Candidate genes and molecular markers associated with brown planthopper (Nilaparvata lugens Stål) resistance in rice cultivar Rathu Heenati

Kusumawati, Lucia; Chumwong, Pantharika; Jamboonsri, Watchareewan; Wanchana, Samart; Siangliw, Jonaliza L.; Siangliw, Meechai; Khanthong, Srisawat; Vanavichit, Apichart; Kamolsukyeunyong, Wintai; Toojinda, Theerayut

doi:10.1007/s11032-018-0847-5

Cited by 7 publications

(6 citation statements)

References 70 publications

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“…Similarly, Bph32 encodes an unknown protein holding a signal peptide and SCOP d1gkna2 domain ( Ren et al, 2016 ). SNPs associated with these genes contained positive alleles in the original donors PTB33 ( Bph32 ) and RathuHeenati ( Bph17 and Bph32 ), confirming the presence of these loci as reported in previous studies by Liu et al (2015) , Ren et al (2016) , Jena et al (2017) , and Kusumawati et al (2018) . As the combination of multiple BPH-specific genes is an effective strategy to develop cultivars with broad-spectrum resistance, the five digenic lines viz, M201, M272, M344, RathuHeenati, and RathuHeenati accession with Bph17 and Bph32 genes could also be used for introducing BPH resistance into popular varieties through the MAB approach.…”

Section: Discussionsupporting

confidence: 88%

Development and Validation of Diagnostic KASP Markers for Brown Planthopper Resistance in Rice

et al. 2022

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Rice (Oryza sativa L.) is an important source of nutrition for the world’s burgeoning population that often faces yield loss due to infestation by the brown planthopper (BPH, Nilaparvata lugens (Stål)). The development of rice cultivars with BPH resistance is one of the crucial precedences in rice breeding programs. Recent progress in high-throughput SNP-based genotyping technology has made it possible to develop markers linked to the BPH more quickly than ever before. With this view, a genome-wide association study was undertaken for deriving marker-trait associations with BPH damage scores and SNPs from genotyping-by-sequencing data of 391 multi-parent advanced generation inter-cross (MAGIC) lines. A total of 23 significant SNPs involved in stress resistance pathways were selected from a general linear model along with 31 SNPs reported from a FarmCPU model in previous studies. Of these 54 SNPs, 20 were selected in such a way to cover 13 stress-related genes. Kompetitive allele-specific PCR (KASP) assays were designed for the 20 selected SNPs and were subsequently used in validating the genotypes that were identified, six SNPs, viz, snpOS00912, snpOS00915, snpOS00922, snpOS00923, snpOS00927, and snpOS00929 as efficient in distinguishing the genotypes into BPH-resistant and susceptible clusters. Bph17 and Bph32 genes that are highly effective against the biotype 4 of the BPH have been validated by gene specific SNPs with favorable alleles in M201, M272, M344, RathuHeenati, and RathuHeenati accession. These identified genotypes could be useful as donors for transferring BPH resistance into popular varieties with marker-assisted selection using these diagnostic SNPs. The resistant lines and the significant SNPs unearthed from our study can be useful in developing BPH-resistant varieties after validating them in biparental populations with the potential usefulness of SNPs as causal markers.

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Section: Discussionsupporting

confidence: 88%

Development and Validation of Diagnostic KASP Markers for Brown Planthopper Resistance in Rice

et al. 2022

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“…Through the QTL mapping approach, single nucleotide polymorphism (SNP) linked with QTL governing the resistance to sunn pests (Eurygaster integriceps Puton) was identified in wheat (Emebiri et al 2017). In rice also, SNPs associated with resistance against brown planthopper (Nilaparvata lugens Stål) were reported (Kusumawati et al 2018). These approaches have not been applied to non-model forest tree species due to a lack of background genomic information and the molecular level physiological mechanism regulating the resistance.…”

Section: Plants Exhibit a Considerable Multitude Of Natural Variation...mentioning

confidence: 99%

“…2017). In rice also, SNPs associated with resistance against brown planthopper ( Nilaparvata lugens Stål) were reported (Kusumawati et al . 2018).…”

Section: Introductionmentioning

confidence: 99%

Genetic variation associated with relative resistance in teak (Tectona grandis L. f.) against the leaf skeletonizer, Eutectona machaeralis Walker

