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The Relation Between InDel Genetic Distance and Heterosis in Rice

Published in Plant (Volume 11, Issue 1)
Received: 27 December 2022    Accepted: 12 January 2023    Published: 30 January 2023
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Abstract

Heterosis is a common phenomenon in plant species, which has been extensively utilized in different crops. Genetic distance is one of important basis for selecting parents in hybrid breeding. There is a relation between the genetic distance and heterosis and hybrid rice combinations usually show a stronger heterosis with larger genetic distance between parental lines. In this study, 160 hybrid rice combinations were made by incomplete duallel cross using 10 sterile lines and 16 self-bred restorer lines. Moreover, the indica-japonica gene frequencies of 26 lines were identified by 20 pairs of the InDel markers. The relationships between the InDel genetic distance and the phenotype heterosis were analyzed. Here, the results showed that the InDel genetic distance between parents could be used to predict phenotype value of effective panicle per plant and control heterosis of yield per plant and seed setting rate of the tested rice combinations. The optimal distance between the parents was in the interval 0.1-0.55 for the control heterosis of several main yield traits including effective panicle per plant, filled grains per panicle and yield per plant of combinations. The present result will provide a useful reference for hybrid rice parents selection in breeding.

Published in Plant (Volume 11, Issue 1)
DOI 10.11648/j.plant.20231101.12
Page(s) 11-20
Creative Commons

This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.

