Current Status of Conventional and Molecular Interventions for Blast Resistance in Rice

Srivastava, Deepti; Shamim,; Kumar, Mahesh; Mishra, Anurag; Pandey, Pramila; Kumar, Deepak; Yadav, Prashant; Siddiqui, Mohammed Harrish; Singh, Kapildeo N.

doi:10.1016/j.rsci.2017.08.001

Cited by 62 publications

(52 citation statements)

References 197 publications

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“…One of the major roles of association mapping is evaluating the performance of marker-phenotype combination in a group of individuals (Zondervan and Cardon, 2004 mapping plays a crucial role in the identification of possible donor plants that are needed for the improvement (Choudhury et al, 2014) of rice cultivars. Although the markers used in the current study were previously reported to be tightly linked to the blast resistance genes (Srivastava et al, 2017), the association analysis demonstrated the possible effect of these markers on the agro-morphological traits. These results were in accordance with those reported by a genome-wide association study conducted in wheat (Kidane et al, 2017).…”

Section: Genetic Association Between Molecular Markers and The Agro-mmentioning

confidence: 67%

“…The genotypes were genotyped using six DNA markers including single-nucleotide polymorphisms (SNPs; T8042, NSB, and YL153/YL154), simple sequence repeats (SSRs; RM3843 and RM3330) and insertiondeletions (InDels; z4794), which were selected based on their linkage to resistance genes (Srivastava et al, 2017). Primers were obtained from Sangon Biotech, China (Table 2).…”

Section: Marker Genotypingmentioning

confidence: 99%

“…The yield loss is estimated to be between 10% and 30% (Skamnioti et al, 2009). Many approaches have been developed over a century to combat the disease, which primarily dealt with, but were not limited to, chemical control, water management, time of planting, biological control, and breeding (Srivastava et al, 2017). One of the most effective strategies to fight blast disease is to develop resistant varieties.…”

Section: Introductionmentioning

confidence: 99%

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Molecular identification of blast resistance genes in rice genotypes using gene-specific markers

Aldaej¹,

Ismail²,

Rezk³

et al. 2019

bta

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Molecular identification of major blast resistance (R ) genes in rice was performed in a group of 10 rice (Oryza sativa) genotypes from Egypt and Saudi Arabia using six DNA markers (T8042, NSB, YL153/YL154, RM3843, RM3330, and z4794) belonging to three classes: single-nucleotide polymorphisms (SNPs), simple sequence repeats (SSRs), and insertion-deletions (InDels). The markers were chosen based on their linkage to six major R genes (Pit, Pib, Pi39 (t), Pi40 (t), Piz/Piz-t, and Pita /Pita2 ). The studied markers showed low allelic diversity, with the number of alleles identified in a single genotype ranging between two and nine alleles. The Egyptian genotype Eg-N-7 had two alleles of the Pi40 (t) gene, while the Saudi Arabian genotype Al-Ahsa1 had nine alleles that belonged to the seven R genes. The studied genotypes were also assessed for 19 agro-morphological traits.Analysis of variance of the studied traits showed significant differences among the genotypes. The putative associations between molecular markers and the agro-morphological traits were examined using associationmapping approach by employing the unified mixed model. Eight significant marker-trait associations were detected for eight agro-morphological traits (plant height, panicle length, sterility percentage, grain width, grain shape, elongation percentage, gelatinization temperature, and days to maturity). The phenotypic variance shown by each marker ranged between 43% and 65%. The findings of the current study will assist in identifying possible blast resistance genotypes for future rice breeding programs. Additionally, the results highlight the possible dual usage of specific markers in genotypic screening as well as in determining marker-trait associations.

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Section: Genetic Association Between Molecular Markers and The Agro-mmentioning

confidence: 67%

Section: Marker Genotypingmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Molecular identification of blast resistance genes in rice genotypes using gene-specific markers

Aldaej¹,

Ismail²,

Rezk³

et al. 2019

bta

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“…Exploiting the host plant resistance is the viable and most preferred option to manage this disease as the diverse germplasm with wide variation for resistance is available. To date, over 100 blast resistance genes (Zhao et al 2018) and 350 QTL were mapped on rice chromosomes (Singh et al 2015;Ma et al 2015) and 67 such Pi genes were designated (Xinga et al 2015;Srivastava et al 2017). Dominant R genes offer vertical resistance which is race-specific and prone to rapid breakdown in nature leading to "boom and bust" scenario.…”

