Structural Variation (SV) Markers in the Basidiomycete Volvariella volvacea and Their Application in the Construction of a Genetic Map
Abstract
:1. Introduction
2. Results
2.1. Developed Structural Variation (SV) Markers
SV Kind | Number | Rate | Length |
---|---|---|---|
insertion | 559 | 59.28 | 160,549 |
deletion | 371 | 39.34 | 448,893 |
duplication | 11 | 1.17 | 88,643 |
inversion | 1 | 0.11 | 47,707 |
complex | 1 | 0.11 | 1682 |
Total | 943 | – | 747,474 |
2.2. Genetic Map Construction
Linkage Group | GD (cM) | No. of Markers | Average Marker Spacing (cM) | No. of Assembled Scaffolds | The Sizes of Assembled Scaffolds (kb) |
---|---|---|---|---|---|
Group 1 | 118.211 | 28 | 4.22 | 10 | 4543 |
Group 2 | 70.185 | 13 | 5.40 | 4 | 2742 |
Group 3 | 38.397 | 8 | 4.80 | 6 | 661 |
Group 4 | 108.488 | 18 | 6.03 | 7 | 3136 |
Group 5 | 34.148 | 10 | 3.41 | 2 | 2395 |
Group 6 | 17.118 | 6 | 2.85 | 5 | 391 |
Group 7 | 2.681 | 5 | 0.54 | 1 | 391 |
Group 8 | 19.473 | 5 | 3.89 | 3 | 3460 |
Group 9 | 1.605 | 5 | 0.32 | 1 | 880 |
Group 10 | 1.295 | 4 | 0.32 | 4 | 1048 |
SUM | 411.601 | 102 | 4.04 | 43 | 19,647 |
AVERAGE | 4.035 | 10 | 0.40 | – | – |
2.3. Scaffold Anchoring
3. Discussion
4. Experimental Section
4.1. Strains and Growth Conditions
4.2. Genomic DNA Extraction and Genomic Sequencing
4.3. Search SV Loci and Markers Development
4.4. PCR Amplification and Marker Scoring
4.5. Linkage Analysis and Mapping
Supplementary Materials
Acknowledgments
Author Contributions
Conflicts of Interest
References
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Wang, W.; Chen, B.; Zhang, L.; Yan, J.; Lu, Y.; Zhang, X.; Jiang, Y.; Wu, T.; Van Peer, A.F.; Li, S.; et al. Structural Variation (SV) Markers in the Basidiomycete Volvariella volvacea and Their Application in the Construction of a Genetic Map. Int. J. Mol. Sci. 2015, 16, 16669-16682. https://doi.org/10.3390/ijms160716669
Wang W, Chen B, Zhang L, Yan J, Lu Y, Zhang X, Jiang Y, Wu T, Van Peer AF, Li S, et al. Structural Variation (SV) Markers in the Basidiomycete Volvariella volvacea and Their Application in the Construction of a Genetic Map. International Journal of Molecular Sciences. 2015; 16(7):16669-16682. https://doi.org/10.3390/ijms160716669
Chicago/Turabian StyleWang, Wei, Bingzhi Chen, Lei Zhang, Junjie Yan, Yuanping Lu, Xiaoyin Zhang, Yuji Jiang, Taju Wu, Arend Frans Van Peer, Shaojie Li, and et al. 2015. "Structural Variation (SV) Markers in the Basidiomycete Volvariella volvacea and Their Application in the Construction of a Genetic Map" International Journal of Molecular Sciences 16, no. 7: 16669-16682. https://doi.org/10.3390/ijms160716669