Copyright

Copyright © The Author(s), 2023. Published by Science Publishing Group

Keywords

Hybrid Rice, Parents, Indel Marker, Genetic Distance, Heterosis

References
[1] Beukert U., Zuo L., Liu G., Zhao Y. S., Ramachandra N., Mirdita V., Pita F., Pillen K., Reif J. C. (2017), Genome-Based Identification of Heterotic Patterns in Rice. Rice (New York, NY), 10: 22.
[2] Cai, X. X., Liu, J. (2007). Differentiation of Indica-Japonica Rice Revealed by Insertion/deletion Fragments Obtained from Comparative Genomic Study of DNA Sequences between 93-11 (Indica) and Nipponbare (Japonica). Journal of Fudan University (Natural Science), 045 (003): 309-315.
[3] Dudley, J. W., Saghai Maroof, M. A., Rufener, G. K. (1991). Molecular markers and grouping of parents in maize breeding programs. Crop Science, 31: 718-723.
[4] Godshalk, E. B., Lee, M., Lamkey, K. R. (1990). Relationship of restriction fragment length polymorphisms to single-cross hybrid performance of maize. Theoretical and Appllied Genetics, 80: 273-280.
[5] Gui, J. M., Wang, L. Y., Fan, X. J., Qi, Y. B., Zhang, L. X., Fan, H. H., Jin, Q. S., Wang, J. J. (2016). Comparison the Heterosis o Indica-Japonica Hybrids and Japonica-Japonica Hybrids Using InDel Markers. Scientia Agricultura Sinica., 49 (2): 219-231.
[6] Huang X. H., Yang S. H., Gong J. Y., Zhao Q., Feng Q., Zhan Q. L., Zhao Y., Li W. J., Cheng B. Y., Xia J. H., Chen N., Huang T., Zhang L., Fan D. L., Chen J. Y., Zhou C. C., Lu Y. Q., Weng Q. J., Han B. (2016). Genomic architecture of heterosis for yield traits in rice. Nature, 537: 629–633.
[7] Ji, Q., Zhang, M. J., Lu, J., Wang, H. M., Lin B., Liu, Q Q., Chao, Q., Zhang, Y., Liu, C. X., Gu, M. D., Xu M. L. (2012). Molecular basis underlying the S5-dependent reproductive isolation and compatibility of indica/japonica Rice Hybrids. Plant physiology, 3 (3): 1319-1328.
[8] Li L. Y. (2019). Chinese scientists successfully cloned hybrid rice seeds [J]. Agricultural Engine, 9 (2): 1-1.
[9] Liao, F. M., Zhou, K. L., Yang, H. H., Xu, Q. H. (1998). Genetic Difference of Parents and Its Relation to Heterosis in Hybrid Rice [J]. Chinese journal of rice science, 12 (4): 193-199.
[10] Lu, B. R., Cai, X. X., Jin, X. (2009). The method of highly efficient molecular identification and its signidicance for researching of Indica and Japonica rice breeding and evolution. Advances in natural Science, 19 (6): 628-638.
[11] Murray, M., Thompson, W. F. (1980). Rapid isolateon of high moleculer weight plant DNA. Nucleic Acids Research, 8: 4321-4325.
[12] Nie, Y. B., Ji, W. Q., Ma, S. M. (2019). Songmei Ma. Assessment of Heterosis Based on Genetic DistanceEstimated Using SNP in Common Wheat. Agronomy, 9 (2), 66-75.
[13] Pavani, M., Sundaram, R. M., Ramesha, M. S., Kavi Kishor, P. B., Kemparaju, K. B. (2018). Prediction of heterosis in rice based on divergence of morphological and molecular markers. Journal of Genetics, 97 (5): 1263–1279. https://link.springer.com/article/10.1007/s12041-018-1023-8.
[14] Phetmanyseng, Xangsayasane, Xie, F. M., Jose E., Hernandez, Teresita H., Boirromeo. (2010). Hybrid rice heterosis and genetic diversity of IRRI and Lao rice [J]. Field Crops Research, 117: 18-23.
[15] Rohlf, F. J. (1998) Numerical taxonomy and multivariate analysis system, version 2.0. NTSYS-pc 2.1.
[16] Sahu P. K, Mondal S., Sharma D., Vishwakarma G., Kumar V., Das B. K. (2017). InDel marker based genetic differentiation and genetic diversity in traditional rice (Oryza sativa L.) landrace of Chhattisgarh, India. PLoS One, 12: e0188864.
[17] Song, Z. P., Xu, X., Wang, B., Chen, J. K. Lu, B. R. (2003). Genetic diversity in the northernmost Oryza rufipogon populations estimated by SSR markers. Theoretical and applied genetics, 107: 1492-1449.
[18] Tang Q. Y. (2007). DPS data processing system: experiment design, statistical analysis and data mining [M]. Science Press.
[19] Vikas, K. S., Priti, U., Pallavi, S., Ashish, K. M., Ranjith, K. E., Atul, S., Sanjay, K. J., Sunil, B., Ramakrishna, S., Sundaram, R. M., Ilyas, A., Viraktamath, B. C., Kole, C., Sukhpal, S. (2011). Prediction of hybrid performance based on the genetic distance of parental lines in two-line rice (Oryza satival) hybrids. Journal of Crop Science & Biotechnology, 14 (1): 1-10.
[20] Wang, L. Y., Zhang, L. X., Gou, X. X., Fan, H. H., Jin, Q. H., Wang, J. J. (2014). Identification of indica-japonic attribute and prediction of heterosis of Zheyou hybrids rice using InDel molecular markers. Scientia Agricultura Sinica, 47: 1243-1255.
[21] Wang, Y. H., Cai, Q. H, Xie, H. G., Wu, F. G, Lian, L. L,, He, W. L., Chen, L. P., Xie, H. A., Zhang J. F. (2018). Determination of Heterotic Groups and Heterosis Analysis of Yield Performance in indica Rice. Rice Science, 25 (05): 31-40.
[22] Wei S. B., Li X., Lu Z. F., Zhang H., Ye X. Y., Zhou Y. J., Li J., Yan Y. Y., Pei H. C., Duan F. Y., Wang D. Y., Chen S., Wang P., Zhang C., Shang L. G., Zhou, Yan P., Zhao M., Huang J. R., Bock R., Qian Q., Zhou W. B. (2022). A transcriptional regulator that boosts grain yields and shortens the growth duration of rice. Science. 377, 382-383.
[23] Xu J. f., Wang, L. Y. (1980), Heterosis in rice and. genetic distance. Hunan Agricultural Sciences, (6): 11-15.
[24] Yang, J., Wang, J., Cao, Q., Chen, Z. D., and Zhong, W. G. (2009). Development and application of a functional marker for wide compatibility gene s5-n of rice. Acta Agronomica Sinica, (11): 2000-2007.
[25] Yu, Y. H., Liu, Y., Li, Z. Y., Chen, G. H., Xu, Z. J., Tang, L., Mao, T., Xu, H. (2016). Relationship between Indica-Japonica Index of Parents and Heterosis of Hybrid and Its Genetic Basis in Japonica Two Line Hybrid Rice. Acta Agronomica Sinica, 42 (5): 648-657.
[26] Yuan L. P. (2016) Research and development of Hybrid rice in China [J]. Science & Technology Review, 34 (20): 64–65.
[27] Zhai, R. R., Feng, Y., Wang, H. M., Wang, X. D., Zhan, X. H., Shen, W. M., Zhang Y. X., Chen D. B., Dai G. X., Yang Z. L, Cao L. Y., Cheng S. H. (2013) Transcriptome analysis of rice root heterosis by RNA-Seq. BMC Genomics, 14, 19. https://doi.org/10.1186/1471-2164-14-19.
[28] Zhang, T., Han, L., Xu, J. D., Jiang, K. F., Wu, X. J., Wang, X. D., Zheng, J. K. (2006). Correlation Between Genetic Distance and Yield Heterosis of Hybrid Aromatic Rice [J]. Scientia Agricultura Sinica, 39 (04): 831-835.
[29] Zhao, Q. Y., Zhu, Z., Zhang, Y. D, Zhao, L., Chen, T., Zhang, Q. F., Wang, C. L. (2009). Analysis on Correlation Between Heterosis and Genetic Distance Based on Simple Sequence Repeat Markers in japonica Rice. Chinese journal of rice science, 23 (2): 141-147.
[30] Zhao, X. Y., Ye, S. H., Li, X. H., Zhai, R. G., Yu, P., Jin, Q. S., Zhang, X. M. (2015). Identification of indica-japonica attribute and prediction of heterosis using InDel markers in rice. Acta Agriculturae Zhe jiangensis, 27 (8): 1309-1316.
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  • APA Style

