Development and validation of class I SSR markers targeting (GATA)n repeat motifs in rice

@article{Rajendrakumar2009DevelopmentAV,
  title={Development and validation of class I SSR markers targeting (GATA)n repeat motifs in rice},
  author={Passoupathy Rajendrakumar and Akshaya Kumar Biswal and Kannabiran Sakthivel and Maganti Sheshu Madhav and Chirravuri Naga Neeraja and Sena M. Balachandran and Kommoju Srinivasarao and Podishetty Natarajkumar and Y. Hari and Kalidindi Sujatha and Raman Meenakshi Sundaram},
  journal={Euphytica},
  year={2009},
  volume={169},
  pages={263-271},
  url={https://api.semanticscholar.org/CorpusID:2294676}
}
Class I rice microsatellites in the rice genome with (GATA)n motifs, in-silico, and their potential as molecular markers are identified, representing a new set of markers in rice will be highly useful for genetic studies and marker-assisted selection.
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14 Citations
Highly Influential Citations
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Background Citations
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Methods Citations
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Results Citations
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14 Citations

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Distribution and Associations of GATA Repeats in Rice Genome

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Agro-Morpho and Molecular Characterization of World Mini core Collections using Hypervariable Microsatellite Markers in Rice (Oryza sativa L.)

Mini core collection plays an important role in evaluating genetic resources hence, an attempt was made to characterize world mini core collections on the basis of 35 uniformly distributed hyper variable SSR molecular markers, indicating high level of polymorphism among the analyzed rice lines.

Identification of informative EST-SSR markers capable of distinguishing popular Indian rice varieties and their utilization in seed genetic purity assessments

To validate the utility of the EST- SSR markers in genetic purity assessment, foundation seed lotsof MTU 1001, Tellahamsa, Krishnahamsa and Vikas were assessed for their genetic purity using both EST-SSRmarker analysis and 12 morphological characters in a grow-out test (GOT).

Molecular diversity analysis in rice (Oryza sativa L.) using SSR markers

Assessment of genetic diversity among 27 rice cultivars with 12 SSR markers revealed presence of considerable diversity in the genotypes studied and the most diverse cultivars were IR 98846-2-1- 2-3 and IR 14D201.

Molecular fingerprinting of the elite, fine-grain type rice cultivar, Samba Mahsuri (BPT 5204) and assessment of genetic purity in seed-lots of the variety using SSR markers

A rapid and cost effective two-dimensional bulked DNA sampling strategy was designed and validated and could unambiguously differentiate Samba Mahsuri from other fine-grain type varieties through multiplex-PCR.

Parental Polymorphism Survey for Drought Tolerance In Rice By Using SSR Marker

Rice (Oryza sativa L.) is one of the most-produced and consumed grains worldwide. Drought is a major environmental stress seriously limiting plant growth and crop productivity. In this study 60 SSR…

Hybridity Assessment in Experimental F1s of Rice (Oryza sativa L.) using Microsatellite Markers

Hybridity in all the 16 tested F1 plants derived from the crossing of salinity and/or submergence tolerant landraces with the high-yielding popular varieties of the west coast region of India was confirmed.

43 References

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Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.)

The results indicate that the genomic distribution of microsatellites in rice appears to be random, with no obvious bias for, or clustering in particular regions, and that amplification in wild relatives of Oryza sativa is reliable in species most closely related to cultivated rice but becomes less successful as the genetic distance increases.

Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.).

A total of 2740 experimentally confirmed SSR markers for rice are made available, or approximately one SSR every 157 kb, with AT-rich microsatellites had the longest average repeat tracts, while GC-rich motifs were the shortest.

Genetic analysis of traditional and evolved Basmati and non-Basmati rice varieties by using fluorescence-based ISSR-PCR and SSR markers

The results indicated that the subset of aromatic rice varieties analyzed in the present study is probably derived from a single land race.

Design and Application of Microsatellite Marker Panels for Semiautomated Genotyping of Rice ( Oryza sativa L.)

The use of an automated software tool for designing multiplex panels on the basis of both highly polymorphic and more conservative SSR markers resulted in the development of a highly informative semiautomated genotyping system for applications in rice genetics and breeding.

Long tomato microsatellites are predominantly associated with centromeric regions.

Some microsatellite markers described in this study might provide a useful tool to study the molecular structure of tomato centromeric regions and for variety identification and could be more suitable for mapping experiments albeit their lower level of polymorphism.

In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species.

When all these SSRs were analysed for assessing their potential to develop new markers, unique primer pairs could be designed for 30% to 70% of the total non-redundant microsatellites which are up to 3% of total ESTs in the studied species.

Comparative evaluation of within-cultivar variation of rice (Oryza sativa L.) using microsatellite and RFLP markers.

The results suggest that the use of four well-chosen microsatellites would be an efficient method for evaluating the heterogeneity of rice accessions, with some markers more informative than others for assessing genetic diversity.

Evaluation of Genetic Diversity in Rice Subspecies Using Microsatellite Markers

The results suggested that a relatively small number of microsatellite markers could be used for the estimation of genetic suitable for evaluating genetic diversity among closely diversity and the identification of rice cultivars.

Identification of flanking SSR markers for a major rice gall midge resistance gene Gm1 and their validation

This study has tagged and mapped a dominant gall midge resistance gene, Gm1, from the Oryza sativa cv.