Registration of ‘Cocodrie’ Rice

Linscombe, Steven D.; Jodari, F.; Bollich, P. K.; Groth, D. E.; White, Larry M.; Chu, Q. R.; Dunand, R. T.; Sanders, D. E.

doi:10.2135/cropsci2000.0007rcv

Cited by 81 publications

(72 citation statements)

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“…Using the GoldenGate assay, we document that there is highly elevated introgression from indica into many tropical japonica varieties near the SD1 gene (Figure 2) in agreement with the historical record (Figure 3) [44]. These varieties include Cypress [45], Lemont [46], Cocodrie [45], Cybonnet [47], Rosemont [48], Jefferson [49], all of which are known to be semi-dwarf plants. Four semi-dwarf admixed accessions, including Berenj, Bengal, M202 and Saber also showed an indica introgression in the region.…”

Section: Resultssupporting

confidence: 73%

Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome

et al. 2010

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BackgroundThe domestication of Asian rice (Oryza sativa) was a complex process punctuated by episodes of introgressive hybridization among and between subpopulations. Deep genetic divergence between the two main varietal groups (Indica and Japonica) suggests domestication from at least two distinct wild populations. However, genetic uniformity surrounding key domestication genes across divergent subpopulations suggests cultural exchange of genetic material among ancient farmers.Methodology/Principal FindingsIn this study, we utilize a novel 1,536 SNP panel genotyped across 395 diverse accessions of O. sativa to study genome-wide patterns of polymorphism, to characterize population structure, and to infer the introgression history of domesticated Asian rice. Our population structure analyses support the existence of five major subpopulations (indica, aus, tropical japonica, temperate japonica and GroupV) consistent with previous analyses. Our introgression analysis shows that most accessions exhibit some degree of admixture, with many individuals within a population sharing the same introgressed segment due to artificial selection. Admixture mapping and association analysis of amylose content and grain length illustrate the potential for dissecting the genetic basis of complex traits in domesticated plant populations.Conclusions/SignificanceGenes in these regions control a myriad of traits including plant stature, blast resistance, and amylose content. These analyses highlight the power of population genomics in agricultural systems to identify functionally important regions of the genome and to decipher the role of human-directed breeding in refashioning the genomes of a domesticated species.

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Section: Resultssupporting

confidence: 73%

Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome

et al. 2010

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“…However, the straighthead susceptible parent, Cocodrie, is a widely grown cultivar in the USA [6] and has been used extensively in southern USA breeding programs. Development of improved germplasm having resistance to straighthead in a Cocodrie genetic background will be important for future breeding efforts in the USA.…”

Section: Resultsmentioning

confidence: 99%

“…Straighthead can result in almost complete loss of grain yield [1], [2], and is occurring with increasing frequency in Arkansas where about 50% of USA rice is produced [3]–[5]. For example, yield loss up to 94% has been observed in Cocodrie [1], a major commercial cultivar in the southern USA [6]. Straighthead is also a global threat to rice production and has been reported in Portugal [7], Thailand [8], Japan [9], Australia [10], Argentina [11], and Brazil (Correa-Victoria, pers.…”

Section: Introductionmentioning

confidence: 99%

Development of Genetic Markers Linked to Straighthead Resistance through Fine Mapping in Rice (Oryza sativa L.)

et al. 2012

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Straighthead, a physiological disorder characterized by sterile florets and distorted spikelets, causes significant yield losses in rice, and occurs in many countries. The current control method of draining paddies early in the season stresses plants, is costly, and wastes water. Development of resistant cultivar is regarded as the most efficient way for its control. We mapped a QTL for straighthead resistance using two recombinant inbred line (RIL) F9 populations that were phenotyped over two years using monosodium methanearsonate (MSMA) to induce the symptoms. One population of 170 RILs was genotyped with 136 SSRs and the other population of 91 RILs was genotyped with 159 SSRs. A major QTL qSH-8 was identified in an overlapping region in both populations, and explained 46% of total variation in one and 67% in another population for straighthead resistance. qSH-8 was fine mapped from 1.0 Mbp to 340 kb using 7 SSR markers and further mapped to 290 kb in a population between RM22573 and InDel 27 using 4 InDel markers. SSR AP3858-1 and InDel 11 were within the fine mapped region, and co-segregated with straighthead resistance in both RIL populations, as well as in a collection of diverse global accessions. These results demonstrate that AP3858-1 and InDel 11 can be used for marker-assisted selection (MAS) for straighthead resistant cultivars, which is especially important because there is no effective way to directly evaluate straighthead resistance.

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“…Cocodrie (Linscombe et al 2000), with pedigree Cypress//L-202/Tebonnet, is a semi-dwarf long-grain cultivar widely grown in the southern U. S. for its high yield potential and good milling yield. It is rated extremely SB-susceptible at 7.7 on the conventional disease-severity scale from 0 (no disease) to 9 (plants dead and collapsed).…”

Section: Genetic Materialsmentioning

confidence: 99%

Sheath-blight resistance QTLS in japonica rice germplasm

et al. 2011

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Sheath blight (SB), caused by Rhizoctonia solani, is a serious disease of cultivated rice (Oryza sativa L.) for which genetic resistance is in demand by breeders. With the goal of resistance (SBR)-QTL discovery in U. S. japonica breeding material, 197 doubled-haploid lines from a cross between MCR10277 (resistant) and Cocodrie (susceptible) were evaluated in field and greenhouse assays with U. S. and Colombian pathogen isolates and genotyped at 111 microsatellite marker loci. Four SBR QTLs from MCR10277 were identified, together accounting for 47% of field genetic variation. In all trials the strongest effect was provided by a chromosome-9 QTL, qsbr_9.1, but some QTLs differed for U. S. and Colombian R. solani isolates. SBR QTLs coincided with only two of several height or headingtime QTLs, suggesting that the relationship between these developmental traits and SBR is not simple. For the U. S. isolates, a microchamber greenhouse assay revealed the same QTLs as did field inoculation.

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Registration of ‘Cocodrie’ Rice

Cited by 81 publications

References 0 publications

Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome

Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome

Development of Genetic Markers Linked to Straighthead Resistance through Fine Mapping in Rice (Oryza sativa L.)

Sheath-blight resistance QTLS in japonica rice germplasm

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