Development and verification of SSR based on transcriptome of Sargassum horneri

Abstract:

SSRs were developed and characterized by using transcriptome data. A total of 2800 SSR loci were identified and dinucleotides were the most frequent (32.82%), followed by trinucleotides (25.21%). AC/GT was the most abundant unit (9.18%). The length of repetitive sequences was mainly concentrated between 12-20 bp (72.79%), and 5-10 repeats being the most abundant number (74.14%). 74 pairs of primers were randomly selected for detection, and 18 polymorphic SSRs were obtained finally. The characteristics of these microsatellites were determined in 31 individuals of S. horneri. A total of 43 alleles were detected, the allele number per locus ranged from 2 to 4 (average 2.39), and mean effective allele number was 1.91, and mean observed and expected heterozygosity were 0.318 and 0.449, respectively. The average of polymorphism information content (PIC) was 0.365, and 11 loci deviated significantly from Hardy-Weinberg equilibrium (HWE) (P<0.05). These obtained SSR markers will be helpful for the genetic studies in S. horneri.