A Simple, Efficient and Rapid Method for Good Quality DNA Extraction from Rice Grains

Sajib, Abu Ashfaqur; Bhuiya, Ashraful Islam; Huque, Roksana

doi:10.1016/j.rsci.2016.09.003

Cited by 12 publications

(8 citation statements)

References 8 publications

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“…Precipitated DNA can be hooked out of the solution or collected by centrifugation. In the present study, the extracted DNA was free of phenols as the pellet obtained was clean and white to pale yellow in colour while usually in pulses brown colored DNA pellet is obtained due to presence of phenols and the quality of DNA isolated was comparable to other such recent studies (Laxmi prasanna et al, 2013;Healey et al, 2014;Rawat et al, 2016;Sajib et al, 2017). Moreover, here we used young and tender leaves as they contain less phenol as compared to mature leaves which contain more phenol content and the DNA obtained is generally brown in color.…”

Section: Resultssupporting

confidence: 82%

An Easy, Quick and Cost Effective Method of High Quality DNA Extraction from Mungbean [Vigna radiata (L.) Wilczek] Without Liquid Nitrogen

Ambawat¹,

Kumar²,

Singh³

et al. 2017

Int.J.Curr.Microbiol.App.Sci

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Section: Resultssupporting

confidence: 82%

An Easy, Quick and Cost Effective Method of High Quality DNA Extraction from Mungbean [Vigna radiata (L.) Wilczek] Without Liquid Nitrogen

Ambawat¹,

Kumar²,

Singh³

et al. 2017

Int.J.Curr.Microbiol.App.Sci

View full text Add to dashboard Cite

“…This amount of DNA yield was better than recent studies (Laxmi prasanna et al, 2013;Healey et al, 2014;Rawat et al, 2016;Sajib et al, 2017). Urea is a chaotropic agent, and its role is to remove DNA from the histones and denature other proteins and promote more stability to the system.…”

Section: Resultsmentioning

confidence: 68%

Comparative Study of High Quality Genomic DNA Extraction Protocols in Rice and Tomato Crops

Dubey¹,

Kumar²,

Antre³

et al. 2017

Int.J.Curr.Microbiol.App.Sci

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“…In this study a high-throughput single seed-based sampling method was compared to a conventional leaf-based sampling method using DNA extraction protocols developed at Intertek-AgriTech (http://www.intertek.com/agriculture/agritech/) for routine MAS applications in rice. The reported single seed-based sampling strategy for forward breeding applications of MAS should also be compatible with different DNA extraction protocols developed for rice in different studies [16, 24, 26, 31]. The quality and quantity of DNA obtained from these methods though should be validated as outlined in this study in order to ensure suitability for MAS deployment.…”

Section: Discussionmentioning

confidence: 99%

Methodology: ssb-MASS: a single seed-based sampling strategy for marker-assisted selection in rice

et al. 2019

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Background Integrated breeding approaches such as combining marker-assisted selection and rapid line fixation through single-seed-descent, can effectively increase the frequency of desirable alleles in a breeding program and increase the rate of genetic gain for quantitative traits by shortening the breeding cycle. However, with most genotyping being outsourced to 3rd party service providers’ nowadays, sampling has become the bottleneck for many breeding programs. While seed-chipping as prevailed as an automatable seed sampling protocol in many species, the symmetry of rice seeds makes this solution as laborious and costly as sampling leaf tissue. The aim of this study is to develop, validate and deploy a single seed sampling strategy for marker-assisted selection of fixed lines in rice that is more efficient, cost-effective and convenient compared to leaf-based sampling protocols without compromising the accuracy of the marker-assisted selection results. Results Evaluations replicated across accessions and markers showed that a single rice seed is sufficient to generate enough DNA (7–8 ng/μL) to run at least ten PCR trait-markers suitable for marker-assisted selection strategies in rice. The DNA quantity and quality extracted from single seeds from fixed lines (F 6 ) with different physical and/or chemical properties were not significantly different. Nor were there significant differences between single seeds collected 15 days after panicle initiation compared to those harvested at maturity. A large-scale comparison between single seed and leaf-based methodologies showed not only high levels of genotypic concordance between both protocols (~ 99%) but also higher SNP call rates in single seed (99.24% vs. 97.5% in leaf). A cost–benefit analysis showed that this single seed sampling strategy decreased the cost of sampling fourfold. An advantage of this approach is that desirable genotypes can be selected before investing in planting activities reducing the cost associated with field operations. Conclusion This study reports the development of a cost-effective and simple single seed genotyping strategy that facilitates the adoption and deployment of marker-assisted selection strategies in rice. This will allow breeders to increase the frequency of favorable alleles and combine rapid generation advancement techniques much more cost-effectively accelerating the process and efficiency of parental selection and varietal development. Electronic supplementary material The online version of this article (10.1186/s13007-019-0464-2) contains supplementary material, which is available to authorized users.

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A Simple, Efficient and Rapid Method for Good Quality DNA Extraction from Rice Grains

Cited by 12 publications

References 8 publications

An Easy, Quick and Cost Effective Method of High Quality DNA Extraction from Mungbean [Vigna radiata (L.) Wilczek] Without Liquid Nitrogen

An Easy, Quick and Cost Effective Method of High Quality DNA Extraction from Mungbean [Vigna radiata (L.) Wilczek] Without Liquid Nitrogen

Comparative Study of High Quality Genomic DNA Extraction Protocols in Rice and Tomato Crops

Methodology: ssb-MASS: a single seed-based sampling strategy for marker-assisted selection in rice

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