Breeding for Low Temperature Germinability in Temperate Japonica Rice Varieties: Analysis of Candidate Genes in Associated QTLs
Abstract
:1. Introduction
2. Materials and Methods
2.1. Selected Rice Genome Regions and Candidate Genes
2.2. Gene Expression Analyses in Rice Varieties
2.3. Phenotypic and Genetic Characterization of the Guadiamar × Italica Livorno Family
2.4. Selection for LTG in Copsemar 7 × Nuovo Maratelli F3 Families
2.5. Statistical Analyses
3. Results
3.1. Two Temperatures Phenotype Analysis in Rice Varieties
3.2. Gene Expression Analyses in Rice Varieties
3.3. LTG in the Guadiamar × Italica Livorno F6 Family
3.4. Selection for LTG in Copsemar 7 × Nuovo Maratelli F3 Families
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Chromosome | |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
2 | 3 | 6 | 7 | 10 | 11 | ||||||||||
Os02g57800 | Os03g07530 | Os03g10750 | Os03g11420 | Os03g12530 | Os03g12820 | Os06g06400 | Os07g47470 | Os10g40390 | Os11g05540 | ||||||
Variety | 35,406,962 | 3,828,648 | 5,506,710 | 5,874,917 | 6,639,548 | 6,887,497 | 2,986,200* | 14,483,751 | 14,612,486 | 15,152,441 | 17,024,753 | 13,128,278 | 28,375,652* | 21,628,908 | 2,502,066 |
Carnise | GG | GG | AA | AA | CC | AA | CC | TT | CC | AA | GG | GG | TT | GG | AA |
Italica Livorno | GG | GG | AA | AA | CC | GG | CC | TT | CC | AA | GG | AA | TT | GG | AA |
Nuovo Maratelli | GG | AA | AA | AA | CC | AA | CC | TT | CC | AA | GG | AA | AA | GG | AA |
Poseidone | GG | GG | AA | AA | CC | AA | CC | TT | CC | AA | GG | AA | AA | GG | AA |
Copsemar 7 | GG | AA | GG | TT | TT | AA | CC | CC | GG | GG | TT | AA | AA | GG | AA |
Guadiamar | GG | AA | GG | TT | TT | AA | CC | CC | GG | GG | TT | GG | AA | GG | AA |
Montsianell | GG | AA | GG | TT | TT | AA | CC | CC | GG | GG | TT | AA | AA | GG | AA |
Cultivar | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
Time | Gene | Carnise | Guadiamar | Italica Livorno | Montsianell | Poseidone | |||||
15 °C | 25 °C | 15 °C | 25 °C | 15 °C | 25 °C | 15 °C | 25 °C | 15 °C | 25 °C | ||
1 | Os02g57800 | 1.52 ± 0.03 * | 0.85 ± 0.01 | 2.30 ± 0.11 | 1.88 ± 0.50 | 2.98 ± 0.08 | 2.92 ± 0.96 | ||||
Os03g07530 | 8.54 ± 0.39 * | 3.43 ± 0.22 | 9.06 ± 0.16 | 7.48 ± 1.59 | 10.69 ± 1.90 | 9.04 ± 0.42 | |||||
Os03g10750 | 0.03 ± 0.00 | 0.02 ± 0.01 | 0.06 ± 0.00 * | 0.01 ± 0.00 | 0.08 ± 0.00 * | 0.03 ± 0.00 | |||||
Os03g11420 | 4.11 ± 0.04 * | 1.14 ± 0.11 | 2.93 ± 0.09 | 3.78 ± 1.08 | 3.98 ± 0.83 * | 2.68 ± 0.58 | |||||
Os03g12530 | 9.89 ± 0.23 * | 3.92 ± 0.04 | 9.59 ± 0.81 * | 7.11 ± 1.41 | 16.05 ± 4.03 * | 10.06 ± 1.95 | |||||
Os03g12820 | 0.80 ± 0.06 * | 0.18 ± 0.01 | 1.47 ± 0.03 * | 0.34 ± 0.07 | 2.21 ± 0.28 * | 0.67 ± 0.13 | |||||
Os06g06400 | 0.49 ± 0.02 * | 0.22 ± 0.01 | 0.54 ± 0.06 * | 0.44 ± 0.05 | 0.93 ± 0.26 | 1.14 ± 0.27 | |||||
