers in genetic diversity of black locust and other related research. [Method] 12 individuals of black locust propagated by seeds from four collection sites in the USA was selected. Total genomic DNA was extracted by kit. 9 Genomic-SSR and 9 EST-SSR primers were used for PCR amplification. The products were separated by capillary electrophoresis. Comparative analysis of polymorphism, correlation of genetic similarity coefficients and cluster between Genomic-SSR and EST-SSR was conduct by related software according to the information of the bands. [Result] The average number of bands detected by Genomic-SSR was 6.0, shannon index 1.3833, observed heterozygosity 0.5749 and expected heterozygosity 0.6832. The average number of bands detected by EST-SSR was 5.1, Shannon index 1.2711, observed heterozygosity 0.5648 and expected heterozygosity 0.6526. Genetic similarity coefficients and cluster result by Genomic-SSR were more similar to Genomic-SSR + EST-SSR. [Conclusion] There are genetic differences between Genomic-SSR and EST-SSR of black locust, but the differences are not significant. Genomic-SSR of black locust can more accurately reflect genetic relationship of different genotypes. EST-SSR of black locust is more conservative.

References

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