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Fici Hirtae Radix, a Chinese herbal medicine, is prepared from the dry roots of Ficus hirta Vahl. This study aimed to provide theoretical and empirical support for the genetic diversity analysis, genetic map construction, and assisted breeding of F. hirta Vahl. by developing SSR molecular markers. Four typical leaves of F. hirta Vahl. were selected as the samples, and site feature analysis and molecular marker development were performed after transcriptome sequencing. A total of 16 851 SSR loci were identified from 34 375 transcriptome unigene sequences, distributed across 12 094 unigene sequences, resulting in a distribution frequency of 35.18%. The average frequency was one SSR locus every 2638 bp, with a density of 3.68 kb. Five distinct nucleotide motifs were observed, with the motif repeating six times being the most prevalent, constituting 20.92% of all SSRs, and typically less than 29 bp in length. Di-nucleotide repeats were predominant, followed by tri-and tetra-nucleotide repeats. (AG/CT)n was the most abundant repeat motif, representing 26.05% of all SSRs, while (AT/AT)n was the second most common, accounting for 18.69%. 100 EST-SSR primers were randomly selected to amplify target product using genomic DNA from four different leaf types of F. hirta Vahl. 89 primers exhibited polymorphism across the germplasms. Nine primer pairs, distinguished by the high definition and clarity, were selected to perform DNA amplification and construct DNA fingerprints for 31 specimens sourced from different regions. The average percentage of polymorphic bands observed across these primers was 72.04%. The substantial degree of polymorphism facilitated the unambiguous identification of each of the 31 germplasm samples, and robust DNA fingerprint profiles were successfully established for each specimen. This study demonstrated that SSR loci within the transcriptome of F. hirta Vahl. were rich in information and highly utilizable, offering valuable data support for future research endeavors.
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| 科 Family | 属数 Number of genus | 种数 Number of species | 占总种数比例 Percentage of total species (%) | 属 Genus | 种数 Number of species | 占总种数比例 Percentage of total species (%) |
|---|---|---|---|---|---|---|
| 鹅膏菌科Amanitaceae | 2 | 11 | 5.26 | 鹅膏菌属 Amanita | 10 | 4.78 |
| 小菇科 Mycenaceae | 2 | 12 | 5.74 | 丝盖伞属 Inocybe | 5 | 2.39 |
| 多孔菌科 Polyporaceae | 8 | 14 | 6.70 | 蜡蘑属 Laccaria | 5 | 2.39 |
| 红菇科 Russulaceae | 3 | 23 | 11.00 | 小皮伞属 Marasmius | 6 | 2.87 |
| 小菇属 Mycena | 11 | 5.26 | ||||
| 光柄菇属 Pluteus | 5 | 2.39 | ||||
| 红菇属 Russula | 17 | 8.13 | ||||
| 栓菌属 Trametes | 5 | 2.39 |
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