Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i>
China possesses abundant wild germplasm resources and a wide range of cultivated strains of <i>Stropharia rugosoannulata</i>. However, issues such as genetic diversity and unclear genetic relationships have had an impact on the classification and preservation of germplasm resources, the...
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| Format: | Article |
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MDPI AG
2024-02-01
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| Series: | Horticulturae |
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| Online Access: | https://www.mdpi.com/2311-7524/10/3/213 |
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| author | Miao Gu Qiang Chen Yan Zhang Yongchang Zhao Li Wang Xiangli Wu Mengran Zhao Wei Gao |
| author_facet | Miao Gu Qiang Chen Yan Zhang Yongchang Zhao Li Wang Xiangli Wu Mengran Zhao Wei Gao |
| author_sort | Miao Gu |
| collection | DOAJ |
| description | China possesses abundant wild germplasm resources and a wide range of cultivated strains of <i>Stropharia rugosoannulata</i>. However, issues such as genetic diversity and unclear genetic relationships have had an impact on the classification and preservation of germplasm resources, the breeding of new varieties, and the promotion of superior strains. There is an urgent need for genetic diversity analysis and assessment of germplasm resources. In this study, we conducted whole-genome resequencing of 50 cultivated and wild strains collected from various regions across the country. After applying a series of filtering parameters, we obtained 888,536 high-quality Single Nucleotide Polymorphism (SNP) markers. Using these SNP markers, we performed principal component analysis, population structure analysis, and phylogenetic clusters analysis on the 50 strains. Most cultivated strains exhibited high genetic similarity, while significant genetic diversity was observed among wild strains. Based on factors such as marker distribution throughout the entire genome and marker quality, we selected 358 core SNP markers to construct SNP fingerprints. Two-dimensional barcodes were generated for each strain to enable specific identification. Additionally, the mycelial growth rate of strains was evaluated on Potato Dextrose Agar (PDA) and substrate culture media. We also assessed their lignin degradation capability using guaiacol agar plates assay. It was observed that the mycelial growth rate on PDA and substrate culture medium exhibited a significant correlation with the diameter of the mycelial colony on guaiacol agar medium. Additionally, the correlation between the mycelial growth rate on the substrate medium and that on the guaiacol agar plate was stronger than that on PDA medium. This study provided molecular-level identification and assessment of germplasm resources. It clarified the genetic relationships among strains and the characteristics of mycelium growth-related agronomic traits of each strain. This research contributed to the enrichment and development of utilizable germplasm resources and breeding materials for <i>S. rugosoannulata</i>, offering a scientific basis for further research. |
| first_indexed | 2024-04-24T18:13:52Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 2311-7524 |
| language | English |
| last_indexed | 2024-04-24T18:13:52Z |
| publishDate | 2024-02-01 |
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| series | Horticulturae |
| spelling | doaj.art-c0e4871d42714a37a240ece5835690382024-03-27T13:44:14ZengMDPI AGHorticulturae2311-75242024-02-0110321310.3390/horticulturae10030213Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i>Miao Gu0Qiang Chen1Yan Zhang2Yongchang Zhao3Li Wang4Xiangli Wu5Mengran Zhao6Wei Gao7College of Food Science and Engineering, Shanxi Agricultural University, Taiyuan 030031, ChinaInstitute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaCollege of Plant Protection, Shandong Agricultural University, Taian 271018, ChinaBiotechnology and Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences, Kunming 650000, ChinaCollege of Plant Protection, Shandong Agricultural University, Taian 271018, ChinaInstitute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaInstitute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaInstitute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaChina possesses abundant wild germplasm resources and a wide range of cultivated strains of <i>Stropharia rugosoannulata</i>. However, issues such as genetic diversity and unclear genetic relationships have had an impact on the classification and preservation of germplasm resources, the breeding of new varieties, and the promotion of superior strains. There is an urgent need for genetic diversity analysis and assessment of germplasm resources. In this study, we conducted whole-genome resequencing of 50 cultivated and wild strains collected from various regions across the country. After applying a series of filtering parameters, we obtained 888,536 high-quality Single Nucleotide Polymorphism (SNP) markers. Using these SNP markers, we performed principal component analysis, population structure analysis, and phylogenetic clusters analysis on the 50 strains. Most cultivated strains exhibited high genetic similarity, while significant genetic diversity was observed among wild strains. Based on factors such as marker distribution throughout the entire genome and marker quality, we selected 358 core SNP markers to construct SNP fingerprints. Two-dimensional barcodes were generated for each strain to enable specific identification. Additionally, the mycelial growth rate of strains was evaluated on Potato Dextrose Agar (PDA) and substrate culture media. We also assessed their lignin degradation capability using guaiacol agar plates assay. It was observed that the mycelial growth rate on PDA and substrate culture medium exhibited a significant correlation with the diameter of the mycelial colony on guaiacol agar medium. Additionally, the correlation between the mycelial growth rate on the substrate medium and that on the guaiacol agar plate was stronger than that on PDA medium. This study provided molecular-level identification and assessment of germplasm resources. It clarified the genetic relationships among strains and the characteristics of mycelium growth-related agronomic traits of each strain. This research contributed to the enrichment and development of utilizable germplasm resources and breeding materials for <i>S. rugosoannulata</i>, offering a scientific basis for further research.https://www.mdpi.com/2311-7524/10/3/213<i>Stropharia rugosoannulata</i>germplasm resourcesSNPfingerprintagronomic trait characteristics |
| spellingShingle | Miao Gu Qiang Chen Yan Zhang Yongchang Zhao Li Wang Xiangli Wu Mengran Zhao Wei Gao Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i> Horticulturae <i>Stropharia rugosoannulata</i> germplasm resources SNP fingerprint agronomic trait characteristics |
| title | Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i> |
| title_full | Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i> |
| title_fullStr | Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i> |
| title_full_unstemmed | Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i> |
| title_short | Evaluation of Genetic Diversity and Agronomic Traits of Germplasm Resources of <i>Stropharia rugosoannulata</i> |
| title_sort | evaluation of genetic diversity and agronomic traits of germplasm resources of i stropharia rugosoannulata i |
| topic | <i>Stropharia rugosoannulata</i> germplasm resources SNP fingerprint agronomic trait characteristics |
| url | https://www.mdpi.com/2311-7524/10/3/213 |
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