Morphometric Analysis for Intraspecific Diversity of Oryza sativa cv. ‘Shamim’ Populations (Morphotypes) from Southern Iran

Document Type : Research Article

Authors

1 Science and Research Branch, Islamic Azad University, Tehran, Iran

2 Seed and Plant Improvement Institute, Agricultural Research, Education and Extension Organization, Karaj, Iran

10.22080/jgr.2026.30588.1452

Abstract

Understanding morphometric diversity in rice (Oryza sativa L.) is essential for improving genetic resources, enhancing breeding efficiency, and supporting conservation strategies. This study examines intraspecific and inter-population morphological variation in Oryza sativa cv. “Shamim” from 15 populations across southern Iran, in Fars (Rostam) and Kohgiluyeh and Boyer-Ahmad (Basht) regions. A total of 150 specimens (10 per population) were sampled in mid-November, with whole plants collected as herbarium vouchers. Fourteen quantitative traits, spikelet number, seed weight, awn length, panicle traits, culm length, blade dimensions, plant height, internode metrics, grain length, and width, plus eight qualitative traits, were measured using standard procedures. Habitat factors like altitude, soil pH, and electrical conductivity varied significantly, driving phenotypic differences. Correlation analyses showed strong links among traits: spikelet number positively correlated with ligule length, culm length, blade length, plant height, panicle length, and weight; awn length negatively correlated with internode number. The strongest correlation was between culm and plant height, indicating integrated stature. PCA and UPGMA clustering grouped the 15 populations into four clusters: first (P02, P10, P07, P03, P04, P12, P01, P13) with low genetic distance; second (P05, P09, P06, P15, P08); and independent (P14, P11) showing greater divergence. Key differentiating traits included spikelet number, seed and panicle weight, awn and panicle length, glume length, culm and blade dimensions, plant height, internode number, and grain attributes. Results highlight substantial diversity in Iranian “Shamim” populations, likely due to environmental variation and adaptation. These findings aid in selecting divergent parents for breeding to boost yield, adaptability, and conserve local rice resources.