Vaishnav

Kulkarni

Rana³

et al. 2022

Preprint

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Background: Photosynthesizing tissue of teak (Tectona grandis L. f.) foliage is damaged by a host-specific insect pest called leaf skeletonizer (Eutectona machaeralis Walker) that severely eclipses annual growth increment and carbon sequestration of natural populations and plantation of teak. Gene-assisted selection of relatively resistant teak clones may efficiently control the damage in the populations and plantations. The present investigation aimed to identify genetic variation associated with relative resistance in teak against the pest. Method: The investigation was carried out on 106 teak plus tree clones assembled at the National Teak Germplasm Bank from the Indian meta-population of teak. Resistance data were obtained recording the ocular damage caused by the pest to teak accessions for four years. Genotyping of the teak accessions was performed with 21 co-dominant markers and marker-trait association mapping was performed confirming the genetic structure of the germplasm bank and linkage disequilibrium (LD) among the marker loci. Results: The sampled teak accessions exhibited a low albeit highly admixed genetic structure (FST=0.07) and low level of LD (16.66%) among loci, making them suitable for high-resolution association analysis. A significant correlation (p≤0.01, R2=0.67) was obtained between intra-specific heterozygosity and the relative resistance against the pest. A marker locus CCoAMT-1 representing the enzyme caffeoyl-CoA O-methyltransferase of phenylpropanoid pathway was also found significantly (p≤0.05) associated with the relative resistance against the pest explaining 6.6% of the phenotypic variation (R2=0.066) through positive effect (0.57) on the trait. Conclusions: The present work exhibited a significant correlation of intra-specific heterozygosity with relative resistance in teak against a pest. It is the first report on teak identifying genetic markers associated with relative resistance against the pest. The marker can be applied for the selection of resistant planting stock for breeding and commercial plantation. Further investigation can be performed to understand the expression level polymorphism linked with the resistance applying next-generation sequencing approaches.

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“…Host‐plant resistance in rice is considered to be the most practical and economical approach for controlling rice planthoppers . In addition to the previously documented 84 major genes/quantitative trait loci for planthopper resistance in rice, at least 13 new major genes/quantitative trait loci for planthopper resistance in rice have been reported over the last 2 years, including Bph30 (AC‐1613), Bph31 , Bph32 (Rathu Heenati), Bph33 , Bph33 ( t ), Bph34 , qSBPH5 , qSBPH7 , qSBPH10 , qWBPH3.1 , qWBPH3.2 , qWBPH11 and qWBPH12 . Moreover, three unnamed recessive genes for BPH resistance have been reported from two newly identified rice germplasm sources (PHS29 and MRST3) .…”

Section: Molecular Players Of Rice Originmentioning

confidence: 99%

Current understanding of the molecular players involved in resistance to rice planthoppers

Yang

Zhang

2019

Pest Management Science

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Rice planthoppers are the most widespread and destructive pest of rice. Planthopper control depends greatly on the understanding of molecular players involved in resistance to planthoppers. This paper summarizes the recent progress in the understanding of some molecular players involved in resistance to planthoppers and the mechanisms involved. Recent researches showed that host‐plant resistance is the most promising sustainable approach for controlling planthoppers. Planthopper‐resistant varieties with a host‐plant resistance gene have been released for rice products. Integrated planthopper management is a proposed strategy to prolong the durability of host‐plant resistance. Bacillus spp. and their gene products or insect pathogenic fungi have great potential for application in the biological control of planthoppers. Enhancement of the activity of the natural enemies of planthoppers would be more cost‐effective and environmentally friendly. Various molecular processes regulate rice–planthopper interactions. Rice encounters planthopper attacks via transcription factors, secondary metabolites, and signaling networks in which phytohormones have central roles. Maintenance of cell wall integrity and lignification act as physical barriers. Indirect defenses of rice are regulated via chemical elicitors, honeydew‐associated elicitor, amendment with silicon and biochar, and salivary protein of BPH as elicitor or effector. Further research directions on planthopper control and rice defense against planthoppers are also put forward. © 2019 Society of Chemical Industry

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Candidate genes and molecular markers associated with brown planthopper (Nilaparvata lugens Stål) resistance in rice cultivar Rathu Heenati

Cited by 7 publications

References 70 publications

Development and Validation of Diagnostic KASP Markers for Brown Planthopper Resistance in Rice

Development and Validation of Diagnostic KASP Markers for Brown Planthopper Resistance in Rice

Genetic variation associated with relative resistance in teak (Tectona grandis L. f.) against the leaf skeletonizer, Eutectona machaeralis Walker

Current understanding of the molecular players involved in resistance to rice planthoppers

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