Identification of Two Blast Resistance Genes in a Rice Variety, Digu

Chen, X. W.; Li, S. G.; Xu, Junfeng; Zhai, Wentao; ZhongZhuan, Ling; T, Balaji Alwar; Wang, Y. P.; Wang, W. M.; Cao, Gang; Q., Y.; Shang, Junjun; Zhao, Xianfeng; Zhou, Kunneng; Zhu, Lihuang

doi:10.1046/j.1439-0434.2003.00803.x

Cited by 61 publications

(29 citation statements)

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“…Some of the genes have been successfully used in blast resistance breeding. When a map-based cloning strategy is used in the identification of R genes, resistance gene analog (RGA) markers that are designed according to the conserved NBS domain could be used to identify the corresponding candidate NBS-LRR resistance gene (Mago et al 1999;Chauhan et al 2002;Zhuang et al 2002;Lee et al 2003;Sallaud et al 2003;Chen et al 2004). In practice, however, successful examples of isolation of an NBS-LRR resistance gene with RGA markers have rarely been reported.…”

Section: Discussionmentioning

confidence: 99%

Identification of a New Rice Blast Resistance Gene, Pid3, by Genomewide Comparison of Paired Nucleotide-Binding Site–Leucine-Rich Repeat Genes and Their Pseudogene Alleles Between the Two Sequenced Rice Genomes

et al. 2009

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Rice blast, caused by Magnaporthe oryzae, is one of the most devastating diseases. The two major subspecies of Asian cultivated rice (Oryza sativa L.), indica and japonica, have shown obvious differences in rice blast resistance, but the genomic basis that underlies the difference is not clear. We performed a genomewide comparison of the major class of resistant gene family, the nucleotide-binding site-leucinerich repeat (NBS-LRR) gene family, between 93-11 (indica) and Nipponbare ( japonica) with a focus on their pseudogene members. We found great differences in either constitution or distribution of pseudogenes between the two genomes. According to this comparison, we designed the PCR-based molecular markers specific to the Nipponbare NBS-LRR pseudogene alleles and used them as cosegregation markers for blast susceptibility in a segregation population from a cross between a rice blast-resistant indica variety and a susceptible japonica variety. Through this approach, we identified a new blast resistance gene, Pid3, in the indica variety, Digu. The allelic Pid3 loci in most of the tested japonica varieties were identified as pseudogenes due to a nonsense mutation at the nucleotide position 2208 starting from the translation initiation site. However, this mutation was not found in any of the tested indica varieties, African cultivated rice varieties, or AA genome-containing wild rice species. These results suggest that the pseudogenization of Pid3 in japonica occurred after the divergence of indica and japonica.

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Section: Discussionmentioning

confidence: 99%

Identification of a New Rice Blast Resistance Gene, Pid3, by Genomewide Comparison of Paired Nucleotide-Binding Site–Leucine-Rich Repeat Genes and Their Pseudogene Alleles Between the Two Sequenced Rice Genomes

et al. 2009

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“…Digu-containing Pi-d2 is particularly important for breeding resistance against rice blast disease in Southern China (Chen et al, 2004). Digu A, a carrier of Pi-d2 was used as a cytoplast male sterile donor in 1995 (Lei et al, 1998), which resulted in the release of Fuyi A, thus forming the basis for the release of 16 hybrid rice cultivars in the 1990s.…”

Section: Introductionmentioning

confidence: 99%

Natural variation of rice blast resistance gene Pi-d2

Li¹,

Sun²,

Liu³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Studying natural variation in rice resistance genes of cultivated and wild rice relatives can predict resistance stability to rice blast fungus. In the present study, the protein coding regions of the rice R nucleotide differences were found in the open reading frames (ORFs) of Pi-d2. Translation of these ORFs revealed 9 variants; 3 were novel Pi-d2 variants. Variants H2 and H5 were identified in accessions of cultivated rice and O. nivara, H1, H3, H4, H6, and H8 were only identified in cultivated rice. H2 and H5 were the common types of IND and O. nivara, H8 was the common type of TRJ and AUS, H6 was the specific type of AUS, and H3 was the specific type of ARO. H7 and H9 were specific haplotypes of O. nivara and O. rufipogon, respectively. These findings demonstrate that Pi-d2 variants are useful indicators for each subgroup, and Pi-d2 is an ancient gene that predates speciation of rice subgroups.

