Functional markers based molecular characterization and cloning of resistance gene analogs encoding NBS-LRR disease resistance proteins in finger millet (Eleusine coracana)

Panwar, Preety; Jha, Anand K.; Pandey, Puja; Gupta, Arun Kumar; Kumar, Anil

doi:10.1007/s11033-010-0452-0

Cited by 41 publications

(17 citation statements)

References 39 publications

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“…Identification of Fr genes themselves would obviate the need to use SNPs in linked genes as surrogates for marker assisted selection. In several plant systems, disease resistance genes have been molecularly identified and this creates useful tools for breeders to monitor their transmission to progeny [37][38][39][40][41]. Many of these resistance genes have been identified in genomic mapping studies, and as the loblolly pine draft genome continues to improve with additional information, integration of the genetic and physical maps around Fr loci should be feasible.…”

Section: Identifying Fr Genes: Paths Forwardmentioning

confidence: 99%

Mapping Fusiform Rust Resistance Genes within a Complex Mating Design of Loblolly Pine

Quesada

Resende

Muñoz

et al. 2014

Forests

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Fusiform rust resistance can involve gene-for-gene interactions where resistance (Fr) genes in the host interact with corresponding avirulence genes in the pathogen, Cronartium quercuum f.sp. fusiforme (Cqf). Here, we identify trees with Fr genes in a loblolly pine population derived from a complex mating design challenged with two Cqf inocula (one gall and 10 gall mixtures). We used single nucleotide polymorphism (SNP) genotypes at sufficient density to ensure linkage between segregating markers and Fr genes identifying SNPs that explained high proportions of variance in disease incidence using BayesC, that also were significant using Bayesian Association with Missing Data OPEN ACCESSForests 2014, 5 348 (BAMD) software. Two SNPs mapped near Fr1 and generated significant LOD scores in single marker regression analyses for Fr1/fr1 parent 17 as well as four other parents. One SNP mapped near Fr8 and was significant for parent 28. Two SNPs mapped to linkage groups not previously shown to contain Fr genes and were significant for three parents. Parent 2 showed evidence of Fr gene stacking. Our results suggest that it is feasible to identify trees segregating for Fr genes, and to map Fr genes, based on parental analysis of SNPs that cosegregate with disease incidence in designed resistance screening trials.

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Section: Identifying Fr Genes: Paths Forwardmentioning

confidence: 99%

Mapping Fusiform Rust Resistance Genes within a Complex Mating Design of Loblolly Pine

Quesada

Resende

Muñoz

et al. 2014

Forests

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“…Since an array of genetic diversity for drought stress tolerance is available in small millets germplasm, systematic phenotyping and genotyping of germplasm challenged under field-level drought condition will be ideal for association and MAS studies. To develop molecular markers for MAS and breeding in finger millet for fungal blast disease resistance, Panwar et al (2011) have reported developing EST-based resistance gene analogue (RGA) markers. A comparative genomics approach was used to establish association of SSR markers to finger millet blast disease resistant QTL (Babu et al, 2014).…”

Section: A Molecular Marker Resources and Genetic Mapsmentioning

confidence: 99%

Genetic and Genomic Resources of Small Millets

Saha

Gowda²,

Arya

et al. 2016

Critical Reviews in Plant Sciences

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Small millets are very promising agricultural entity to ensure global food security. They gained remarkable importance in agriculture due to their resilience to climatic changes and increasing demand for nutritious food and feed. The genetic variability in the core and mini-core germplasm of small millets was characterized for nutritional composition and capacity to tolerate abiotic stresses that can be infused in breeding programs. Other than the foxtail millet, availability of genomic information in small millets is far below the mark for use in marker-assisted breeding and other genetic improvement programs. The genome sequence of foxtail millet has recently triggered a plethora of post-genomic analysis and envisaged foxtail millet as a model organism for the C 4 grasses and bioenergy research. Recent developments in the next-generation sequencing technologies enabled us, with the simultaneous discovery of high-throughput markers and multiplexed genotyping of germplasm, to speedup markerassisted breeding. In this context, an in-depth analysis of the wealth of diverse germplasm resources and future perspectives of integrating genomics in genome-wide marker-trait association and breeding in small millets is worthy. ABBREVIATIONS cDNA D complementary DNA cM D centimorgan DREB D dehydration response element binding FAO D Food and Agricultural Organization ICAR D Indian Council of Agricultural Research ICRISAT D International Crops Research Institute for the Semi-Arid Tropics Mb D mega basepairs Mha D million hectares Mt D million tonnes Mya D million years ago NARS D National Agricultural Research System NCBI D National Center for Biotechnology Information NGS D next-generation sequencing PCR D polymerase chain reaction PGR D plant genetic resources SNP D single nucleotide polymorphism SSR D simple sequence repeat QTLs D quantitative trait loci

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“…Such examples are the development of SNPbased FMM for SiDREB2 gene involved in dehydration response in foxtail millet (Lata & Prasad, 2013). The ESTbased SSR markers were developed for NBS-LRR R-gene in finger millet (Panwar et al, 2011) to screen blast resistance. Genome wide EST-SSRs were developed in pearl millet using available EST sequence information in the database (Senthilvel et al, 2008).…”

Section: Fmms For Agronomic Traitsmentioning

confidence: 99%

Functional molecular markers for crop improvement

Kage

Kumar

Dhokane

et al. 2015

Critical Reviews in Biotechnology

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A tremendous decline in cultivable land and resources and a huge increase in food demand calls for immediate attention to crop improvement. Though molecular plant breeding serves as a viable solution and is considered as "foundation for twenty-first century crop improvement", a major stumbling block for crop improvement is the availability of a limited functional gene pool for cereal crops. Advancement in the next generation sequencing (NGS) technologies integrated with tools like metabolomics, proteomics and association mapping studies have facilitated the identification of candidate genes, their allelic variants and opened new avenues to accelerate crop improvement through development and use of functional molecular markers (FMMs). The FMMs are developed from the sequence polymorphisms present within functional gene(s) which are associated with phenotypic trait variations. Since FMMs obviate the problems associated with random DNA markers, these are considered as "the holy grail" of plant breeders who employ targeted marker assisted selections (MAS) for crop improvement. This review article attempts to consider the current resources and novel methods such as metabolomics, proteomics and association studies for the identification of candidate genes and their validation through virus-induced gene silencing (VIGS) for the development of FMMs. A number of examples where the FMMs have been developed and used for the improvement of cereal crops for agronomic, food quality, disease resistance and abiotic stress tolerance traits have been considered.

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Functional markers based molecular characterization and cloning of resistance gene analogs encoding NBS-LRR disease resistance proteins in finger millet (Eleusine coracana)

Cited by 41 publications

References 39 publications

Mapping Fusiform Rust Resistance Genes within a Complex Mating Design of Loblolly Pine

Mapping Fusiform Rust Resistance Genes within a Complex Mating Design of Loblolly Pine

Genetic and Genomic Resources of Small Millets

Functional molecular markers for crop improvement

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