Identification of Anchored Simple Sequence Repeat Markers Associated with Calcium Content in Finger Millet (Eleusine coracana)

Kumar, Anil; Yadav, Shambhavi; Panwar, Preety; Gaur, Vikram Singh; Sood, Salej

doi:10.1007/s40011-013-0296-1

Cited by 36 publications

(20 citation statements)

References 31 publications

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“…Similarly, Kalyana Babu et al (2014a) studied a subset of the large germplasm representing minicore collection and few Indian genotypes and reported existence of two sub-populations which was in correspondence with the geographical origin of the accessions. However, in the study of Kumar et al (2015a), the structure analysis did not classify the 113 Asian coracana accessions for calcium content variation and distributed them in all four subpopulations without biased distribution toward any particular subpopulation.…”

Section: Comparative Genomics Applications In the Cropmentioning

confidence: 94%

“…Utilizing the calcium transporters, calcium binding proteins and calcium-regulated protein kinases genes of rice, sorghum and other Gramineae members, 146 genic SSRs were designed to assay polymorphism and detect marker trait association for calcium content variation in 113 finger millet genotypes with calcium content varying between <100 mg/100 g and 450 mg/100 g grains (Yadav et al, 2014; Kumar et al, 2015a). However, no structural or length polymorphism was observed in the amplicons, indicating a conserved behavior of SSRs among the target candidate genes.…”

Section: Comparative Genomics Applications In the Cropmentioning

confidence: 99%

“…The 220 bp allele of SSR locus OM5 was found to be associated with high tryptophan containing genotypes particularly exotic genotypes and North Western Himalayan genotypes of Indian Sub-continent (Kalyana Babu et al, 2014c). Being an important nutritional trait in finger millet, efforts were also made to identify linked markers for calcium variation in the finger millet grains, and nine markers were found to be associated with calcium content in finger millet grains (Kumar et al, 2015a; Table 2). However, the number of studies and the material used do not exhibit a progress in marker assisted selection for important traits in the crop.…”

Section: Association Mapping Of Important Traitsmentioning

confidence: 99%

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Gene Discovery and Advances in Finger Millet [Eleusine coracana (L.) Gaertn.] Genomics—An Important Nutri-Cereal of Future

et al. 2016

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The rapid strides in molecular marker technologies followed by genomics, and next generation sequencing advancements in three major crops (rice, maize and wheat) of the world have given opportunities for their use in the orphan, but highly valuable future crops, including finger millet [Eleusine coracana (L.) Gaertn.]. Finger millet has many special agronomic and nutritional characteristics, which make it an indispensable crop in arid, semi-arid, hilly and tribal areas of India and Africa. The crop has proven its adaptability in harsh conditions and has shown resilience to climate change. The adaptability traits of finger millet have shown the advantage over major cereal grains under stress conditions, revealing it as a storehouse of important genomic resources for crop improvement. Although new technologies for genomic studies are now available, progress in identifying and tapping these important alleles or genes is lacking. RAPDs were the default choice for genetic diversity studies in the crop until the last decade, but the subsequent development of SSRs and comparative genomics paved the way for the marker assisted selection in finger millet. Resistance gene homologs from NBS-LRR region of finger millet for blast and sequence variants for nutritional traits from other cereals have been developed and used invariably. Population structure analysis studies exhibit 2–4 sub-populations in the finger millet gene pool with separate grouping of Indian and exotic genotypes. Recently, the omics technologies have been efficiently applied to understand the nutritional variation, drought tolerance and gene mining. Progress has also occurred with respect to transgenics development. This review presents the current biotechnological advancements along with research gaps and future perspective of genomic research in finger millet.

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Section: Comparative Genomics Applications In the Cropmentioning

confidence: 94%

Section: Comparative Genomics Applications In the Cropmentioning

confidence: 99%

Section: Association Mapping Of Important Traitsmentioning

confidence: 99%

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Gene Discovery and Advances in Finger Millet [Eleusine coracana (L.) Gaertn.] Genomics—An Important Nutri-Cereal of Future

et al. 2016

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“…Association mapping studies for nutritional quality traits identified two QTLs associated with tryptophan content and one QTL associated with protein content, and the marker associated with tryptophan content showed an inverse relationship with protein content in finger millet (Babu et al, 2014c). Further, nine markers were identified to be associated with calcium content (Kumar et al, 2015b). Apart from SSR and SNP markers, the orthologous genes for amino acid composition and calcium content in grains of finger millet were identified and the SSR variations within these genes among the accessions differing in protein and calcium content were used for developing genespecific functional SSR markers (Reddy et al, 2011;Nirgude et al, 2014).…”

