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62 results for “wild rice”
Kawe Gidaa-naanaagadawendaamin Manoomin Tribal-University Research Collaborative, University of Minnesota, Manoomin / Psiη (Wild Rice) Density Survey for Northern Minnesota and Wisconsin Waters
Wild Rice (Ojibwemowin: Manoomin; Dakodiapi: Psiŋ; Latin: Zizania palustris) abundance, harvest, and water level data, across the upper Great Lakes region collected by tribal organizations.
WILD RICE HISTORICAL ARCHIVES
<p>This is a collection of photos from searches at the Minnesota Historical Society, online newspaper databases and private collections. There is a TROPY database file. The original titles of the photos have not been changed so that the TROPY program can recognize them and the database file can be used. Search terms included 'wild rice' and 'manoomin'. </p> <p> </p> <p> </p>
Study on the mating systems of wild rice Oryza rufipogon and O. nivara and their effects on population genetic variation
<p>As the wild ancestors of Asian cultivated rice,<em> Oryza rufipogon</em> Griff. and <em>O. nivara</em> Sharma et Shastry serve as valuable germplasms for rice breeding. Mating systems are important in shaping the level and pattern of population genetic variation, and are crucial for germplasm conservation. We genotyped 12 simple sequence repeats (SSR) markers for a large number of maternal plants and seeds collected from <em>O</em>.<em> rufipogon</em> and <em>O. nivara</em> populations distributed in Southeast Aisa and South China. Based on the 12 SSR markers, we estimated the outcrossing rates and other parameters of the mixed-mating model for the two wild rice species. We also assessed the level of genetic diversity and population structure for parental populations of <em>O</em>.<em> rufipogon</em> and <em>O. nivara</em>. Our study could facilitate <em>in situ</em> and <em>ex situ</em> conservation, and the utilization of these valuable germplasm resources.</p>
Study on the mating systems of wild rice Oryza rufipogon and O. nivara and their effects on population genetic variation
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Data from: Phylogeography of Asian wild rice, Oryza rufipogon: a genome-wide view
Asian wild rice (Oryza rufipogon) that ranges widely across the eastern and southern part of Asia is recognized as the direct ancestor of cultivated Asian rice (O. sativa). Studies of the geographic structure of O. rufipogon, based on chloroplast and low-copy nuclear markers, reveal a possible phylogeographic signal of subdivision in O. rufipogon. However, this signal of geographic differentiation is not consistently observed among different markers and studies, with often conflicting results. To more precisely characterize the phylogeography of O. rufipogon populations, a genome-wide survey of unlinked markers, intensively sampled from across the entire range of O. rufipogon is critical. In this study, we surveyed sequence variation at 42 genome-wide sequence tagged sites (STS) in 108 O. rufipogon accessions from throughout the native range of the species. Using Bayesian clustering, principal component analysis and amova, we conclude that there are two genetically distinct O. rufipogon groups, Ruf-I and Ruf-II. The two groups exhibit a clinal variation pattern generally from north-east to south-west. Different from many earlier studies, Ruf-I, which is found mainly in China and the Indochinese Peninsula, shows genetic similarity with one major cultivated rice variety, O. satvia indica, whereas Ruf-II, mainly from South Asia and the Indochinese Peninsula, is not found to be closely related to cultivated rice varieties. The other major cultivated rice variety, O. sativa japonica, is not found to be similar to either O. rufipogon groups. Our results support the hypothesis of a single origin of the domesticated O. sativa in China. The possible role of palaeoclimate, introgression and migration–drift balance in creating this clinal variation pattern is also discussed.
Data from: Malaysian weedy rice shows its true stripes: wild Oryza and elite rice cultivars shape agricultural weed evolution in Southeast Asia
Weedy rice is a close relative of domesticated rice (Oryza sativa) that competes aggressively with the crop and limits rice productivity worldwide. Most genetic studies of weedy rice have focused on populations in regions where no reproductively compatible wild Oryza species occur (North America, Europe, northern Asia). Here we examined the population genetics of weedy rice in Malaysia, where wild rice (O. rufipogon) can be found growing in close proximity to cultivated and weedy rice. Using 375 accessions and a combined analysis of 24 neutral SSR loci and two rice domestication genes (sh4, controlling seed shattering, and Bh4, controlling hull color), we addressed the following questions: 1) What is the relationship of Malaysian weedy rice to domesticated and wild rice, and to weedy rice strains in the US? 2) To what extent does the presence of O. rufipogon influence the genetic and phenotypic diversity of Malaysian weeds? 3) What do the distributions of sh4 and Bh4 alleles and associated phenotypes reveal about the origin and contemporary evolution of Malaysian weedy rice? Our results reveal: independent evolutionary origins for Malaysian weeds and US strains, despite their very close phenotypic resemblance; wild-to-weed gene flow in Malaysian weed populations, including apparent adaptive introgression of seed-shattering alleles; and a prominent role for modern Malaysian cultivars in the origin and recent proliferation of Malaysian weeds. These findings suggest that the genetic complexity and adaptability of weedy crop relatives can be profoundly influenced by proximity to reproductively compatible wild and domesticated populations.