Section: Introductionmentioning

confidence: 99%

Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance

Devi

Singh

Umakanth

et al. 2020

Rice

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Background: Field resistance is often effective and durable as compared to vertical resistance. The introgression line (INGR15002) derived from O. glumaepatula has proven broad spectrum field resistance for both leaf and neck blast. Results: Quantitative Trait Loci (QTL) analysis of INGR15002, led to the identification of two major QTL-qBL3 contributing about 34% and 32% phenotypic variance towards leaf and neck blast resistance, respectively and qBL7 contributing about 25% of phenotypic variance for leaf blast. Further, qBL3 was fine mapped, narrowed down to 300 kb region and a linked SNP maker was identified. By combining mapping with microarray analysis, a candidate gene, Os03g0281466 (malectin-serine threonine kinase), was identified in the fine mapped region and named as Pi68(t). The nucleotide variations in the coding as well as upstream region of the gene was identified through cloning and sequence analysis of Pi68(t) alleles. These significant variations led to the non-synonymous changes in the protein as well as variations (presence/absence) in four important motifs (W-box element; MYC element; TCP element; BIHD1OS) at promoter region those are associated with resistance and susceptible reactions. The effect of qBL3 was validated by its introgression into BPT5204 (susceptible variety) through marker-assisted selection and progeny exhibiting resistance to both leaf and neck blast was identified. Further, the utility of linked markers of Pi68(t) in the blast breeding programs was demonstrated in elite germplasm lines. Conclusions: This is the first report on the identification and characterization of major effect QTL from O. glumaepatula, which led to the identification of a putative candidate gene, Pi68(t), which confers field resistance to leaf as well as neck blast in rice.

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“…The disease causes a decrease in photosynthetic activity, poor circulation of nutrients, and can lead to leaf death [4]. Fungicide application is one of the main management methods [5].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Association of Rice Response to Blast Fungus Identifies Loci for Robust Resistance Under High Nitrogen.

Frontini

Boisnard²,

Frouin

et al. 2020

Preprint

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Background: Nitrogen fertilization is known to increase disease susceptibility, a phenomenon called Nitrogen-Induced Susceptibility (NIS). In rice, this phenomenon has been observed in infections with the blast fungus Magnaporthe oryzae. A previous classical genetic study revealed a locus (NIS1) that enhances susceptibility to rice blast under high nitrogen fertilization. In order to further address the underlying genetics of plasticity in susceptibility to rice blast after fertilization, we analyzed NIS under greenhouse-controlled conditions in a panel of 139 temperate japonica rice strains. A genome-wide association analysis was conducted to identify loci potentially involved in NIS by comparing susceptibility loci identified under high and low nitrogen conditions, an approach allowing for the identification of loci validated across different nitrogen environments. We also used a novel NIS Index to identify loci potentially contributing to plasticity in susceptibility under different nitrogen fertilization regimes.Results: A global NIS effect was observed in the population, with the density of lesions increasing by 8%, on average, under high nitrogen fertilization. Three new QTL, other than NIS1, were identified. A rare allele of the RRobN1 locus on chromosome 6 provides robust resistance in high and low nitrogen environments. A frequent allele of the NIS2 locus, on chromosome 5, exacerbates blast susceptibility under the high nitrogen condition. Finally, an allele of NIS3, on chromosome 10, buffers the increase of susceptibility arising from nitrogen fertilization but increases global levels of susceptibility. This allele is almost fixed in temperate japonicas, as a probable consequence of genetic hitchhiking with a locus involved in cold stress adaptation.Conclusions: Our results extend to an entire rice subspecies the initial finding that nitrogen increases rice blast susceptibility. We demonstrate the usefulness of estimating plasticity for the identification of novel loci involved in the response of rice to the blast fungus under different nitrogen regimes.

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Current Status of Conventional and Molecular Interventions for Blast Resistance in Rice

Cited by 62 publications

References 197 publications

Molecular identification of blast resistance genes in rice genotypes using gene-specific markers

Molecular identification of blast resistance genes in rice genotypes using gene-specific markers

Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance

Genome-Wide Association of Rice Response to Blast Fungus Identifies Loci for Robust Resistance Under High Nitrogen.

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