Rice genomics: Present and future

Delseny, Michel; Salses, Jérôme; Cooke, Richard; Sallaud, Christophe; Regad, Farid; Lagoda, Pierre; Guiderdoni, Emmanuel; Ventelon, Marjolaine; Brugidou, Christophe; Ghesquière, Alain

doi:10.1016/s0981-9428(01)01245-1

Cited by 75 publications

(43 citation statements)

References 83 publications

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“…PGMS line | hybrid breeding | sugar partitioning R ice (Oryza sativa L.) is a major staple food that feeds more than one-half of the human population (1). The three-and two-line hybrid rice breeding technologies take advantage of heterosis (hybrid vigor) and have been successfully applied in many countries, leading to a more than 20% yield increase over inbred varieties (2).…”

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confidence: 99%

Mutation in CSA creates a new photoperiod-sensitive genic male sterile line applicable for hybrid rice seed production

Zhang

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

115

100

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Rice is a major staple food worldwide. Making hybrid rice has proved to be an effective strategy to significantly increase grain yield. Current hybrid rice technologies rely on male sterile lines and have been used predominantly in indica cultivars. However, intrinsic problems exist in the implementation of these technologies, such as limited germplasms and unpredictable conversions from sterility to fertility in the field. Here, we describe a photoperiod-controlled male sterile line, carbon starved anther (csa), which contains a mutation in an R2R3 MYB transcription regulator of pollen development. This mutation was introduced into indica and japonica rice, and it rendered male sterility under short-day conditions and male fertility under long-day conditions in both lines. Furthermore, F 1 plants of csa and a restorer line JP69 exhibited heterosis (hybrid vigor), suggesting the feasibility of using this mutation to create hybrid rice. The csabased photoperiod-sensitive male sterile line allows the establishment of a stable two-line hybrid system, which promises to have a significant impact on agriculture.PGMS line | hybrid breeding | sugar partitioning R ice (Oryza sativa L.) is a major staple food that feeds more than one-half of the human population (1). The three-and two-line hybrid rice breeding technologies take advantage of heterosis (hybrid vigor) and have been successfully applied in many countries, leading to a more than 20% yield increase over inbred varieties (2). The three-line hybrid rice breeding system was developed in the 1970s after the revolutionary discovery of the wild abortive cytoplasmic male sterile cytoplasm (CMS-WA) for the breeding of CMS lines, which solved the problem of selfpollination in the varieties used for hybrid rice production (3). In this technology, a restorer line that contains the restorer gene(s) is used as the pollen donor to recover male fertility in F 1 plants (hybrid rice) after its cross with the CMS line (Fig. S1A). To maintain CMS, a maintainer line, which has viable pollen grains and normal seed sets, is used as the pollinator to cross with the CMS line (Fig. S1A). Although this system has been widely used for hybrid rice seed production, the requirement of a maintainer line with normal cytoplasm and a restorer line with nuclearencoded fertility restorer genes restricts breeders from exploiting more rice germplasms and complicates the procedures for generating hybrid seeds (4).As a replacement of the three-line technology, a two-line system has been developed and applied for hybrid rice seed production after the discovery of the environmentally sensitive genic male sterile lines controlled by nuclear recessive gene(s). A japonica cultivar, Nongken 58S (NK58S), was the first spontaneous photoperiod-sensitive genic male sterile (PGMS) mutant identified (5). Because indica varieties are predominant in most rice planting regions, the PGMS loci/locus in NK58S were/was introduced into indica to generate breeding cultivars, such as Peiai 64S (PA64S) and Xin'an S. These ...

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confidence: 99%

Mutation in CSA creates a new photoperiod-sensitive genic male sterile line applicable for hybrid rice seed production

Zhang

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

115

100

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“…Thus, rice grain shape became an important breeding trait (Li et al, 2004a). Furthermore, rice is considered a model plant for genetics and genomics of crops (Delseny et al, 2001;Paterson et al, 2005). Using comparative genomics method, some grain shape genes in maize and wheat have been cloned (Li et al, 2010a, b;Su et al, 2011;Bednarek et al, 2012).…”

Section: Introductionmentioning

confidence: 99%

Scanning QTLs for Grain Shape using Two Sets of Introgression Lines in Rice

Qiu¹,

Du²,

Hu³

et al. 2017

IJAB

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Grain shape determines both appearance quality and grain yield. In this study, two sets of introgression line populations derived from three parents were used to dissect the genetic basis of grain shape and illustrate the genetic background effects on QTL expression. Among the three parents, IR75862 was the common donor parent, and Ce258 and Zhongguangxiang1 were two recipient parents. The two introgression line populations were evaluated for grain shape traits in the summer of 2012 at Jingzhou, China. A total of 23 QTLs were detected in all 12 chromosomes except chromosome 1, 3 and 9 for grain length, grain width, grain thickness and length to width ratio, 11 and 12 detected in Ce258 and Zhongguangxiang1 background, respectively. They explained 6.95-38.27% of phenotypic variation. Among these QTLs, only three (26%) named qGL8, qLWR5 and qLWR10 stably expressed in both genetic backgrounds, clearly indicating that genetic background had large effects on QTL expression for grain shape. IR75862 alleles at these QTLs decreased GL and LWR in both backgrounds. Our findings will facilitate the gene cloning and breeding application for improvement of grain yield and quality in future.

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“…The International Rice Genome Sequencing Project (IRGSP), with roots in the Japanese Rice Genome Project, proposes the sequencing of the whole 430 Mb of the rice genome of the japonica variety, cultivar Nipponbare, based on a clone-by-clone approach, aiming at a high accuracy of 10 -4 (Eckardt, 2000;Delseny et al, 2001). In 2001, the IRGSP was highly propelled by the incorporation of the Monsanto rice genome draft and, at the present time, the IRGSP has submitted sequences to GenBank that comprise over 95% of the genome (http://www.tigr.org/tdb/e2k1/osa1/ BACmapping/description.shtml).…”

Section: Introductionmentioning

confidence: 99%

Iron homeostasis related genes in rice

et al. 2003

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Iron is essential for plants. However, excess iron is toxic, leading to oxidative stress and decreased productivity. Therefore, plants must use finely tuned mechanisms to keep iron homeostasis in each of their organs, tissues, cells and organelles. A few of the genes involved in iron homeostasis in plants have been identified recently, and we used some of their protein sequences as queries to look for corresponding genes in the rice (Oryza sativa) genome. We have assigned possible functions to thirty-nine new rice genes. Together with four previously reported sequences, we analyzed a total of forty-three genes belonging to five known protein families: eighteen YS (Yellow Stripe), two FRO (Fe 3+ -chelate reductase oxidase), thirteen ZIP (Zinc regulated transporter / Iron regulated transporter Protein), eight NRAMP (Natural Resistance -Associated Macrophage Protein), and two Ferritin proteins. The possible cellular localization and number of potential transmembrane domains were evaluated, and phylogenetic analysis performed for each gene family. Annotation of genomic sequences was performed. The presence and number of homologues in each gene family in rice and Arabidopsis is discussed in light of the established iron acquisition strategies used by each one of these two plants.

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Rice genomics: Present and future

Cited by 75 publications

References 83 publications

Mutation in CSA creates a new photoperiod-sensitive genic male sterile line applicable for hybrid rice seed production

Mutation in CSA creates a new photoperiod-sensitive genic male sterile line applicable for hybrid rice seed production

Scanning QTLs for Grain Shape using Two Sets of Introgression Lines in Rice

Iron homeostasis related genes in rice

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