Microsatellite markers for population-genetic studies of shiitake (Lentinula edodes) strains

Abstract

In order to analyze the genotyping of shiitake <Lentinula edodes, BerkJ, one of commercially and widely grown edible mushrooms, we examined group of total 89 strains that are registered in Korea, Japan, and China respectively, using five microsatellite markers (Led A2, Led AS, Led 82, Led 86, and Led 06) registered in NCBI <National Center for Bioteclmology Information). After we prepared synthesis of primers modified with 5'·FAM fluorescent dye and conducted PCR program, we obtained reasonable products. And then we performed microsatellite genotyping analysis using an ABI 3730xl Genetic Analyzer. According to genotyping analysis, the number of alleles of each microsatellite marker ranged from 5 to 14 with the average value of 8.2. 'The expected and the observed heterozygosity over all microsatellite ranged from 0.27--0.83 and 0.14--0.61. Among 5 microsatellite markers PIC (Polymorphism Information Content) values of Led AB, Led 06, and Led B6 resulted 0.S2, 0.60, and 0.57 respectively. We observed that these values showed relatively high values discriminating from other values of microsatellite marker. 'The average of total values of Led AS, Led 06, and Led B6 came out 0.53 as result, which is higher than 0.5. As a result, this average can be subject to significant value to be used as marker. By using miCI'068tellite marker we can analogically establish population relationships among shiitake <L. edodes) strains grown in East Asian region, develop new varieties, and propose discriminative criteria for different breeding and variety classification. Moreover, microsatellite markers enable us to obtain the genetic inheritance and information that can be used for protection of intellectual property rights.

Analysis of Genetic Diversity and Population Structure of Wild Strains and Cultivars Using Genomic SSR Markers inLentinula edodes

“…Our results showed higher values for H E and PIC while the H O value was slightly lower compared to the results of the previous studies [23,24]. The five SSR markers developed by Kim et al [31] were reported to have H E of 0.58, H O of 0.38, and PIC value of 0.53 using cultivars from Korea, China, and Japan, as well as wild strains from Korea. Analysis of these markers showed H E of 0.53, H O of 0.38, and PIC value of 0.5 using 10 wild strains collected from Mt.…”

Association Mapping Reveals Genetic Loci Associated with Important Agronomic Traits in Lentinula edodes, Shiitake Mushroom

“…In a wild population containing 88 Chinese L. edodes strains, the I and PIC values were 0.836 and 0.395, respectively (Xiang et al, 2016 ). In another study, the PIC value was 0.53 in 89 L. edodes strains from East Asia (Kim et al, 2009 ). Genetic variation of Chinese L. edodes cultivars is low and was postulated to be derived from a limited number of elite strains (Chiu et al, 1996 ).…”

Identification of Single Nucleotide Polymorphism Markers in the Laccase Gene of Shiitake Mushrooms (Lentinula edodes)

“…Until recently, line typing and breeding of shiitake ( Lentinula edodes ) cultivars have been depended on traditional DNA markers like restriction fragment length polymorphism [ 20 ], randomly amplified polymorphism DNA [ 21 ], amplified fragment length polymorphism (AFLP) [ 4 ], and microsatellites [ 22 ]. However, these markers have limitations in that they often show low levels of reproducibility and usually lack specific genetic information (e.g., AFLP; genetic loci showing DNA polymorphisms are usually unknown).…”

“…Kim et al . [ 22 ] used co-dominant microsatellite DNA markers (GenBank accession No. DQ231475~DQ231479) to discriminate 89 lines of shiitake from East Asia, including Korea, China, and Japan, but they found that precise cultivar typing was difficult because of insufficient genetic information.…”

“…The SNP markers that we developed here from the laccase gene, a gene known to be functionally important in basidiomycetes, can complement these limitations and allow for more reliable typing of shiitake mushrooms and possibly for cultivar development through marker association selection. It is worth noting that a combined analysis of SNP markers (that were developed for this study) and microsatellites (that were developed in our previous study [ 22 ]) allows all 89 shiitake lines to be distinguished.…”