    Xudong Zhu, Xueli Tang, Ju Zhao, Feng Wang, Qingming Zhou, et al. (2023). The Relation Between InDel Genetic Distance and Heterosis in Rice. Plant, 11(1), 11-20. https://doi.org/10.11648/j.plant.20231101.12

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    ACS Style

    Xudong Zhu; Xueli Tang; Ju Zhao; Feng Wang; Qingming Zhou, et al. The Relation Between InDel Genetic Distance and Heterosis in Rice. Plant. 2023, 11(1), 11-20. doi: 10.11648/j.plant.20231101.12

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    AMA Style

    Xudong Zhu, Xueli Tang, Ju Zhao, Feng Wang, Qingming Zhou, et al. The Relation Between InDel Genetic Distance and Heterosis in Rice. Plant. 2023;11(1):11-20. doi: 10.11648/j.plant.20231101.12

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  • @article{10.11648/j.plant.20231101.12,
      author = {Xudong Zhu and Xueli Tang and Ju Zhao and Feng Wang and Qingming Zhou and Zhonghua Zhou},
      title = {The Relation Between InDel Genetic Distance and Heterosis in Rice},
      journal = {Plant},
      volume = {11},
      number = {1},
      pages = {11-20},
      doi = {10.11648/j.plant.20231101.12},
      url = {https://doi.org/10.11648/j.plant.20231101.12},
      eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.plant.20231101.12},
      abstract = {Heterosis is a common phenomenon in plant species, which has been extensively utilized in different crops. Genetic distance is one of important basis for selecting parents in hybrid breeding. There is a relation between the genetic distance and heterosis and hybrid rice combinations usually show a stronger heterosis with larger genetic distance between parental lines. In this study, 160 hybrid rice combinations were made by incomplete duallel cross using 10 sterile lines and 16 self-bred restorer lines. Moreover, the indica-japonica gene frequencies of 26 lines were identified by 20 pairs of the InDel markers. The relationships between the InDel genetic distance and the phenotype heterosis were analyzed. Here, the results showed that the InDel genetic distance between parents could be used to predict phenotype value of effective panicle per plant and control heterosis of yield per plant and seed setting rate of the tested rice combinations. The optimal distance between the parents was in the interval 0.1-0.55 for the control heterosis of several main yield traits including effective panicle per plant, filled grains per panicle and yield per plant of combinations. The present result will provide a useful reference for hybrid rice parents selection in breeding.},
     year = {2023}
    }
    

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  • TY  - JOUR
    T1  - The Relation Between InDel Genetic Distance and Heterosis in Rice
    AU  - Xudong Zhu
    AU  - Xueli Tang
    AU  - Ju Zhao
    AU  - Feng Wang
    AU  - Qingming Zhou
    AU  - Zhonghua Zhou
    Y1  - 2023/01/30
    PY  - 2023
    N1  - https://doi.org/10.11648/j.plant.20231101.12
    DO  - 10.11648/j.plant.20231101.12
    T2  - Plant
    JF  - Plant
    JO  - Plant
    SP  - 11
    EP  - 20
    PB  - Science Publishing Group
    SN  - 2331-0677
    UR  - https://doi.org/10.11648/j.plant.20231101.12
    AB  - Heterosis is a common phenomenon in plant species, which has been extensively utilized in different crops. Genetic distance is one of important basis for selecting parents in hybrid breeding. There is a relation between the genetic distance and heterosis and hybrid rice combinations usually show a stronger heterosis with larger genetic distance between parental lines. In this study, 160 hybrid rice combinations were made by incomplete duallel cross using 10 sterile lines and 16 self-bred restorer lines. Moreover, the indica-japonica gene frequencies of 26 lines were identified by 20 pairs of the InDel markers. The relationships between the InDel genetic distance and the phenotype heterosis were analyzed. Here, the results showed that the InDel genetic distance between parents could be used to predict phenotype value of effective panicle per plant and control heterosis of yield per plant and seed setting rate of the tested rice combinations. The optimal distance between the parents was in the interval 0.1-0.55 for the control heterosis of several main yield traits including effective panicle per plant, filled grains per panicle and yield per plant of combinations. The present result will provide a useful reference for hybrid rice parents selection in breeding.
    VL  - 11
    IS  - 1
    ER  - 

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Author Information
  • College of Agronomy, Hunan Agricultural University, Changsha, P.R. China

  • Agricultural and Rural Bureau, Hengshan County, Hengyang, P.R. China

  • College of Agronomy, Hunan Agricultural University, Changsha, P.R. China

  • College of Agronomy, Hunan Agricultural University, Changsha, P.R. China

  • College of Agronomy, Hunan Agricultural University, Changsha, P.R. China

  • College of Agronomy, Hunan Agricultural University, Changsha, P.R. China

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