DNA Fingerprinting for Identification of Rice Varieties and Seed Genetic Purity Assessment

Abstract Genetic purity is conventionally performed through Grow-Out-Test (GOT) with morphological characters. Simple sequence repeat (SSR) markers are independent of G X E interaction. Herewith, 16 high yielding varieties of rice were analyzed using 55 SSR markers for DNA fingerprinting and identification of genetic impurities: 14 were found to be polypmorphic and amplified 48 alleles with an average of 3.43 alleles per each primer pair. The number of alleles amplified ranged from 2 to 6 and the size of the PCR products amplified from these 14 primer pairs ranged from 80–450 bp with polymorphic information content (PIC) from 0.14 (RM 346) to 0.99 (RM 5900). PICs at 0.5 or higher are highly informative SSR markers for genetic studies, DNA fingerprinting and scoring polymorphism rate of SSR markers pertinent to specific locus. The 14 polymorphic SSR markers can be used for DUS testing, genetic purity and DNA finger printing of rice varieties.

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A modified DNA extraction protocol and its utility in seed genetic purity assessment

Seed Science and Technology ◽

10.15258/sst.2011.39.1.24 ◽

2011 ◽

Vol 39 (1) ◽

pp. 236-242 ◽

Cited By ~ 3

Author(s):

S.N. Sharma ◽

V. Kumar ◽

G. Singh ◽

R. Sharma

Keyword(s):

Dna Extraction ◽

Genetic Purity ◽

Purity Assessment ◽

Extraction Protocol ◽

Modified Dna

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Genetic diversity analysis and DNA fingerprinting of the main japonica rice varieties in Heilongjiang Province

Quality Assurance and Safety of Crops & Foods ◽

10.3920/qas2017.1240 ◽

2019 ◽

Vol 11 (1) ◽

pp. 23-29

Author(s):

Z.J. Li ◽

Y.H. Chen ◽

D.J. Zhang ◽

G.F. Zhang ◽

B.X. Lu

Keyword(s):

Genetic Diversity ◽

Dna Fingerprinting ◽

Diversity Analysis ◽

Japonica Rice ◽

Heilongjiang Province ◽

Rice Varieties ◽

Genetic Diversity Analysis

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Identification and characterization of popular rice (Oryza sativa L.) varieties through chemical tests

Journal of Phytology ◽

10.25081/jp.2020.v12.6513 ◽

2020 ◽

pp. 82-85

Author(s):

M.S. Nagendra ◽

P. Selvaraju ◽

R. Jerlin ◽

K. Ganesamurthy ◽

N. Senthil

Keyword(s):

Tamil Nadu ◽

Oryza Sativa L ◽

Colour Change ◽

Gelatinization Temperature ◽

Genetic Purity ◽

Rice Varieties ◽

Seed Supply ◽

Crop Varieties ◽

Identification And Characterization

Identification and characterization of crop varieties are crucial for ensuring the genetic purity of seeds. The present investigation was carried out to identify suitable chemical methods that are fast, reliable and easy for seed analysts, breeders and seed producers for identification of a variety. Twenty-five popular rice varieties in the seed supply chain of Tamil Nadu were subjected to phenol, modified phenol, NaOH, aroma, gelatinization temperature (alkali spreading value), GA3 and 2,4-D tests. The results of the experiment revealed that phenol and modified phenol tests changed the colour of TKM 9 and TRY 1 variety to brown but no colour change was observed in the variety I.W. Ponni variety. The NaOH test is useful for the identification of TKM 9 variety as it changed the colourless solution to red. GA3 and 2,4-D tests characterized the varieties based on the shoot growth into two and three groups respectively. However, all the variety lacked aroma and exhibited a high gelatinization temperature.

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Fingerprinting of Rice Hybrids and their Parental Lines using Microsatellite Markers and their Utilization in Genetic Purity Assessment of Hybrid Rice

Research Journal of Seed Science ◽

10.3923/rjss.2009.40.47 ◽

2009 ◽

Vol 2 (3) ◽

pp. 40-47 ◽

Cited By ~ 6

Author(s):

P. Tamilkumar ◽

R. Jerlin ◽

N. Senthil ◽

K.N. Ganesan ◽

R.J. Jeevan ◽

...

Keyword(s):

Microsatellite Markers ◽

Hybrid Rice ◽

Genetic Purity ◽

Purity Assessment ◽

Parental Lines

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Authentication of Coffea arabica Varieties through DNA Fingerprinting and its Significance for the Coffee Sector

Journal of AOAC International ◽

10.1093/jaocint/qsz003 ◽

2020 ◽

Vol 103 (2) ◽

pp. 325-334 ◽

Cited By ~ 2

Author(s):

Solène Pruvot-Woehl ◽

Sarada Krishnan ◽

William Solano ◽

Tim Schilling ◽

Lucile Toniutti ◽

...

Keyword(s):

Dna Fingerprinting ◽

Large Scale ◽

Adaptation To Climate Change ◽

Genetic Purity ◽

Wide Range ◽

Fingerprinting Method ◽

Genetic Conformity ◽

Fixed Line ◽

Coffee Sector ◽

Coffee Seed

Abstract Background Locating the optimal varieties for coffee cultivation is increasingly considered a key condition for sustainable production and marketing. Variety performance varies when it comes to susceptibility to coffee leaf rust and other diseases, adaptation to climate change and high cup quality for specialty markets. But because of poor organization and the lack of a professional coffee seed sector, most existing coffee farms (and even seed lots and nurseries) do not know which varieties they are using. DNA fingerprinting of coffee planting material will contribute to professionalize the coffee seed sector. Objective The objective of this paper is i) to check in a large scale the robustness of the existing coffee DNA fingerprinting method based on eight Single Sequence Repeats markers (SRR) and ii) to describe how it can help in moving the needle towards a more professional seed sector. Method 2533 samples representing all possible genetic background of Arabica varieties were DNA fingerprinted with 8 SRR markers. The genetic diversity was analyzed and the genetic conformity to varietal references was assessed. Results The DNA fingerprinting method proved to be robust in authenticating varieties and trace back the history of C. arabica breeding and of the movement of C. arabica varieties. The genetic conformity of two important coffee varieties, Marseillesa and Gesha, proved to be 91% and 39% respectively. Conclusions DNA fingerprinting provides different actors in the coffee sector with a powerful new tool—farmers can verify the identity of their cultivated varieties, coffee roasters can be assured that marketing claims related to varieties are correct, and most of all, those looking to establish the a more professional and reliable coffee seed sector have a reliable new monitoring tool to establish and check genetic purity of seed stock and nursery plants. Highlights While C. arabica is primarily self-pollinating, even fixed line varieties appear to be drifting away from their original genetic reference due to uncontrolled cross pollination. A set of 8 SSR markers applied to the largest possible genetically diverse set of samples prove to discriminate between a wide range of varieties Figures confirm that genetic non conformity of coffee varieties can represent up to 61% of checked samples.

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