Phenotypic characters of rice landraces reveal independent lineages of short-grain aromatic indica rice

Ray, Avik; Deb, Debal; Ray, Rajasri; Chattopadhayay, Balaji

doi:10.1093/aobpla/plt032

Cited by 30 publications

(20 citation statements)

References 24 publications

(37 reference statements)

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“…The GS3 -H1 haplotype showed the highest average GL of 3.97 mm, GW of 1.33 mm, and GL/GW of 2.98 mm comprising long slender grains. It shows that short grain Aus and Aromatic rice cultivars were domesticated first then subsequent selective breeding by generations of farmers, diversified it into several different grain sizes based on selection of random mutants and recombination with other genes in the domesticated rice, for improved yield, quality and other agronomic or cultural value traits (Deb, 2005). Five Japonica cultivars known for their short, round shape and sticky cooked grains showed most diverse haplotypes derived from mutations in the ancestral wild rice haplotype.…”

Section: Resultsmentioning

confidence: 99%

Evolutionary Insights Based on SNP Haplotypes of Red Pericarp, Grain Size and Starch Synthase Genes in Wild and Cultivated Rice

Singh

Rai

et al. 2017

Front. Plant Sci.

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The origin and domestication of rice has been a subject of considerable debate in the post-genomic era. Rice varieties have been categorized based on isozyme and DNA markers into two broad cultivar groups, Indica and Japonica. Among other well-known cultivar groups Aus varieties are closer to Indica and Aromatic varieties including Basmati are closer to Japonica, while deep-water rice varieties share kinship to both Indica and Japonica cultivar groups. Here, we analyzed haplotype networks and phylogenetic relationships in a diverse set of genotypes including Indian Oryza nivara/Oryza rufipogon wild rice accessions and representative varieties of four rice cultivar groups based on pericarp color (Rc), grain size (GS3) and eight different starch synthase genes (GBSSI, SSSI, SSIIa, SSIIb, SSIIIa, SSIIIb, SSIVa, and SSIVb). Aus cultivars appear to have the most ancient origin as they shared the maximum number of haplotypes with the wild rice populations, while Indica, Japonica and Aromatic cultivar groups showed varying phylogenetic origins of these genes. Starch synthase genes showed higher variability in cultivated rice than wild rice populations, suggesting diversified selection during and after domestication. O. nivara/O. rufipogon wild rice accessions belonging to different sub-populations shared common haplotypes for all the 10 genes analyzed. Our results support polyphyletic origin of cultivated rice with a complex pattern of migration of domestication alleles from wild to different rice cultivar groups. The findings provide novel insights into evolutionary and domestication history of rice and will help utilization of wild rice germplasm for genetic improvement of rice cultivars.

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Section: Resultsmentioning

confidence: 99%

Evolutionary Insights Based on SNP Haplotypes of Red Pericarp, Grain Size and Starch Synthase Genes in Wild and Cultivated Rice

Singh

Rai

et al. 2017

Front. Plant Sci.

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“…Author(s) agree that this article remain permanently open access under the terms of the Creative Commons Attribution License 4.0 International License random mutants and gene combinations in domesticated rice, for better yield, grain size and other agronomic or cultural values (Ray et al, 2013). According to this author, those landraces, carry appreciable genetic information on their genome that can be exploited for developing new varieties with desirable characteristics for grain quality.…”

Section: Introductionmentioning

confidence: 99%

Correlation and path co-efficient analysis for grain quality traits in F1 generation of rice (Oryza sativa L.)

Abdala¹,

Bokosi²,

Mwangwela³

et al. 2016

J. Plant Breed. Crop Sci.

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A study on correlation and path co-efficient analysis was conducted on eleven F 1 generation derived from crosses between aromatic and non-aromatic parental landraces genotypes. The results showed that high standard deviation was observed on head rice recovery (16.12) followed by gel consistence (13.81) and milling recovery (10.74). The results also showed that correlation between brown rice length and paddy grain width (r= 0.692); paddy grain length and brown grain length (r = 0.558); head rice recovery and milling recovery (r = 0.511) and brown rice shape and grain rice length (r = 0.404) were positive highly significant, while correlation between brown rice shape and brown rice length were negative (r = -0.497). These highly correlated characters could be used for indirect selection and improvement of grain rice quality. The path co-efficient analyses revealed a low direct and positive effect for paddy grain length on brown grain length (0.009). The direct effect of brown rice width (2.774) and brown grain shape (2.481) on brown grain length was high and positive showing that these characters have a direct effect and influence on brown grain length thus indicating their importance in grain rice quality improvement.

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“…Hundreds of the tidal swamp rice cultivars have been found in the region, and they show some beneficial agronomic traits. As a result of the domestication process and through long-term natural selection, this germplasm shows better adaptation to the local conditions and cultures [2]. Tidal swamp rice also exhibited both a tremendous genetic diversity and substantial genes for promoting the development of new rice cultivars in the future [3][4][5].…”

Section: Introductionmentioning

confidence: 99%

Molecular Diversity of Tidal Swamp Rice (Oryza sativa L.) in South Kalimantan, Indonesia

et al. 2018

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Tidal swamp rice has long been cultivated by the local people of the South Kalimantan, Indonesia. This germplasm possess some important traits for adapted to a wide range of abiotic and biotic stresses. In this study, a total of 16 cultivars of the tidal swamp rice, consisting of 15 from the South Kalimantan Provinces and 1 from South Sumatera, Indonesia (an outgroup) were analyzed phylogenetically based on the chloroplast trnL-F and nuclear intergenic spacer region (IGS). The results showed that this germplasm has a relatively more extraordinary genetic diversity than other local rice. On a nucleotide level, the tidal swamp rice showed a genetic diversity of 0.61 for nuclear IGS and 0.58 for trnL-F. The phylogenetic reconstruction also exhibited that the tidal swamp rice has the unique phylogenetic trees, particularly for the combined sequence datasets. This information would be useful for the rice conservation and breeding programs in the future.

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Phenotypic characters of rice landraces reveal independent lineages of short-grain aromatic indica rice

Cited by 30 publications

References 24 publications

Evolutionary Insights Based on SNP Haplotypes of Red Pericarp, Grain Size and Starch Synthase Genes in Wild and Cultivated Rice

Evolutionary Insights Based on SNP Haplotypes of Red Pericarp, Grain Size and Starch Synthase Genes in Wild and Cultivated Rice

Correlation and path co-efficient analysis for grain quality traits in F1 generation of rice (Oryza sativa L.)

Molecular Diversity of Tidal Swamp Rice (Oryza sativa L.) in South Kalimantan, Indonesia

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