ArticleScientific reports2024
Transcriptome analysis and development of EST-SSR markers in the mushroom Auricularia heimuer.
Article in Scientific reports, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Analysis of the Subculture Effect on theJournal of fungi (Basel, Switzerland) · 2026Article
- Extensive Pollen Flow and Historical Population Expansions Shaped the Phylogeographic Pattern ofEcology and evolution · 2026Article
- Genomic insights and SSR marker development for trait improvement in Pleurotus giganteus for tropical cultivation.BMC plant biology · 2025Article
- Article
- Development of SSR markers related to salinity resistance based on transcriptomic sequences in Medicago sativa.PloS one · 2025Article
- De Novo Transcriptome Assembly ofPlants (Basel, Switzerland) · 2024Article
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Authors and funding
7 authors.
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Abstract
Auricularia heimuer, the third most frequently cultivated edible mushroom species worldwide, has high medicinal value. However, a shortage of molecular marker hinders the efficiency and accuracy of genetic breeding efforts for A. heimuer. High-throughput transcriptome sequencing data are essential for gene discovery and molecular markers development. This study aimed to clarify the distribution of SSR loci across the A. heimuer transcriptome and to develop highly informative EST-SSR markers. These tools can be used for phylogenetic analysis, functional gene mining, and molecular marker-assisted breeding of A. heimuer. This study used Illumina high-throughput sequencing technology to obtain A. heimuer transcriptome data. The results revealed 37,538 unigenes in the A. heimuer transcriptome. Of these unigenes, 24,777 (66.01%) were annotated via comparison with the COG, Pfam, and NR databases. Overall, 2510 SSRs were identified from the unigenes, including 6 types of SSRs. The most abundant type of repeats were trinucleotides (1425, 56.77%), followed by mononucleotides (391, 15.58%) and dinucleotides (456, 18.17%). Primer pairs for 102 SSR loci were randomly designed for validity confirmation and polymorphism identification; this process yielded 53 polymorphic EST-SSR markers. Finally, 13 pairs of highly polymorphic EST-SSR primers were used to analyze the genetic diversity and population structure of 52 wild A. heimuer germplasms, revealing that the 52 germplasms could be divided into three categories. These results indicated that SSR loci were abundant in types, numbers, and frequencies, providing a potential basis for germplasm resource identification, genetic diversity analysis, and molecular marker-assisted breeding of A. heimuer.
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