SNP in starch biosynthesis genes associated with nutritional and functional properties of rice

Masouleh, Ardashir Kharabian; Waters, Daniel Le; Reinke, Russell; Ward, Rachelle; Henry, Robert J.

doi:10.1038/srep00557

Cited by 99 publications

(90 citation statements)

References 38 publications

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“…Climate change adds to the difficulty of achieving the necessary rates of genetic gain (Abberton et al ., 2016). The wild relatives of rice provide a gene pool that allows for the expansion of diversity (Krishnan et al ., 2014) in domesticated rice for the creation of new high yielding genotypes, with new nutritional and functional traits (Kharabian‐Masouleh et al ., 2012) and adaptation to new environments (Brozynska et al ., 2016). The A genome species of Oryza , which include the species that are readily interfertile with rice, represent the effective primary gene pool for rice.…”

Section: Introductionmentioning

confidence: 99%

Sequencing of Australian wild rice genomes reveals ancestral relationships with domesticated rice

Brożyńska

Copetti

Furtado

et al. 2017

Plant Biotechnology Journal

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SummaryThe related A genome species of the Oryza genus are the effective gene pool for rice. Here, we report draft genomes for two Australian wild A genome taxa: O. rufipogon‐like population, referred to as Taxon A, and O. meridionalis‐like population, referred to as Taxon B. These two taxa were sequenced and assembled by integration of short‐ and long‐read next‐generation sequencing (NGS) data to create a genomic platform for a wider rice gene pool. Here, we report that, despite the distinct chloroplast genome, the nuclear genome of the Australian Taxon A has a sequence that is much closer to that of domesticated rice (O. sativa) than to the other Australian wild populations. Analysis of 4643 genes in the A genome clade showed that the Australian annual, O. meridionalis, and related perennial taxa have the most divergent (around 3 million years) genome sequences relative to domesticated rice. A test for admixture showed possible introgression into the Australian Taxon A (diverged around 1.6 million years ago) especially from the wild indica/O. nivara clade in Asia. These results demonstrate that northern Australia may be the centre of diversity of the A genome Oryza and suggest the possibility that this might also be the centre of origin of this group and represent an important resource for rice improvement.

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Section: Introductionmentioning

confidence: 99%

Sequencing of Australian wild rice genomes reveals ancestral relationships with domesticated rice

Brożyńska

Copetti

Furtado

et al. 2017

Plant Biotechnology Journal

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“…Effects of starch biosynthetic enzymes on starch properties have been studied, and various relationships between starch biosynthesis and properties have been proposed [93,102]; however, these relationships are indirect, as environmental factors including water, temperature, and light are also involved in starch biosynthesis. Understanding the fine structures of starch has the potential to give in-depth information on starch biosynthesis [31,202,204].…”

Section: Introductionmentioning

confidence: 99%

Causal Relations Among Starch Biosynthesis, Structure, and Properties

Wang

Henry

Gilbert

2014

Springer Science Reviews

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Starch, an important carbohydrate with widespread applications in human foods, animal feeds, and many industrial products, is synthesized by plants by the action of a complex system involving many enzymes. The differing activities of these enzymes contribute to variations in starch structure among different plant species, botanical organs, and genetic backgrounds, and thus affect the physicochemical properties and end-use functions of starch. The demand for starches with particular functional properties is increasing, but the ability to produce novel starches is still limited. Starches with specific properties can potentially be produced by biotechnical modification of the starch biosynthetic pathway; however, this requires further understanding of the starch biosynthesis-structureproperties relationships. This review summarizes the state of the art in the understanding of these causal relationships: the roles of the main starch-synthesizing enzymes on starch structure, hierarchical structure of starch, advanced molecular structure characterization methods, and impact of starch structure on some functional properties. A better understanding of these relationships among starch biosynthesis, structure, and properties provides direction for genetic modification and targeted breeding programs to produce starch with desired characteristics.

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“…Rice grain shape has been described to be simultaneously controlled by triploid endosperm genes, cytoplasmic genes, embryo and maternal plant genes (Shi and Zhu, 1996;Shi et al, 2000). Studies by Kharabian-Masouleh et al, 2012 andTan et al, 1999 reported that rice starch is controlled in the waxy gene region. Tian et al, 2005 reported that cooked rice elongation is also likely controlled in the waxy gene region.…”

Section: Introductionmentioning

confidence: 99%

Identification of putative metabolic biomarker underlying cooked rice elongation

Okpala¹,

Duan²,

Shen³

et al. 2017

Plant Omics

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Rice (Oryza sativa L.) is a staple food for over half of the world's population. However, rice grain quality is one of the major problems facing rice breeders across the world. Cooked rice elongation, cooked rice expansion, and water absorption have been identified as some of the parameters used in gauging rice grain quality. Biomarkers such as proteins or metabolites can be used to differentiate among a pattern of variations among various samples (e.g., various locations within a plant, various germplasm accessions); consequently, they present a type of internal validation for a given biological state. In the present study, we investigated the putative metabolite biomarkers associated with the variation of cooked rice elongation for Hua Jing Xian 74 (receptor), Basmati 370 (donor), and five hybrid lines resulting from a cross of these parent lines. We also investigated their cooked rice expansion and water absorption properties. After carrying out cooked rice elongation studies, metabolomics studies, correlation analyses, V-plot analyses, and thorough searches in public metabolite databases (Metlin, Massbank and KEGG), and in-house secondary metabolite database, we identified a metabolite with molecular weight of 280.25 and retention time of 6.4 min as a putative biomarker associated with cooked rice elongation in the varieties investigated. We also discovered that changes in cooked rice elongation and changes in cooked rice expansion follow a similar pattern; however, it appears that cooked rice elongation and cooked rice expansion do not affect water absorption in these rice lines. Our findings may facilitate the improvement of the cooked rice elongation of hybrids resulting from the crosses of Basmati 370 and Hua Jing Xian 74. Our results also offer interesting insight into cooked rice elongation, cooked rice expansion, and water absorption.

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SNP in starch biosynthesis genes associated with nutritional and functional properties of rice

Cited by 99 publications

References 38 publications

Sequencing of Australian wild rice genomes reveals ancestral relationships with domesticated rice

Sequencing of Australian wild rice genomes reveals ancestral relationships with domesticated rice

Causal Relations Among Starch Biosynthesis, Structure, and Properties

Identification of putative metabolic biomarker underlying cooked rice elongation

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