Chloroplast genome sequence confirms distinctness of Australian and Asian wild rice

Waters, Daniel Le; Nock, Catherine J.; Ishikawa, Ryuji; Rice, Nicole F; Henry, Robert J.

doi:10.1002/ece3.66

Cited by 91 publications

(93 citation statements)

References 22 publications

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“…These taxa were identified within perennial populations previously referred to as O. rufipogon. Waters et al [167] focused on the chloroplast genome, using samples from just four individuals at a single site in each of Vietnam and northern Australia for O. rufipogon, and four individuals of O. meridionalis from a site in northern Australia. They found that the Australian O. rufipogon was more similar to the Australian O. meridionalis than it was to the Asian O. rufipogon.…”

Section: Wild Rice-an Invaluable Genetic Resourcementioning

confidence: 99%

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Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

et al. 2016

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Rice (Oryza sativa L.) is an important staple crop that feeds more than one half of the world's population and is the model system for monocotyledonous plants. However, rice is very sensitive to salinity and is the most salt sensitive cereal crop with a threshold of 3 dSm −1 for most cultivated varieties. Despite many attempts using different strategies to improve salinity tolerance in rice, the achievements so far are quite modest. This review aims to discuss challenges that hinder the improvement of salinity stress tolerance in rice as well as potential opportunities for enhancing salinity stress tolerance in this important crop.

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Section: Wild Rice-an Invaluable Genetic Resourcementioning

confidence: 99%

“…Recent work on these under-researched and possibly under-valued northern Australian populations of native Oryza have revealed new taxa [166][167][168]. These taxa were identified within perennial populations previously referred to as O. rufipogon.…”

Section: Wild Rice-an Invaluable Genetic Resourcementioning

confidence: 99%

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

et al. 2016

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“…Recent investigations of large and widespread wild populations in tropical Australia (Henry et al ., 2010) suggest the presence of two distinct and possibly novel perennial wild A genome taxa [Figure 1; Waters et al . (2012); Sotowa et al . (2013); Brozynska et al .…”

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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“…Results also confirmed the distinctness of Asian and Australian wild rice relatives (Nock et al 2011;Waters et al 2012). This approach proved to be valid for phylogeny of closely related species and was subsequently used to resolve the entire AA genome rice species tree with addition of African and South American species (Wambugu et al 2015).…”

Section: Phylogeny Of Genus Oryzasupporting

confidence: 54%

Genomic characterisation of Australian wild rice species

Brożyńska¹

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Rice (Oryza sativa L.) is one of the most important crops in the world and a basic food source for about two-thirds of the population. It has been grown in the tropics and sub-tropics probably for thousands of years. Owing to the fast growing world population, there is a high demand for increased and improved rice production. Wild relatives of cultivated rice, the related A genome species, carry a vast genetic diversity and are a significant resource for rice improvement. including the cultivars, using full chloroplast sequence as well as nuclear genome regions; secondly, creating genomic resources of these wild rice relatives by means of whole genome sequencing and generating reference genomes for the two novel Australian wild rice taxa. The draft genomes generated were used for whole genome characterization studies including phylogenetic reconstruction with high resolution, divergence time estimation, structural descriptions, gene annotation, and repeat content exploration. The evolutionary inference results revealed that northern

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Chloroplast genome sequence confirms distinctness of Australian and Asian wild rice

Cited by 91 publications

References 22 publications

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

Improvement of Salinity Stress Tolerance in Rice: Challenges and Opportunities

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

Genomic characterisation of Australian wild rice species

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