Development of coreset of aromatic rice (Oryza sativa L. Indica) based on molecular and morphological diversity

P, Sathish Kumar; R, Praveen Kumar; Maddala, Srsc Sekhar; D, Sanjeeva Rao; Sundaram, R. M.; S, Gopala Krishnan; Singh, Ashok Kumar; Singh, Kuldeep; Lv, Subba Rao; N, Shobha Rani; Maganti, Sheshu Madhav

doi:10.1007/s10722-020-01074-4

Cited by 4 publications

(1 citation statement)

References 38 publications

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“…Phenotypic characterization of aromatic rice landraces is crucial for their effective utilization in the breeding programs. Rice landraces have numerous distinguishable morphological features such as plant height, panicle type, grain size and shape, and husk color, which have been utilized for the characterization of germplasm and development of core collection in rice (P. S. Kumar et al., 2021; Prasad et al., 2020; Surje et al., 2022). The phenotypic traits have been utilized for diversity analysis in aromatic rice germplasm by many researchers (Gowda et al., 2019; Mathure et al., 2011; Mishra et al., 2019; S. Roy et al., 2016).…”

Section: Introductionmentioning

confidence: 99%

Aromatic rice (Oryza sativa L.) landraces of Indo‐Gangetic Plains of India harbor rich genetic diversity

Bairwa,

Yadav,

Tiwari

et al. 2024

Crop Science

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Aromatic rice (Oryza sativa L.) germplasm conserved in global genebanks needs intensive characterization to assess genetic diversity and population structure for crop improvement. We analyzed a panel of 92 accessions of non‐Basmati aromatic rice landrace germplasm with 23 phenotypic traits and 48 microsatellite markers. The landrace accessions displayed a huge phenotypic diversity for traits, namely, culm length, flag‐leaf length, panicle‐bearing tillers (PBT), plant height, panicle length, peduncle length, panicle exsertion, grain length, grain width, hull color, and 1000‐grain weight (TGW). Phenotypic clustering revealed three major clusters and five principal components explained 81.24% of the variance. TGW was associated positively with grain length, grain width, peduncle length, and grain yield but negatively with culm length and PBT. A total of 528 microsatellite alleles were detected, with 11.0 alleles per locus, revealing the presence of high polymorphism. Genetically, four subpopulations were detected based on structure analysis. In the germplasm, high levels of gene flow (Nm = 1.51) and gene diversity (HE = 0.83) were found. Among the subpopulations, we discovered high levels of inbreeding (FIS = 0.92) and moderate genetic differentiation (FST = 0.14). High polymorphism information content (0.806) along with a high level of molecular variance among genotypes (79%) was detected. A large number of multiple alleles were detected in numerous landrace accessions, revealing the presence of heterogeneity and heterozygotes in the landrace germplasm. The results of the present study are vital for the utilization of landrace diversity in the genetic improvement programs designed for rice quality improvement and consumer preference.

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Section: Introductionmentioning

confidence: 99%

Aromatic rice (Oryza sativa L.) landraces of Indo‐Gangetic Plains of India harbor rich genetic diversity

Bairwa,

Yadav,

Tiwari

et al. 2024

Crop Science

View full text Add to dashboard Cite

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Population structure and genetic differentiation analyses reveal high level of diversity and allelic richness in crop wild relatives of AA genome species of rice (Oryza sativa L.) in India

Mahendran,

Yadav,

Tiwari

et al. 2023

J Appl Genetics

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With a view to explore genetic diversity in crop wild relatives of AA-genome species of rice (Oryza sativa L.) in India, we analyzed 96 accessions of 10 Oryza species for 17 quantitative traits with 45 microsatellite markers. The morpho-quantitative traits revealed high extent of phenotypic variation within and between species. Shannon-Weiner's diversity index (H′) also con rmed the presence of high level of genetic variation for both within species, in O. nivara (H′=1.09) and O. ru pogon (H′=1.12), and between species (H′=1.31). Principal component (PC) analysis explained 79.22% variance with ve PCs. Among the traits related to phenology, morphology and yield, days to heading showed strong positive association with days to 50% owering (r = 0.99). However, lled grains per panicle revealed positive association with spikelet fertility (0.71) but negative with awn length (-0.58) and panicle bearing tillers (-0.39). Cluster analysis grouped all the accessions into three major clusters. Microsatellite analysis revealed 676 alleles with mean of 15.02 alleles per locus and 0.83 mean polymorphism information content. UPGMA dendrogram separated wild rice accessions at 0.10 similarity value and delineated 96 accessions into four major clusters. Structure analysis revealed four subpopulations; rst and second subpopulations comprised only of O. nivara accessions, while third subpopulation included both O. nivara and O. ru pogon accessions. Molecular variance among the populations was 11.0%, whereas it was 70.0% among genotypes and 19.0% within genotypes. The high level of molecular and morphological variability detected in the germplasm of crop wild relatives could be utilized for genetic improvement of cultivated rice.

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Overview of developed core and mini core collections and their effective utilization in cultivated rice and its related species (Oryza sp.)—A review

et al. 2022

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Genus Oryza consists of two cultivated and 21 related wild species. Cultivated rice is not only the staple food of the majority of the countries in the world, but it also serves as a model crop for genomic studies. The rice germplasm is conserved in different gene banks around the world, which can be accessed for plant breeding programmes aiming to improve rice varieties. However, the ever‐increasing number of accessions poses problem of the phenotypic and genotypic characterization of the germplasm. Therefore, to speed up characterization and utilization of germplasm, the concept of core collection (~10–20% of total base collection) was developed which provides maximum diversity in limited number of accessions. Similarly, a mini core collection (~1–2% of the entire collection) is constructed retaining maximum diversity to provide wider genetic coverage in manageable numbers. The present review summarizes the current information on different core and mini core sets developed for varied purposes from world rice collections using different strategies.

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Development of coreset of aromatic rice (Oryza sativa L. Indica) based on molecular and morphological diversity

Cited by 4 publications

References 38 publications

Aromatic rice (Oryza sativa L.) landraces of Indo‐Gangetic Plains of India harbor rich genetic diversity

Aromatic rice (Oryza sativa L.) landraces of Indo‐Gangetic Plains of India harbor rich genetic diversity

Population structure and genetic differentiation analyses reveal high level of diversity and allelic richness in crop wild relatives of AA genome species of rice (Oryza sativa L.) in India

Overview of developed core and mini core collections and their effective utilization in cultivated rice and its related species (Oryza sp.)—A review

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