Comprehensive evaluation of resistance effects of pyramiding lines with different broad-spectrum resistance genes against Magnaporthe oryzae in rice (Oryza sativa L.)

Wu, Yanyou; Xiao, Ning; Chen, Yu; Yu, Ling; Pan, Cunhong; Li, Yuhong; Zhang, Xiaoxiang; Huang, Niansheng; Ji, Hongjuan; Dai, Zhengyuan; Chen, Xijun; Li, Aihong

doi:10.1186/s12284-019-0264-3

Cited by 51 publications

(43 citation statements)

References 50 publications

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“…This high abundance of functional NLR genes in the Tetep genome is likely the genetic basis for the broad-spectrum resistance of Tetep. However, as none of the 219 cloned NLR genes showed resistance to all of the 12 pathogen strains, multiple NLR genes are apparently required for broad-spectrum resistance, as also suggested by recent studies (5,34,35). On the other hand, each of the 12 pathogen strains was resisted on average by 19 cloned NLR genes.…”

Section: Discussionmentioning

confidence: 59%

Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence

Wang

Zhao

Zhang

et al. 2019

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

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Tetep is a rice cultivar known for broad-spectrum resistance to blast, a devastating fungal disease. The molecular basis for its broad-spectrum resistance is still poorly understood. Is it because Tetep has many moreNLRgenes than other cultivars? Or does Tetep possess multiple majorNLRgenes that can individually confer broad-spectrum resistance to blast? Moreover, are there many interactingNLRpairs in the Tetep genome? We sequenced its genome, obtained a high-quality assembly, and annotated 455 nucleotide-binding site leucine-rich repeat (NLR) genes. We cloned and tested 219NLRgenes as transgenes in 2 susceptible cultivars using 5 to 12 diversified pathogen strains; in many cases, fewer than 12 strains were successfully cultured for testing. Ninety clonedNLRs showed resistance to 1 or more pathogen strains and each strain was recognized by multipleNLRs. However, fewNLRs showed resistance to >6 strains, so multipleNLRs are apparently required for Tetep’s broad-spectrum resistance to blast. This was further supported by the pedigree analyses, which suggested a correlation between resistance and the number of Tetep-derivedNLRs. In developing a method to identifyNLRpairs each of which functions as a unit, we found that >20% of theNLRs in the Tetep and 3 other rice genomes are paired. Finally, we designed an extensive set of molecular markers for rapidly introducing clustered and pairedNLRs in the Tetep genome for breeding new resistant cultivars. This study increased our understanding of the genetic basis of broad-spectrum blast resistance in rice.

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Section: Discussionmentioning

confidence: 59%

Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence

Wang

Zhao

Zhang

et al. 2019

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

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“…Recently, Wei et al proposed a strategy of fine design breeding and realized the 57 improvement of yield and plant architecture via the RiceNavi system [ 18 ]. In this study, we identified the key genes could be used to balance yield, eating quality, and blast resistance through GWAS and complete the entire process without introducing any linkage drag, which was much quicker and more precise than conventional breeding [ 44 – 46 ].…”

Section: Discussionmentioning

confidence: 99%

Genomic insight into balancing high yield, good quality, and blast resistance of japonica rice

Xiao

Pan²,

Li³

et al. 2021

Genome Biol

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Background Balancing the yield, quality and resistance to disease is a daunting challenge in crop breeding due to the negative relationship among these traits. Large-scale genomic landscape analysis of germplasm resources is considered to be an efficient approach to dissect the genetic basis of the complex traits. Central China is one of the main regions where the japonica rice is produced. However, dozens of high-yield rice varieties in this region still exist with low quality or susceptibility to blast disease, severely limiting their application in rice production. Results Here, we re-sequence 200 japonica rice varieties grown in central China over the past 30 years and analyze the genetic structure of these cultivars using 2.4 million polymorphic SNP markers. Genome-wide association mapping and selection scans indicate that strong selection for high-yield and taste quality associated with low-amylose content may have led to the loss of resistance to the rice blast fungus Magnaporthe oryzae. By extensive bioinformatic analyses of yield components, resistance to rice blast, and taste quality, we identify several superior alleles for these traits in the population. Based on this information, we successfully introduce excellent taste quality and blast-resistant alleles into the background of two high-yield cultivars and develop two elite lines, XY99 and JXY1, with excellent taste, high yield, and broad-spectrum of blast resistance. Conclusions This is the first large-scale genomic landscape analysis of japonica rice varieties grown in central China and we demonstrate a balancing of multiple agronomic traits by genomic-based strategy.

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“…Although the use of dominant resistance ( R ) genes is popular because these genes confer complete resistance to a set of pathogen strains and can easily be selected in breeding programs, the effectiveness of R genes does not last long because of rapid mutations and changes in virulence in the pathogen populations (Lapin and Van den Ackerveken, 2013; Wang and Valent, 2017). Therefore, increasing attention has focused on the pyramiding of several R genes in crop plants (Dash et al, 2016; Wu et al, 2019; Xiao et al, 2019). For example, the pyramiding of Pi54 / Piz‐t , Pi35 / pi21 , and Pigm / Pi37 resulted in a rice cultivar with BSR against Magnaporthe oryzae (Xiao et al, 2016; Jiang et al, 2019).…”

Section: Introductionmentioning

confidence: 99%

Engineering broad‐spectrum disease‐resistant rice by editing multiple susceptibility genes

Tao

Shi

et al. 2021

JIPB

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Rice blast and bacterial blight are important diseases of rice (Oryza sativa) caused by the fungus Magnaporthe oryzae and the bacterium Xanthomonas oryzae pv. oryzae (Xoo), respectively. Breeding rice varieties for broad‐spectrum resistance is considered the most effective and sustainable approach to controlling both diseases. Although dominant resistance genes have been extensively used in rice breeding and production, generating disease‐resistant varieties by altering susceptibility (S) genes that facilitate pathogen compatibility remains unexplored. Here, using CRISPR/Cas9 technology, we generated loss‐of‐function mutants of the S genes Pi21 and Bsr‐d1 and showed that they had increased resistance to M. oryzae. We also generated a knockout mutant of the S gene Xa5 that showed increased resistance to Xoo. Remarkably, a triple mutant of all three S genes had significantly enhanced resistance to both M. oryzae and Xoo. Moreover, the triple mutant was comparable to the wild type in regard to key agronomic traits, including plant height, effective panicle number per plant, grain number per panicle, seed setting rate, and thousand‐grain weight. These results demonstrate that the simultaneous editing of multiple S genes is a powerful strategy for generating new rice varieties with broad‐spectrum resistance.

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Comprehensive evaluation of resistance effects of pyramiding lines with different broad-spectrum resistance genes against Magnaporthe oryzae in rice (Oryza sativa L.)

Cited by 51 publications

References 50 publications

Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence

Large-scale identification and functional analysis of NLR genes in blast resistance in the Tetep rice genome sequence

Genomic insight into balancing high yield, good quality, and blast resistance of japonica rice

Engineering broad‐spectrum disease‐resistant rice by editing multiple susceptibility genes

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