Skip to main navigation menu Skip to main content Skip to site footer

Research Articles

Vol. 13 No. 3 (2026)

Genetic divergence and principle component analysis study for yield and cooking quality attributing traits in rice (Oryza sativa L.)

DOI
https://doi.org/10.14719/pst.13281
Submitted
19 December 2025
Published
23-06-2026 — Updated on 01-07-2026
Versions

Abstract

Rice (Oryza sativa L.) is a staple cereal crop with significant importance, for its wide variation and taste on consumer preferences across the world. Despite the wide genetic variation available, the crop continues to face several challenges from biotic and abiotic stresses. Therefore, sustained efforts are required to harness the existing genetic variability through selection for further improvement. So, a study was conducted during the kharif season of 2024 at the Post Graduate Research Farm of Centurion University of Technology and Management, Odisha, to evaluate 45 rice genotypes using randomized complete block design with 3 replications. The cluster analysis through Mahalanobis D2 study revealed maximum inter-cluster distances were between cluster V and VII (PB 1886 × Motia saru and PB 1121 × Bygon manjira) indicates genotypes belonging to this cluster can be taken into consideration for the hybridisation programme. The study further revealed number of filled grains per panicle contributing the maximum (10.90 %) towards total diversity. Principal component study revealed PC1 found with the highest eigenvalue (5.50) among all, contributing 25.01 % of the total variance. Important characters such as grain length, grain l:b ratio, kernel length and kernel length after cooking revealed positive weightage towards the first principal component. The biplot constituted with first two PCs with a cumulative variance of 38.3 %, representing a robust approximation for understanding the impact of trait on yield and their inter similarity. The rice germplasm can be utilised for characters such as grain length; it can be emphasised for superior transgressive segregants.

