Claim · model-written summary
Phylogenetic clustering separated the genotypes into two to three subpopulations, partly corresponding to grain type and inferred subspecies background.
- Taxon
- rice
Oryza sativat0 - Outcome
- Phylogenetic clustering separated the genotypes into two to three subpopulationse0
Not reportedMaterialGeneCompoundOrgan / stageInteractorInteractor roleSecond interactorSecond interactor roleTreatmentComparatorSettingDirectionValueQualifier
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
t0“rice varieties”
e0“Phylogenetic clustering separated the genotypes into two to three subpopulations, which partly corresponded to grain type and inferred subspecies background”
Title
Reflinur Reflinur; Adin Heriyan Nugroho; Zidni Muflikhati; et al. Journal of Genetic Engineering and Biotechnology 2026. doi:10.1016/j.jgeb.2026.100661
Other claims from this paper (18)
- Observation The 82 improved Indonesian rice varieties showed significant variation in grain length, width and thickness.
- Observation Principal component analysis condensed the four grain traits into two axes explaining 94.4% of variance.
- Observation Principal component analysis separated the genotypes into three clusters largely corresponding to indica and japonica types.
- Observation Across 32 markers, 157 alleles were detected in the rice varieties.
- Observation Average gene diversity (He) was 0.30 with SSR markers.
- Observation Average gene diversity (He) was 0.29 with SS-STS markers.
- Observation Average gene diversity (He) was 0.22 with SCoT markers.
- Observation Polymorphic information content was generally low.
- Observation SS-STS markers showed fixation of indica-type alleles, consistent with the major varieties IR64 and Ciherang.
- Observation Rare alleles were scarce, at 1.1-1.5 per locus.
- Observation SCoT markers generated 8.5 bands per locus.
- Observation Heterozygosity remained low, at 0.005-0.010.
- Observation AMOVA showed 90-91% of the genetic variation was distributed within subpopulations.
- Observation Only 5-8% of the genetic variation was explained by differences among subpopulations.
- Observation Population structure was weak, with FST of 0.055 for SSR and 0.084 for SS-STS.
- Observation STRUCTURE analysis inferred different numbers of subpopulations for each marker type (K = 7 for SS-STS, K = 2 for SSR, K = 4 for SCoT).
- Observation The authors conclude molecular diversity is limited despite phenotypic variation, suggesting genetic narrowing from repeated use of closely related parental lines in breeding.
- Recommendation Broader germplasm, including landraces and wild relatives, is essential for future rice breeding.