Fine Mapping of Stripe-Rust-Resistance Gene YrJ22 in Common Wheat by BSR-Seq and MutMap-Based Sequencing
Abstract
:1. Introduction
2. Results
2.1. Phenotypic Characterization of Stripe-Rust Resistance
2.2. BSR-Seq and MutMap Analysis
2.3. Collinearity Analysis of 2A, 2B, and 2D
2.4. Development of Polymorphic Markers
2.5. Linkage-Map Construction and Candidate-Genes Analysis
3. Discussion
3.1. Combining Mutmap and BSR-Seq Is an Effective Approach to Fine-Mapping
3.2. Genetic and Physical Mapping of YrJ22
3.3. Analysis of the Candidate Region of YrJ22
4. Materials and Methods
4.1. Plant Materials
4.2. Evaluation of Stripe-Rust Reaction
4.3. BSR-Seq Analysis
4.4. MutMap Analysis
4.5. Genomic DNA Isolation
4.6. Development of Polymorphic CAPS and STS Markers
4.7. Quantitative Real-Time PCR Analysis
4.8. Statical Analysis and Genetic Map Construction
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Conflicts of Interest
References
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Plant Material | Total | Infection Type | Expected Ratio | χ2 | p | |||||
---|---|---|---|---|---|---|---|---|---|---|
0 | 0 | 1 | 2 | 3 | 4 | |||||
Jimai 22 | 10 | 10 | ||||||||
Avocet S | 10 | 3 | 7 | |||||||
F1 | 15 | 15 | ||||||||
F2 | 2273 | 3 | 1482 | 169 | 66 | 128 | 425 | 3:1 | 0.46 | 0.55 |
Marker | Forward Primer Sequence (5′–3′) | Reverse Primer Sequence (5′–3′) | Physical Pos.* (Mb) | Restriction Enzyme | Product Size (bp) |
---|---|---|---|---|---|
H796 | AGTGGGGCTATTTTGTCGG | CCTTGTTCATGGCTGGTTG | 773.2 | BSSHII | 739 |
H896 | TCTAGTTGCTGCCGTGGTTA | AACCAAACGGACACACATGG | 764.1 | HpyCH4V | 718 |
H804 | GTGCCGTGAGCACCCTGCTG | TGGACGTCTTTTGCCCTCTTGAA | 772.6 | FoKI | 869 |
H690 | GGATTCTCACGGTCACTCAA | CTCATTCCCGCAACAGG | 773.0 | HaeIII | 546 |
H805 | GAGCAGCCGGAGGAGTTG | CAGGAGGAGATGGAGAGCAT | 772.7 | FoKI | 1013 |
H034 | AGTAGGGTAAATGGCGAGCAG | GTCCCAAGGAACAAACACG | 750.4 | Hpy188III | 720 |
H727 | GGGTGGTCACATCCAGGTCC | GAACATGCCTCAGAACAATGGA | 768.7 | TspRI | 443 |
H400 | CGATTGCTGCTTTCCTTCAT | ATCCCATCGGTCCCGTGTT | 768.7 | BbvI | 1677 |
H732 | GCATCGCAGCAACACTCG | GGAGACAATGGGCGGTTT | 768.9 | BstUI | 1128 |
H736 | GTGCTCCTTACAGGGAACAAC | ATCCACAGCCGAACCAAA | 769.0 | HpyCH4III | 1573 |
H801 | GGACAAATACAAGGGTTCG | TGTCGTCGGGATTCAAGG | 772.4 | - | 279 |
Name | Length (bp) | Position on Chr2A * (bp) | Functional Annotation * |
---|---|---|---|
TraesCS2A01G572700 | 1455 | 768,663,628–768,665,082 | Peroxidase |
TraesCS2A01G572800 | 1625 | 768,676,637–768,678,261 | Peroxidase |
TraesCS2A01G740000LC | 1200 | 768,691,235–768,692,434 | F-box domain containing protein |
TraesCS2A01G572900(R) | 5771 | 768,729,058–768,734,828 | Disease resistance protein |
TraesCS2A01G740100LC | 483 | 768,882,506–768,882,988 | Endonuclease/exonuclease/ phosphatase family protein |
TraesCS2A01G573000 | 1497 | 768,923,600–768,925,096 | Retrovirus-related Pol polyprotein from transposon TNT 1-94 |
TraesCS2A01G573100(NLR) | 5239 | 768,926,410–768,931,648 | Disease resistance protein (TIR-NBS-LRR class) |
TraesCS2A01G573200 | 1655 | 768,981,429–768,983,083 | Succinate dehydrogenase subunit |
TraesCS2A01G740200LC | 1251 | 768,992,115–768,993,365 | F-box domain containing protein |
TraesCS2A01G573300 | 1463 | 768,997,070–768,998,532 | Peroxidase |
TraesCS2A01G573400 | 1706 | 769,003,029–769,004,734 | Peroxidase |
TraesCS2A01G573500 | 1136 | 769,020,358–769,021,493 | Peroxidase |
TraesCS2A01G573600 | 1129 | 769,032,902–769,034,030 | Peroxidase |
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Chen, C.; Hao, W.; Wu, J.; Si, H.; Xia, X.; Ma, C. Fine Mapping of Stripe-Rust-Resistance Gene YrJ22 in Common Wheat by BSR-Seq and MutMap-Based Sequencing. Plants 2022, 11, 3244. https://doi.org/10.3390/plants11233244
Chen C, Hao W, Wu J, Si H, Xia X, Ma C. Fine Mapping of Stripe-Rust-Resistance Gene YrJ22 in Common Wheat by BSR-Seq and MutMap-Based Sequencing. Plants. 2022; 11(23):3244. https://doi.org/10.3390/plants11233244
Chicago/Turabian StyleChen, Can, Weihao Hao, Jingchun Wu, Hongqi Si, Xianchun Xia, and Chuanxi Ma. 2022. "Fine Mapping of Stripe-Rust-Resistance Gene YrJ22 in Common Wheat by BSR-Seq and MutMap-Based Sequencing" Plants 11, no. 23: 3244. https://doi.org/10.3390/plants11233244