Diversity in the Oryza genus

Vaughan, Duncan A.; Morishima, Hajime; Kadowaki, Koh-ichi

doi:10.1016/s1369-5266(03)00009-8

Cited by 343 publications

(318 citation statements)

References 55 publications

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“…Our observation supports the previously reported close genomic similarity between cultivated rice and O. niVara (14,15). Previous studies have demonstrated that some mammalian and plant interspecific hybrids, including interspecific hybrids of rice, undergo genomic changes after their production as a result of the activation of dormant transposable elements (TE) and their insertion in new locations in the genome, leading to alteration of gene expression (29,30).…”

Section: Discussionsupporting

confidence: 91%

Interspecific Rice Hybrid of Oryza sativa × Oryza nivara Reveals a Significant Increase in Seed Protein Content

Mahmoud

Sukumar²,

Krishnan³

2007

J. Agric. Food Chem.

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Wild species offer a potential reservoir of genetic variation for crop improvement. Besides the valuable genes for disease resistance that the wild species have provided for rice improvement, recent studies have shown that these wild species could also provide favorable alleles for the improvement of yield and yield-related traits. The present study reports yet another potential of wild relatives of rice, which involves the improvement of seed protein content. A significant increase in seed protein content was observed in an interspecific hybrid between Oryza sativa ssp. indica and the wild species Oryza nivara. The hybrid showed a protein content of 12.4%, which was 28 and 18.2% higher than those of the parents O. nivara and IR 64, respectively. The increase in protein content was dependent on the genetic background of the rice variety used in the hybridization. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis analysis of seed storage proteins demonstrated that a significant increase in prolamins and glutelins was mainly responsible for the elevated protein content of the hybrid. Amino acid analysis of seed proteins revealed that the hybrid had net gains of 19.5% in lysine and 19.4% in threonine over the O. nivara parent on a seed dry weight basis. Molecular analysis indicated that the increase in protein content of the hybrid was not a result of chromosomal rearrangements or transposable element activation, at least in the chromosomal regions containing seed storage protein genes. A preliminary genetic analysis of the F 2 segregating population showed that the inheritance of the increased protein content was polygenic in nature. The development of this interspecific hybrid offers a great potential for selecting new rice cultivars that combine the high yield and superior cooking quality of IR 64 with improved seed protein content.

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Section: Discussionsupporting

confidence: 91%

Interspecific Rice Hybrid of Oryza sativa × Oryza nivara Reveals a Significant Increase in Seed Protein Content

Mahmoud

Sukumar²,

Krishnan³

2007

J. Agric. Food Chem.

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“…The π value of the sd1 gene in O. Numbers of indels and SNPs in parentheses represent the total sites of insertion/deletion and non-synonymous substitutions, respectively a 93-11 contains a non-synonymous SNP creating a stop codon within the exon 3 region sativa is higher than that of the Adh1 gene, except at synonymous sites within the exon region, and the change in K value between the two species for the two genes is well correlated with the current taxonomic classification of Oryza species on the basis of crossing ability [37]. The Adh1 gene has a lower level of variation than the average heterozygosity in O. sativa and O. rufipogon; this might be related to the adaptive importance of this gene in the face of anaerobic environmental and stress in the tropics and subtropics [30,31,23].…”

Section: Diversity Analysis Of Rice Functional Genesmentioning

confidence: 97%

“…Growing in a wide range of environments, the genus Oryza contains 23 species; rich in genomic diversity, they could serve not only as potential genetic resources for improvement of rice production but also as good research materials for studies of the evolutionary history and functionality of genes related to speciation, domestication, polyploidy, ecological adaptation, and human selection of rice [37]. The public rice genome sequences obtained from two rice cultivars, Nipponbare (by the IRGSP) and 93-11 (by the Beijing Genomics Institute, BGI), as well as the wild rice BAC library resources established from the AA to HHKK genomes of Oryza species at Arizona Genomics Institute (AGI) provide a good opportunity to carry out such studies [46,10,2].…”

Section: Diversity Analysis Of Rice Functional Genesmentioning

confidence: 99%

Comparative Analysis of Rice Genome Sequence to Understand the Molecular Basis of Genome Evolution

Mizuno

Sasaki

et al. 2008

Rice

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Accurate sequencing of the rice genome has ignited a passion for elucidating mechanism for sequence diversity among rice varieties and species, both in proteincoding regions and in genomic regions that are important for chromosome functions. Here, we have shown examples of sequence diversity in genic and non-genic regions. Sequence analysis of chromosome ends has revealed that there is diversity in both sequences and distribution in the region of telomere repeat arrays, from chromosome to chromosome, within a plant. Detailed study has allowed us to speculate the mechanism of generation of these arrays. Sequence analysis using various cultivated and wild rice of the sd1 gene, which contributed to the "Green Revolution" in rice varieties and their wild progenitors, has also demonstrated sequence diversity, which is correlated with taxonomic classification. These results indicate that detailed analysis of sequence diversity and comparison might give us a clue in elucidating mechanism of the evolution of rice genome.

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“…The genus Oryza is composed of two cultivated (O. sativa and O. glaberrima) and 21 wild species (Khush, 1997;Vaughan et al, 2003). Based on recent phylogenetic data, Ge et al (1999) proposed that Porteresia coarctata should be included in the genus as the 24th Oryza species.…”

Section: Introductionmentioning

confidence: 99%

The Oryza Map Alignment Project: The Golden Path to Unlocking the Genetic Potential of Wild Rice Species

et al. 2005

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Diversity in the Oryza genus

Cited by 343 publications

References 55 publications

Interspecific Rice Hybrid of Oryza sativa × Oryza nivara Reveals a Significant Increase in Seed Protein Content

Interspecific Rice Hybrid of Oryza sativa × Oryza nivara Reveals a Significant Increase in Seed Protein Content

Comparative Analysis of Rice Genome Sequence to Understand the Molecular Basis of Genome Evolution

The Oryza Map Alignment Project: The Golden Path to Unlocking the Genetic Potential of Wild Rice Species

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