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“…There is still much progress being made in the genetic research of blast-resistant genes (Tang et al 2000;Zhang et al 2003;Chen et al 2004b;Zhou et al 2004;Zhang et al 2006a), however, due to the limited length of this paper we will not discuss them all in detail.…”

Section: Biotic Stress Resistancementioning

confidence: 99%

“…Pigm (t) was finely mapped to an approximately 70-kb interval between markers C5483 and C0428 on chromosome 6, which contains five candidate NBS-LRR disease resistance genes. Another blast-resistant gene, Pi26 (t), might also be located at the same region (Deng et al 2006).There is still much progress being made in the genetic research of blast-resistant genes (Tang et al 2000;Zhang et al 2003;Chen et al 2004b;Zhou et al 2004;Zhang et al 2006a), however, due to the limited length of this paper we will not discuss them all in detail.Chinese scientists overseas have also made much progress in the studies of disease resistance. Liu et al (2002) reported that Pi2 (t) is closed linked with Pi9 (t).…”

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confidence: 97%

Recent Progress on Rice Genetics in China

Jiang

Guo

Qian

2007

JIPB

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Through thousands of years of evolution and cultivation, tremendously rich genetic diversity has been accumulated in rice (Oryza sativa L.), developing a large germplasm pool from which people can select varieties with morphologies of interest and other important agronomic traits. With the development of modern genetics, scientists have paid more attention to the genetic value of these elite varieties and germplasms, and such rich rice resources provide a good foundation for genetic research in China. Approximately 100 000 accessions of radiation-, chemical-or insertion-induced mutagenesis have been generated since the 1980s, and great progress has been made on rice molecular genetics. So far at least 16 variant/mutant genes including MOC1, BC1, SKC1, and Rf genes have been isolated and characterized in China. These achievements greatly promote the research on functional genomics, understanding the mechanism of plant development and molecular design breeding of rice in China. Here we review the progress of three aspects of rice genetics in China: moving forward at the molecular level, genetic research on elite varieties and germplasms, and new gene screening and genetic analysis using mutants. The prospects of rice genetics are also discussed. Available online at www.blackwell-synergy.com/links/toc/jipb, www.jipb.netAs the major force of evolution, variance exhibits plants' perfect adaptation to environments. Thousands of different traits and alleles emerge, because of genetic variance; they form a large germplasm pool from which people can select varieties with morphologies of interest and other important agronomic traits that best serve crop modification and plant breeding. Since Mendel's careful choice of traits led to the illustrious Mendel's Law, scientists not only pay attention to plant breeding through artificial selection and steering natural selection, but also show great interest in the genetic value of these variant morphologies.Rice (Oryza sativa L.) is one of the most important staple crops in the world and more than half of the world's population depends on it as a main source of nuturition ( Figure 1). Owing to its small genome size (~389 Mb), the known genome sequence (International Rice Genome Sequencing Project (IRGSP), 2005), ease of Agrobacterium-mediated transformation (Hiei et al. 1994), and genetic synteny with other cereal genomes (i.e. barley, wheat, maize and sorghum) (Bennetzen and Ma 2003), rice is not only a model monocotyledon for research on plant development, but also a model crop for research on cereals' genomics and evolution.Numerous scientists worldwide contributed great efforts to developments such as Mendelian segregation in rice (van der Stok 1908), an agreed system of rice chromosome numbering, and linkage groups and nomenclature for gene symbolization reported in succession (Kadam and Ramiah 1943; Nagao and Takahashi 1963) to make rice a favored higher plant for molecular and cellular genetic studies before 1980. With the development of molecular biology and mo...

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Identification of Two Blast Resistance Genes in a Rice Variety, Digu

Cited by 61 publications

References 50 publications

Identification of a New Rice Blast Resistance Gene, Pid3, by Genomewide Comparison of Paired Nucleotide-Binding Site–Leucine-Rich Repeat Genes and Their Pseudogene Alleles Between the Two Sequenced Rice Genomes

Identification of a New Rice Blast Resistance Gene, Pid3, by Genomewide Comparison of Paired Nucleotide-Binding Site–Leucine-Rich Repeat Genes and Their Pseudogene Alleles Between the Two Sequenced Rice Genomes

Natural variation of rice blast resistance gene Pi-d2

Recent Progress on Rice Genetics in China

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