Genome-Wide Characterization and Development of Simple Sequence Repeat Markers for Molecular Diversity Analyses in Yellowhorn (Xanthoceras sorbifolium Bunge)
Abstract
:1. Introduction
2. Results
2.1. Characterization of SSRs in the Yellowhorn Genome
2.2. Functional Annotation for the SSR-Associated Genes
2.3. Development, Validation and Physical Mapping of Polymorphism SSR Markers
2.4. Analysis of Genetic Diversity and Population Structure
2.5. Establishment of Yellowhorn Germplasm Core Collection
3. Discussion
4. Materials and Methods
4.1. Plant Materials
4.2. Characterization of SSR Loci in Yellowhorn Genome
4.3. Functional Annotation of SSR-Containing Genes
4.4. DNA Extraction and PCR Amplification
4.5. Genetic Diversity and Population Structure Analysis
4.6. Identification of Yellowhorn Core Germplasms
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Conflicts of Interest
References
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Locus | Na | Ne | Ho | He | I | PIC |
---|---|---|---|---|---|---|
XsSSR01 | 9 | 3.039 | 0.516 | 0.651 | 0.623 | 0.552 |
XsSSR02 | 8 | 5.124 | 0.469 | 0.528 | 0.421 | 0.506 |
XsSSR03 | 10 | 6.712 | 0.594 | 0.721 | 1.201 | 0.734 |
XsSSR04 | 10 | 5.212 | 0.392 | 0.586 | 0.854 | 0.512 |
XsSSR05 | 9 | 5.562 | 0.452 | 0.523 | 0.875 | 0.525 |
XsSSR06 | 10 | 5.254 | 0.698 | 0.754 | 1.035 | 0.584 |
XsSSR07 | 9 | 4.589 | 0.582 | 0.685 | 0.784 | 0.574 |
XsSSR08 | 11 | 6.575 | 0.587 | 0.758 | 0.895 | 0.852 |
XsSSR09 | 7 | 4.258 | 0.457 | 0.762 | 1.324 | 0.721 |
XsSSR10 | 8 | 4.521 | 0.458 | 0.757 | 1.356 | 0.712 |
XsSSR11 | 8 | 5.311 | 0.412 | 0.623 | 1.023 | 0.582 |
XsSSR12 | 9 | 6.563 | 0.667 | 0.854 | 1.896 | 0.756 |
XsSSR13 | 7 | 4.268 | 0.428 | 0.665 | 1.101 | 0.683 |
XsSSR14 | 6 | 3.254 | 0.319 | 0.621 | 0.825 | 0.488 |
XsSSR15 | 7 | 4.332 | 0.682 | 0.768 | 1.524 | 0.635 |
XsSSR16 | 7 | 3.085 | 0.601 | 0.607 | 1.425 | 0.587 |
XsSSR17 | 6 | 2.092 | 0.582 | 0.520 | 1.058 | 0.487 |
XsSSR18 | 7 | 4.756 | 0.452 | 0.789 | 1.526 | 0.758 |
XsSSR19 | 5 | 2.636 | 0.467 | 0.622 | 1.223 | 0.478 |
XsSSR20 | 5 | 3.345 | 0.501 | 0.782 | 1.354 | 0.654 |
XsSSR21 | 9 | 5.369 | 0.745 | 0.827 | 1.582 | 0.752 |
XsSSR22 | 10 | 5.458 | 0.704 | 0.812 | 1.586 | 0.761 |
XsSSR23 | 7 | 4.528 | 0.751 | 0.778 | 1.526 | 0.723 |
XsSSR24 | 6 | 3.485 | 0.712 | 0.859 | 1.452 | 0.631 |
XsSSR25 | 8 | 6.012 | 0.776 | 0.842 | 1.821 | 0.758 |
XsSSR26 | 8 | 5.125 | 0.648 | 0.768 | 1.752 | 0.658 |
XsSSR27 | 9 | 4.231 | 0.425 | 0.605 | 1.205 | 0.561 |
XsSSR28 | 7 | 4.526 | 0.623 | 0.785 | 1.523 | 0.598 |
XsSSR29 | 7 | 5.127 | 0.705 | 0.759 | 1.652 | 0.658 |
XsSSR30 | 5 | 2.852 | 0.498 | 0.587 | 1.058 | 0.532 |
Mean | 7.8 | 4.573 | 0.563 | 0.689 | 1.249 | 0.634 |
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Yang, X.; Wang, Y.; Yang, Y.; Shareng, T.; Xing, Y.; Bai, G.; Xing, Z.; Ji, Y.; Liu, L.; Cao, G. Genome-Wide Characterization and Development of Simple Sequence Repeat Markers for Molecular Diversity Analyses in Yellowhorn (Xanthoceras sorbifolium Bunge). Plants 2024, 13, 2794. https://doi.org/10.3390/plants13192794
Yang X, Wang Y, Yang Y, Shareng T, Xing Y, Bai G, Xing Z, Ji Y, Liu L, Cao G. Genome-Wide Characterization and Development of Simple Sequence Repeat Markers for Molecular Diversity Analyses in Yellowhorn (Xanthoceras sorbifolium Bunge). Plants. 2024; 13(19):2794. https://doi.org/10.3390/plants13192794
Chicago/Turabian StyleYang, Xiaoming, Yuan Wang, Yuewen Yang, Tuya Shareng, Yukun Xing, Gaowa Bai, Zhongyu Xing, Yuanyuan Ji, Liling Liu, and Gongxiang Cao. 2024. "Genome-Wide Characterization and Development of Simple Sequence Repeat Markers for Molecular Diversity Analyses in Yellowhorn (Xanthoceras sorbifolium Bunge)" Plants 13, no. 19: 2794. https://doi.org/10.3390/plants13192794