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References

Aesomnuk, W., Ruengphayak, S., Ruanjaichon, V., Sreewongchai, T., Malumpong, C., Vanavichit, A., ... & Arikit, S. (2021). Estimation of the genetic diversity and population structure of Thailand’s rice landraces using SNP markers. Agronom, 11(5), 995. https://doi.org/10.3390/agronomy11050995
Ahmed, F., Rahman, M., & Choudhury, M. (2023). Morphometric characterization and correlation analysis of rice (Oryza sativa L.) under diverse agro-climatic conditions. Rice Science, 30(2), 140-152. https://doi.org/10.1016/j.rsci.2023.01.005
Badu-Apraku, B., Garcia-Oliveira, A.L., Petroli, C.D., Hearne, S., Adewale, S.A. & Gedil, M. (2021). Genetic diversity and population structure of early and extra-early maturing maize germplasm adapted to sub-Saharan Africa. BMC Plant Biology, 21(1), 1-5. https://doi.org/10.1186/s12870-021-02829-6
Barry, M. B., Pham, J. L., Noyer, J. L., Courtois, B., Billot, C., & Ahmadi, N. (2007). Implications for in situ genetic resource conservation from the ecogeographical distribution of rice genetic diversity in Maritime Guinea. Plant Genetic Resources, 5(1), 45-54.‏ https://doi.org/10.1017/S1479262107390898
Begna, T., & Begna, T. (2021). Role and economic importance of crop genetic diversity in food security. International Journal of Agricultural Science and Food Technology, 7(1) 164-169. https://doi.org/10.17352/2455-815X.000104
Farahzadi, F., Ebrahimi, A., Zarrinnia, V., & Azizinezhad, R. (2020). Evaluation of genetic diversity in Iranian rice (Oryza Sativa) cultivars for resistance to blast disease using microsatellite (SSR) markers. Agricultural Research, 9(4), 460-468. https://doi.org/10.1007/s40003-019-00447-1
Garris, A. J., Tai, T. H., Coburn, J., Kresovich, S., & McCouch, S. (2005). Genetic structure and diversity in Oryza sativa L. Genetics, 169(3), 1631-1638.‏ https://doi.org/10.1534/genetics.104.035642
Jeke, E., Mzengeza, T., Kyung-Ho, K., & Imani, C. (2021). Correlation and path coefficient analysis of yield and component traits of KAFACI doubled haploid Rice (Oryza sativa L) Genotypes in Malawi. International Journal of Agriculture and Technology, 1(2), 1-9.‏ https://doi.org/10.33425/2770-2928.1005
Khazaie, L., Shirzadian-Khorramabad, R., Ebadi, A. A., & Moumeni, A. (2024). Genetic diversity and population structure in Hashemi rice (Oryza sativa L.) mutants revealed by morphological and molecular markers. Journal of Agricultural Science and Technology, 26(3), 607-622.‏ https://jast.modares.ac.ir/
Konak, M. A., Hasancebi, S., & Beser, N. (2021). Morphological and molecular evaluation of Turkish rice (Oryza sativa L.) landraces. Genetic Resources and Crop Evolution, 68(6), 2367-2377. http://doi.org/10.1007/s10722-021-01135-2
Kumar, P., Singh, G., Prasad, B. K., & Kumar, R. (2022). Correlation analysis for yield and quality contributing characters involved in rice (Oryza sativa L.) genotypes. International Journal of Applied Research, 8(1), 135-141.‏ www.allresearchjournal.com
Lasalita-Zapico, F. C., Namocatcat, J. A., & Cariño-Turner, J. L. (2010). Genetic diversity analysis of traditional upland rice cultivars in Kihan, Malapatan, Sarangani Province, Philippines using morphometric markers. Philippine Journal of Science, 139(2), 177-180.‏ https://philjournalsci.dost.gov.ph/
Lin, H. I., Yu, Y. Y., Wen, F. I., & Liu, P. T. (2022). Status of food security in East and Southeast Asia and challenges of climate change. Climate, 10(3), 40.‏ https://doi.org/10.3390/cli10030040
Liu, Y., Wang, H., Jiang, Z., Wang, W., Xu, R., Wang, Q., ... & Chu, C. (2021). Genomic basis of geographical adaptation to soil nitrogen in rice. Nature, 590(7847), 600-605.‏ https://doi.org/10.1038/s41586-020-03091-w
Roy, D., Chakraborty, G., Biswas, A., & Sarkar, P. K. (2021). Antixenosis, tolerance and genetic analysis of some rice landraces for resistance to Nilaparvata lugens (Stal.). Journal of Asia-Pacific Entomology, 24(1), 448-460.‏ https://doi.org/10.1016/j.aspen.2020.10.012
Roy, S., Banerjee, A., Mawkhlieng, B., Misra, A. K., Pattanayak, A., Harish, G. D., ... & Bansal, K. C. (2015). Genetic diversity and population structure in aromatic and quality rice (Oryza sativa L.) landraces from North-Eastern India. PloS One, 10(6), e0129607.‏ https://doi.org/10.1371/journal.pone.0129607
Safiedin, A. S. M., Azizi, N. R., Saadatmand, S., Ahmadvand, R., & Mehregan, I. (2024). Investigation of the morphometric diversity of Ali Kazemi Rice in Iran.‏ Journal of Genetic Resources, 10(2), 131-142 https://doi.org/10.22080/jgr.2024.27293.1394
Shrivastav, S. P., & Verma, O. P. (2023). Correlation and path coefficients analysis for yield and its contributing traits in rice (Oryza sativa L.) under Sodic Soil. Journal of Rice Research, 16(1), 32-40.‏ https://doi.org/10.58297/GQOK7001
Thomson, M. J., Polato, N. R., Prasetiyono, J., Trijatmiko, K. R., Silitonga, T. S., & McCouch, S. R. (2009). Genetic diversity of isolated populations of Indonesian landraces of rice (Oryza sativa L.) collected in East Kalimantan on the island of Borneo. Rice, 2(1), 80-92.‏ https://doi.org/10.1007/s12284-009-9023-1
Xu, X., LU, B. R., Chen, Y. H., Xu, M., Rong, J., Ye, P., ... & Song, Z. (2006). Inferring population history from fine‐scale spatial genetic analysis in Oryza rufipogon (Poaceae). Molecular Ecology, 15(6), 1535-1544.‏ https://doi.org/10.1111/j.1365-294x.2006.02870.x
Yang, X., Lu, X., Xie, P., Guo, Z., Fang, H., Fu, H., ... & Cen, H. (2024). PanicleNeRF: low-cost, high-precision in-field phenotyping of rice panicles with smartphone. Plant Phenomics, 6, 0279.‏ https://doi.org/10.34133/plantphenomics.0279
Zare, S., Nazarian-Firouzabadi, F., Ismaili, A., & Pakniyat, H. (2019). Identification of miRNAs and evaluation of candidate genes expression profile associated with drought stress in barley. Plant Gene, 20, 100205.‏ https://doi.org/10.1016/j.plgene.2019.100205
Zhang, P., Li, J., Li, X., Liu, X., Zhao, X. and Lu, Y., (2011). Population structure and genetic diversity in a rice core collection (Oryza sativa L.) investigated with SSR markers. PloS One, 6(12), 27565. https://doi.org/10.1371/journal.pone.0027565
Journal of Genetic Resources
Volume 11, Issue 2
2025
Pages 260-268

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