References

  1. 1. Vaughan DA, Morishima H, Kadowaki K. Diversity in the Oryza genus. Curr Opin Plant Biol. 2003;6(2):139–46. https://doi.org/10.1016/S1369-5266(03)00009-8
  2. 2. Department of Agriculture, Cooperation and Farmers Welfare. Agriculture at a Glance 2023–24. Ministry of Agriculture and Farmers Welfare, Government of India; 2024.
  3. 3. Ramachary P, Lal GM, Lavanya GR, Hemanth CS. Genetic variability and association of rice (Oryza sativa L.) for yield and yield components. Int J Plant Soil Sci. 2022;34(22):813–22. https://doi.org/10.9734/ijpss/2022/v34i2231438
  4. 4. Khush GS. Origin, dispersal, cultivation and variation of rice. Plant Mol Biol. 1997;35:25–34. https://doi.org/10.1023/A:1005810616885
  5. 5. Dhurai SY, Bhati PK, Saroj SK. Studies on genetic variability for yield and quality characters in rice (Oryza sativa L.) under integrated fertilizer management. Bioscan. 2014;9(2):745–48.
  6. 6. Nagaraju B, Basavaraj K, Gireesh C, Sasipriya S. Variability parameters, correlation studies and path analysis of yield and yield-related traits in rice (Oryza sativa L.): A comprehensive review. Int J Environ Clim Change. 2023;13(11):2015–22. https://doi.org/10.9734/ijecc/2023/v13i113360
  7. 7. Liu M, Fan F, He S. Creation of elite rice with high-yield, superior-quality and high resistance to brown planthopper based on molecular design. Rice. 2022;15(17). https://doi.org/10.1186/s12284-022-00563-7
  8. 8. Durbha SR, Siromani N, Jaldhani V. Dynamics of starch formation and gene expression during grain filling and its possible influence on grain quality. Sci Rep. 2024;14:6743. https://doi.org/10.1038/s41598-024-57010-4
  9. 9. Champagne ET, Bett-Garber KL, Fitzgerald MA, Grimm CC, Lea J, Ohtsubo K, et al. Sensory characteristics of diverse rice cultivars as influenced by genetic and environmental factors. Cereal Chem. 2004;81:237–43.
  10. 10. Mahalanobis PC. A statistical study at Chinese head measurement. J Asiatic Soc Bengal. 1928;25:301–07.
  11. 11. Banfield CF. Multivariate analysis in genstat. J Stat Comput Simul. 1978;6(3-4):211–22. https://doi.org/10.1080/00949657808810190
  12. 12. Rao CR. Advanced Statistical Methods in Biometrical Research. New York: John Wiley & Sons; 1952.
  13. 13. Singh RK, Chaudhary BD. Biometrical Methods in Quantitative Genetic Analysis. New Delhi: Kalyani Publishers; 1977.
  14. 14. Talekar SC, Praveena MV, Satish RG. Genetic diversity using principal component analysis and hierarchical cluster analysis in rice. Int J Plant Sci. 2022;17(2):191–96. https://doi.org/10.15740/HAS/IJPS/17.2/191-196
  15. 15. Barhate KK, Jadhav MS, Bhavsar VV. Genetic diversity analysis in aromatic lines of rice (Oryza sativa L.). J Pharmacogn Phytochem. 2021;10(3):367–70.
  16. 16. Pavankumar R, Lavanaya GR, Taranum SA, Bishnoi R, Krishna BJS. Genetic diversity analysis for economic traits in advance breeding lines of upland rice (Oryza sativa L.) germplasm. J Cereal Res. 2022;14(3):258–67. https://doi.org/10.25174/2582-2675/2022/131250
  17. 17. Rao MS, Rao MS, Ahamed ML, Babu PR. Genetic divergence studies on yield and attributing traits in rice (Oryza sativa L.). Int J Genet. 2020;12(10):776–78. https://doi.org/10.20546/ijcmas.2019.806.189
  18. 18. Salunkhe H, Kumar A, Krishna B, Talekar N, Pawar P. Genetic diversity and principal component analysis for yield and its component trait in rice. Biol Forum Int J. 2023;15(5a):102–07.
  19. 19. Roy A, Rout S, Hijam L, Sadhu S, Pavithra S, Ghosh A, et al. Multivariate genetic analyses unveil the complexity of grain yield and attributing traits diversity in Oryza sativa L. landraces from north-eastern India. Plant Sci Today. 2024;11(2):29–37. https://doi.org/10.14719/pst.2500
  20. 20. Paramanik S, Rao MS, Chaurasia NK, Pati S, Gupta VK. Genetic divergence in rice (Oryza sativa L.) germplasms based on agro-morphological traits using multivariate analysis. Agric Sci Digest. 2025;1–9. https://doi.org/10.18805/ag.D-6302
  21. 21. Kumari S, Singh PK, Bisen P, Loitongbam B, Rai VP, Sinha B. Genetic diversity analysis of rice (Oryza sativa L.) germplasm through morphological markers. Int J Agric Environ Bioresearch. 2018:953–57.
  22. 22. Lahari G, Dushyanthakumar BM, Jagadeesh GB, Nishanth GK, Raghavendra P. Assessment of genetic diversity of rice genotypes for submergence tolerance in rainfed lowlands. Int J Curr Microbiol Appl Sci. 2017;6(11):2149–54. https://doi.org/10.20546/ijcmas.2017.611.253
  23. 23. Wang XQ, Pang YL, Zhang J, Wu ZC, Chen K, Ali J, et al. Genome-wide and gene-based association mapping for rice eating and cooking characteristics and protein content. Sci Rep. 2017;7(1):17203. https://doi.org/10.1038/s41598-017-17347-5
  24. 24. Roy A, Hijam L, Rout S. Diversity analysis for cooking quality traits in north-east Indian rice landraces. Oryza. 2023;60(3):388–96. https://doi.org/10.35709/ory.2023.60.3.2
  25. 25. Balasubramanian M, Vennila S. Comprehensive evaluation of rice genotypes for salt tolerance: in vitro screening, association studies and principal component analysis. Environ Ecol. 2024;42(4A):1677–87. https://doi.org/10.60151/envec/ZANZ3740
  26. 26. Gour L, Maurya SB, Koutu GK, Singh SK, Shukla SS, Mishra DK. Characterization of rice (Oryza sativa L.) genotypes using principal component analysis including scree plot and rotated component matrix. Int J Chem Stud. 2017;5(4):975–83.
  27. 27. Chandraker P, Sharma B, Parikh M, Saxena RR. Assessment of genetic diversity in aromatic short grain rice (Oryza sativa L.) genotypes using PCA and cluster analysis. Int J Plant Soil Sci. 2024;36(5):82–94. https://doi.org/10.9734/ijpss/2024/v36i54504
  28. 28. Hasibuzzaman ASM, Islam MM, Begum SN, Parves M, Rani MH. Evaluation of morphological diversity in rice lines through multivariate analysis. J Agrofor Environ. 2024;17(2):145–51. https://doi.org/10.55706/jae1730
  29. 29. Tiwari DN, Pandey MP, Manandhar HK, Bhusal TN. Genotype by environment interaction using AMMI, GGE biplot and multivariate analysis of Nepalese aromatic rice landraces. Agron J Nepal. 2024;8(1):34–51. https://doi.org/10.3126/ajn.v8i1.70767

Downloads

Download data is not yet available.