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

Brożyńska, Marta; Copetti, Dario; Furtado, Agnelo; Wing, Rod A.; Crayn, Darren M.; Fox, Glen; Ishikawa, Ryuji; Henry, Robert J.

doi:10.1111/pbi.12674

Cited by 53 publications

(89 citation statements)

References 63 publications

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“…These accessions are known informally to have been evaluated for a range of agronomic and quality traits, but the results are only partly available in publically accessible articles and repositories. Characterization and evaluation of the wild relatives of mung bean, rice, sorghum and soybean have been the most extensively published, including with regard to biology; phylogenetic relationships; biotic, abiotic and quality traits; and, less frequently, for cross compatibility with their associated crops , Rebetzke and Lawn 2006, Dillon et al 2007, Kamala et al 2009, Krishnan et al 2014, Nguyen et al 2016, Brozynska et al 2017.…”

Section: Documentation Characterization and Evaluationmentioning

confidence: 99%

Priorities for enhancing the ex situ conservation and use of Australian crop wild relatives

et al. 2017

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Priorities for enhancing the ex situ conservation and use of Australian crop wild relativesThe International Center for Tropical Agriculture (CIAT) believes that open access contributes to its mission of reducing hunger and poverty, and improving human nutrition in the tropics through research aimed at increasing the eco-efficiency of agriculture.CIAT is committed to creating and sharing knowledge and information openly and globally. We do this through collaborative research as well as through the open sharing of our data, tools, and publications. Citation:Norton, Sally L.; Khoury, Colin K.; Sosa, Chrystian C.; Castañeda-Álvarez, Nora P. Abstract. Crop wild relatives -the wild cousins of cultivated plants -are increasingly recognized for their potential to contribute to the productivity, nutritional quality and sustainability of agricultural crops. However, the use of these genetic resources is dependent upon their conservation in genebanks and consequent availability to plant breeders, the status of which has not been comprehensively analyzed in Australia. Such conservation assessments are given urgency by reports of increasing threats to natural populations due to habitat destruction, climate change, and invasive species, among other causes. Here we document Australian wild plants related to important food crops, and outline their priorities for ex situ conservation. Given that no major domesticated food plants originated in the country, Australia's native flora of crop wild relatives is surprisingly rich, including potentially valuable cousins of banana, eggplant, melon, mung bean, pigeonpea, rice, sorghum, sweetpotato, soybean, and yam. Species richness of the wild relatives of major food crops is concentrated in the northern and northeastern tropical regions, in the Northern Territory, Western Australia, and Queensland. Geographic priorities for collecting of these taxa for ex situ conservation, due to the limited representation of their populations in genebanks, largely align with areas of high species richness. Proposed dam building and agricultural expansion in northern Australia make conservation action for these species more urgent. We outline key steps needed for enhancing the ex situ conservation of Australia's heritage of major food crop wild relatives, and discuss the critical activities required to increase their use.

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Section: Documentation Characterization and Evaluationmentioning

confidence: 99%

Priorities for enhancing the ex situ conservation and use of Australian crop wild relatives

et al. 2017

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“…Wild Oryza species are widespread in northern Australia (Henry et al., ). This is an area without a long history of rice cultivation, implying that the wild populations have remained largely isolated from the impacts of gene flow from domesticated crops that has apparently been widespread in Asia (Brozynska et al., ). The AA genome species of rice include cultivated species and their close relatives (Choi, Platts, Fuller, Wing, & Purugganan, ).…”

Section: Introductionmentioning

confidence: 99%

Diversity and evolution of rice progenitors in Australia

Moner

Furtado

Chivers

et al. 2018

Ecology and Evolution

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In the thousands of years of rice domestication in Asia, many useful genes have been lost from the gene pool. Wild rice is a key source of diversity for domesticated rice. Genome sequencing has suggested that the wild rice populations in northern Australia may include novel taxa, within the AA genome group of close (interfertile) wild relatives of domesticated rice that have evolved independently due to geographic separation and been isolated from the loss of diversity associated with gene flow from the large populations of domesticated rice in Asia. Australian wild rice was collected from 27 sites from Townsville to the northern tip of Cape York. Whole chloroplast genome sequences and 4,555 nuclear gene sequences (more than 8 Mbp) were used to explore genetic relationships between these populations and other wild and domesticated rices. Analysis of the chloroplast and nuclear data showed very clear evidence of distinctness from other AA genome Oryza species with significant divergence between Australian populations. Phylogenetic analysis suggested the Australian populations represent the earliest‐branching AA genome lineages and may be critical resources for global rice food security. Nuclear genome analysis demonstrated that the diverse O. meridionalis populations were sister to all other AA genome taxa while the Australian O. rufipogon‐like populations were associated with the clade that included domesticated rice. Populations of apparent hybrids between the taxa were also identified suggesting ongoing dynamic evolution of wild rice in Australia. These introgressions model events similar to those likely to have been involved in the domestication of rice.

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“…and O. sativa (Kasem, Waters & Henry, 2012) (Brozynska et al, 2017); however most of β values of those varieties were significantly different (p ≤ 0.05) especially in TBs. This suggests that the SSIIa of TA and TB is different from that of cultivated rice.…”

Section: Starch Molecular Structural Parametersmentioning

confidence: 86%

“…The Australian A genome rices have recently been shown to be sisters to the clade including all domesticated rices in Asia and Africa (Brozynska, Copetti, Furtado, Wing, Crayn, Fox, Ishikawa & Henry, 2017;Brozynska, Omar, Furtado, Crayn, Simon, Ishikawa & Henry, 2014). This makes them the most distant wild relatives of rice in the A genome clade, that is readily interfertile with domesticated rice, and an important source of diversity for rice.…”

Section: Introductionmentioning

confidence: 99%

Molecular structures and properties of starches of Australian wild rice

Tikapunya

Zou

et al. 2017

Carbohydrate Polymers

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Research highlights Starch molecular structure and various properties of Australian wild rices measured  Compared with those of domesticated rices  Wild had high amylose content and and more shorter amylose chains  Wild had a higher gelatinization temperature, lower pasting properties  Data explained in terms of molecular structural mechanisms  These wild rices have potential commercial applications AbstractAustralian wild rices have significant genetic differences from domesticated rices, which might provide rices with different starch molecular structure and thus different functional properties.Molecular structure, gelatinization properties, and pasting behaviours of starch of three Australian wild rices (Oryza australiensis, taxa A (O. rufipogon like) and taxa B (O. meridionalis like)) were determined and compared to domesticated indica and japonica rice. These had higher amylose content, more shorter amylose chains and fewer short amylopectin chains, resulted in a high gelatinization temperature in these wild rices. Compared to domesticated japonica rice, taxa A had a lower pasting viscosity; taxa B had a similar pasting viscosity but lower final viscosity. The significantly different starch molecular structure from that of normal domesticated rices, and concomitantly different properties, suggest advantageous uses in products such as rice crackers or rice pudding, and a source of nutritionally-desirable slowly digestible starch.

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

Cited by 53 publications

References 63 publications

Priorities for enhancing the ex situ conservation and use of Australian crop wild relatives

Priorities for enhancing the ex situ conservation and use of Australian crop wild relatives

Diversity and evolution of rice progenitors in Australia

Molecular structures and properties of starches of Australian wild rice

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