Section: Marker Trait Associations In Finger Milletmentioning

confidence: 98%

Healthy and Resilient Cereals and Pseudo-Cereals for Marginal Agriculture: Molecular Advances for Improving Nutrient Bioavailability

et al. 2020

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With the ever-increasing world population, an extra 1.5 billion mouths need to be fed by 2050 with continuously dwindling arable land. Hence, it is imperative that extra food come from the marginal lands that are expected to be unsuitable for growing major staple crops under the adverse climate change scenario. Crop diversity provides right alternatives for marginal environments to improve food, feed, and nutritional security. Well-adapted and climate-resilient crops will be the best fit for such a scenario to produce seed and biomass. The minor millets are known for their high nutritional profile and better resilience for several abiotic stresses that make them the suitable crops for arid and salt-affected soils and poor-quality waters. Finger millet (Eleucine coracana) and foxtail millet (Setaria italica), also considered as orphan crops, are highly tolerant grass crop species that grow well in marginal and degraded lands of Africa and Asia with better nutritional profile. Another category of grains, called pseudo-cereals, is considered as rich foods because of their protein quality and content, high mineral content, and healthy and balance food quality. Quinoa (Chenopodium quinoa), amaranth (Amaranthus sp.), and buckwheat (Fagopyrum esculentum) fall under this category. Nevertheless, both minor millets and pseudo-cereals are morphologically different, although similar for micronutrient bioavailability, and their grains are gluten-free. The cultivation of these millets can make dry lands productive and ensure future food as well as nutritional security. Although the natural nutrient profile of these crop plant species is remarkably good, little development has occurred in advances in molecular genetics and breeding efforts to improve the bioavailability of nutrients. Recent advances in NGS have enabled the genome and transcriptome sequencing of these millets and pseudo-cereals for the faster development of molecular markers and application in molecular breeding. Genomic information on finger millet (1,196 Mb with 85,243 genes); S. italica, a model small millet (well-annotated draft genome of 420 Mb with 38,801 protein-coding genes); amaranth (466 Mb genome and 23,059 protein-coding genes); buckwheat (genome size of 1.12 Gb with 35,816 annotated genes); and quinoa (genome size of 1.5 Gb containing 54,438 protein-coding genes) could pave the way for the genetic improvement of these grains. These genomic resources are an important first step toward genetic improvement of these crops. This

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“…Because of its nutritional prominence, genetic improvement of finger millet is a major breeding objectives worldwide [ 21 ]. Currently, this crop is being improved for calcium accumulation [ 22 , 23 ] and nitrogen use efficiency [ 24 – 27 ]. However, efforts to improve tolerance to P deficiency have received less attention [ 28 ].…”

Section: Introductionmentioning

confidence: 99%

Identification of putative QTLs for seedling stage phosphorus starvation response in finger millet (Eleusine coracana L. Gaertn.) by association mapping and cross species synteny analysis

Ramakrishnan¹,

Ceasar

Vinod

et al. 2017

PLoS ONE

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A germplasm assembly of 128 finger millet genotypes from 18 countries was evaluated for seedling-stage phosphorus (P) responses by growing them in P sufficient (Psuf) and P deficient (Pdef) treatments. Majority of the genotypes showed adaptive responses to low P condition. Based on phenotype behaviour using the best linear unbiased predictors for each trait, genotypes were classified into, P responsive, low P tolerant and P non-responsive types. Based on the overall phenotype performance under Pdef, 10 genotypes were identified as low P tolerants. The low P tolerant genotypes were characterised by increased shoot and root length and increased root hair induction with longer root hairs under Pdef, than under Psuf. Association mapping of P response traits using mixed linear models revealed four quantitative trait loci (QTLs). Two QTLs (qLRDW.1 and qLRDW.2) for low P response affecting root dry weight explained over 10% phenotypic variation. In silico synteny analysis across grass genomes for these QTLs identified putative candidate genes such as Ser-Thr kinase and transcription factors such as WRKY and basic helix-loop-helix (bHLH). The QTLs for response under Psuf were mapped for traits such as shoot dry weight (qHSDW.1) and root length (qHRL.1). Putative associations of these QTLs over the syntenous regions on the grass genomes revealed proximity to cytochrome P450, phosphate transporter and pectin methylesterase inhibitor (PMEI) genes. This is the first report of the extent of phenotypic variability for P response in finger millet genotypes during seedling-stage, along with the QTLs and putative candidate genes associated with P starvation tolerance.

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Identification of Anchored Simple Sequence Repeat Markers Associated with Calcium Content in Finger Millet (Eleusine coracana)

Cited by 36 publications

References 31 publications

Gene Discovery and Advances in Finger Millet [Eleusine coracana (L.) Gaertn.] Genomics—An Important Nutri-Cereal of Future

Gene Discovery and Advances in Finger Millet [Eleusine coracana (L.) Gaertn.] Genomics—An Important Nutri-Cereal of Future

Healthy and Resilient Cereals and Pseudo-Cereals for Marginal Agriculture: Molecular Advances for Improving Nutrient Bioavailability

Identification of putative QTLs for seedling stage phosphorus starvation response in finger millet (Eleusine coracana L. Gaertn.) by association mapping and cross species synteny analysis

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