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Genetic diversity analysis of Indonesian rice germplasm (Oryza sativa L.) with simple sequence repeat markers

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dc.contributor.authorPuspito, A.N.
dc.contributor.authorNabilah, S.
dc.contributor.authorImam Buqori, D.M.A.
dc.contributor.authorHartatik, S.
dc.contributor.authorKim, Kyung-Min
dc.contributor.authorUbaidillah, M.
dc.date.accessioned2022-08-22T07:51:29Z
dc.date.available2022-08-22T07:51:29Z
dc.date.issued2022
dc.descriptionReceived: April 5th, 2022 ; Accepted: July 20th, 2022 ; Published: August 18th, 2022 ; Correspondence: moh.ubaidillah.pasca@unej.ac.ideng
dc.description.abstractThe characterization of germplasm provides information on the regional rice genetic diversity and variety kinship classification. This study aimed to provide information on the agromorphological traits and genetic diversity of fifty local rice varieties from Java and Borneo Island in Indonesia. The variability of thirteen agronomic traits showed the differentiation among t he accessions, while the phenotypic traits were grouped into six clusters. The genotyping characterization was conducted using SSR (Simple Sequence Repeats) markers (22 microsatellites), and continued with genetic diversity and Polymorphism Information Content (PIC) analysis. The agro-morphological clustering based on Ward’s Hierarchical constructed six sub-clusters. The PC1 and PC2 had 86.3% of the total percentage. The UPGMA method was used to construct six different groupings, as the correlation between each group and its collecting source was significant. Furthermore, the UPGMA dendrogram clustered the 50 accessions into six main clusters, while the PIC showed a polymorphism value range of 0.41–0.74. RM162 located on chromosome 5, which was considered as the best marker for fifty-one genotypes. At the same time, the lowest PIC value of 0.41 was observed in RM431 located in chromosome 1. This classification can be helpful as a detailed information for plant breeders to characterize and select the germplasm, while conducting backcrosses between rice accessions.eng
dc.identifier.issn2228-4907
dc.identifier.publicationAgronomy Research, 2022, vol. 20, Special Issue 1, pp. 1104–1116eng
dc.identifier.urihttp://hdl.handle.net/10492/7744
dc.identifier.urihttps://doi.org/10.15159/ar.22.050
dc.publisherEstonian University of Life Scienceseng
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) ; openAccesseng
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/
dc.subjectagro-morphologicaleng
dc.subjectdiversityeng
dc.subjectgermplasmeng
dc.subjectriceeng
dc.subjectSSReng
dc.subjectarticleseng
dc.titleGenetic diversity analysis of Indonesian rice germplasm (Oryza sativa L.) with simple sequence repeat markerseng
dc.typeArticleeng

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2022, Vol. 20, Special Issue 1