Fig. 1 in Natural variation of diterpenoid phytoalexins in cultivated and wild rice species
Fig. 1. Accumulation of momilactones A and B in cultivars from the WRC and wild rice species after UV irradiation. (A) Momilactone A amounts in WRC cultivars. (B) Momilactone B amounts in WRC cultivars. (C) Correlation between the amounts of momilactones A and B. R2: decision coefficient. (D) Amounts of momilactones A and B in wild rice species. Or-I, Or-II, and Or-III indicate clades of O. rufipogon. O. gla: O. glaberrima; O. bar: O. barthii; O. glu: O. glumaepatula; O. mer: O. meridionalis; O. pun: O. punctata; O. bra: O. brachyantha. Values are means ± SD of three biological replicates. n.d.: not detected.
Fig. 2 in Natural variation of diterpenoid phytoalexins in cultivated and wild rice species
Fig. 2. Accumulation of phytocassanes A and D in cultivars from the WRC and wild rice species after UV irradiation. (A) Phytocassane A amounts in WRC cultivars. (B) Phytocassane D amounts in WRC cultivars. (C) Correlation between amounts of phytocassanes A and D. R 2: decision coefficient. (D) Amounts of phytocassanes A and D in wild rice species. Or-I, Or-II, and Or-III indicate clades of O. rufipogon. O. gla: O. glaberrima; O. bar: O. barthii; O. glu: O. glumaepatula; O. mer: O. meridionalis; O. pun: O. punctata; O. bra: O. brachyantha. Values are means ± SD of three biological replicates. n.d.: not detected.
Fig. 5 in Natural variation of diterpenoid phytoalexins in cultivated and wild rice species
Fig. 5. Analysis of the chemical structure of 2. (A) COSY (bold lines) and HMBC (black arrows from protons to carbon atoms) correlations of 2. (B) Chemical structure of phytocassane A. (C) NOESY correlations on the three-dimensional chemical structure of 2. (D) Chemical structure of 2.
Fig. 7 in Natural variation of diterpenoid phytoalexins in cultivated and wild rice species
Fig. 7. Accumulation of oryzalactone and phytocassane G in the WRC cultivars and wild rice species after UV irradiation. (A) Oryzalactone amounts in WRC cultivars. (B) Phytocassane G amounts in WRC cultivars. (C) Oryzalactone and phytocassane G amounts in wild rice species.Or-I, Or-II, and Or-III indicate clades of O. rufipogon. O. gla: O. glaberrima; O. bar: O. barthii; O. glu: O. glumaepatula; O. mer: O. meridionalis; O. pun: O. punctata; O. bra: O. brachyantha. Values are means ± SD of three biological replicates. n.d.: not detected.
Fig. 6 in Natural variation of diterpenoid phytoalexins in cultivated and wild rice species
Fig. 6. Accumulation of oryzalactone and phytocassane G in response to rice blast infection and the antifungal activities of these compounds against rice blast. (A) Accumulation of oryzalactone in 'Jaguary' leaves in response to rice blast infection. (B) Accumulation of phytocassane G in 'Basilanon' leaves in response to rice blast infection.Amounts of 1 and 2 were determined 72 h after the start of treatment. n.d.: not detected. Values are means ± SD of three biological replicates. Asterisks indicate significant differences (*p <0.05, **p <0.01; Dunnett's test). (C) Effect of compounds on the germination of P. oryzae 12 h after incubation. (D) Effect of compounds on conidial germ tube elongation, which was measured 12 h after treatment.Values and error bars are means ± SD (n = 3). Different letters indicate significant differences (p <0.05; Tukey–Kramer method).
Fig. 3 in Natural variation of diterpenoid phytoalexins in cultivated and wild rice species
Fig. 3. Multiple reaction monitoring (MRM) chromatogram in momilactone A analysis. (A) Analysis of authentic momilactone A; retention time of 7.2 min. (B) Compound 1 was detected in the extract from 'Jaguary' with a retention time of 7.7 min. (C) Compound 2 was detected in the extract from 'Basilanon' with a retention time of 7.4 min.
Data from: Malaysian weedy rice shows its true stripes: wild Oryza and elite rice cultivars shape agricultural weed evolution in Southeast Asia
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Data from: Are habitat fragmentation, local adaptation and isolation by distance driving population divergence in wild rice Oryza rufipogon?
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Data from: Phylogeography of Asian wild rice, Oryza rufipogon: a genome-wide view
Open the record for dataset details and reuse information.
SNPs for 75 rice genome aseemblies and additional 186 genomes wild rice
<p>SNPs for 75 rice genome aseemblies and additional 186 genomes wild rice</p>
Genomic dissection of small RNAs in wild rice (O.rufipogon): lessons for rice domestication [small RNA]
GEO Series GSE39308. Oryza rufipogon. 3 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Comparative expression analysis of wild-type and OsCAld5H1-knockout rice plant using Agilent Rice Gene Expression 44k Array
GEO Series GSE118090. Oryza sativa. 6 samples. Type: Expression profiling by array.
Expression profiling of small RNAs in wild type and Osaba1-1 rice seedlings
GEO Series GSE63367. Oryza sativa Japonica Group. 2 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Genomic dissection of small RNAs in wild rice (O.rufipogon): lessons for rice domestication
GEO Series GSE39309. Oryza rufipogon. 4 samples. Type: Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
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