Os07g47470 | 0.39 ± 0.03 * | 0.13 ± 0.01 | 0.50 ± 0.14 * | 0.15 ± 0.02 | 0.57 ± 0.16 | 0.33 ± 0.07 | |||||
Os10g40390 | 0.25 ± 0.04 * | 0.16 ± 0.03 | 0.35 ± 0.04 | 0.41 ± 0.08 | 0.21 ± 0.05 | 0.16 ± 0.03 | |||||
Os11g05540 | 2.49 ± 0.00 * | 0.87 ± 0.14 | 1.87 ± 0.27 * | 1.35 ± 0.34 | 3.23 ± 0.40 * | 2.54 ± 0.04 | |||||
2 | Os02g57800 | 1.57 ± 0.43 | 1.10 ± 0.42 | 1.16 ± 0.34 | 0.90 ± 0.05 | 3.22 ± 0.45 * | 0.34 ± 0.04 | 2.94 ± 0.29 * | 0.54 ± 0.08 | 2.48 ± 0.17 * | 0.89 ± 0.01 |
Os03g07530 | 8.18 ± 1.76 * | 3.48 ± 1.60 | 2.65 ± 0.36 | 4.90 ± 0.68 * | 20.11 ± 2.56 * | 1.04 ± 0.11 | 10.79 ± 1.97 * | 2.28 ± 0.31 | 6.31 ± 0.68 * | 2.45 ± 0.27 | |
Os03g10750 | 0.12 ± 0.02 * | 0.02 ± 0.00 | 0.04 ± 0.01 | 0.02 ± 0.01 | 0.29 ± 0.08 * | 0.02 ± 0.00 | 0.11 ± 0.03 * | 0.02 ± 0.00 | 0.19 ± 0.02 * | 0.04 ± 0.00 | |
Os03g11420 | 1.78 ± 0.33 * | 0.73 ± 0.32 | 0.68 ± 0.09 | 0.92 ± 0.13 | 5.05 ± 0.43 * | 0.33 ± 0.03 | 2.76 ± 0.20 * | 0.59 ± 0.11 | 1.88 ± 0.02 * | 0.66 ± 0.03 | |
Os03g12530 | 9.46 ± 1.70 * | 4.43 ± 2.35 | 3.24 ± 0.27 | 6.54 ± 1.89 * | 21.32 ± 2.29 * | 1.57 ± 0.11 | 12.40 ± 0.83 * | 2.56 ± 0.34 | 8.01 ± 0.42 * | 2.67 ± 0.10 | |
Os03g12820 | 1.51 ± 0.35 * | 0.32 ± 0.18 | 1.80 ± 0.11 * | 0.47 ± 0.07 | 6.42 ± 0.30 * | 1.10 ± 0.20 | 3.67 ± 0.32 * | 0.46 ± 0.02 | 2.36 ± 0.24 * | 0.20 ± 0.06 | |
Os06g06400 | 0.37 ± 0.08 * | 0.24 ± 0.00 | 0.26 ± 0.07 * | 0.13 ± 0.02 | 1.42 ± 0.44 * | 0.07 ± 0.01 | 0.70 ± 0.02 * | 0.07 ± 0.01 | 0.47 ± 0.02 * | 0.12 ± 0.00 | |
Os07g47470 | 0.28 ± 0.05 * | 0.09 ± 0.01 | 0.22 ± 0.04 * | 0.10 ± 0.00 | 0.85 ± 0.07 * | 0.03 ± 0.00 | 0.53 ± 0.06 * | 0.03 ± 0.00 | 0.48 ± 0.05 * | 0.07 ± 0.01 | |
Os10g40390 | 0.29 ± 0.01 | 0.25 ± 0.07 | 0.12 ± 0.01 | 0.10 ± 0.01 | 0.81 ± 0.08 * | 0.09 ± 0.03 | 0.21 ± 0.04 * | 0.06 ± 0.02 | 0.35 ± 0.11 * | 0.07 ± 0.01 | |
Os11g05540 | 1.89 ± 0.08 * | 0.57 ± 0.37 | 0.67 ± 0.15 | 0.59 ± 0.15 | 4.79 ± 0.31 * | 0.12 ± 0.03 | 3.29 ± 0.54 * | 0.23 ± 0.05 | 2.19 ± 0.13 * | 0.53 ± 0.09 |
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Sales, E.; Miedes, E.; Marqués, L. Breeding for Low Temperature Germinability in Temperate Japonica Rice Varieties: Analysis of Candidate Genes in Associated QTLs. Agronomy 2021, 11, 2125. https://doi.org/10.3390/agronomy11112125
Sales E, Miedes E, Marqués L. Breeding for Low Temperature Germinability in Temperate Japonica Rice Varieties: Analysis of Candidate Genes in Associated QTLs. Agronomy. 2021; 11(11):2125. https://doi.org/10.3390/agronomy11112125
Chicago/Turabian StyleSales, Ester, Eva Miedes, and Luis Marqués. 2021. "Breeding for Low Temperature Germinability in Temperate Japonica Rice Varieties: Analysis of Candidate Genes in Associated QTLs" Agronomy 11, no. 11: 2125. https://doi.org/10.3390/agronomy11112125