Genetic diversity analysis and metabolite profiling of pharmaceutical value Indigenous rice varieties of Tamil Nadu (Oryza sativa Linn.)

2021 ◽  
Vol 23 (10) ◽  
pp. 447-464
Author(s):  
Rajalakshmi Settu ◽  
◽  
Jayanthi Balakrishnan ◽  
Sarathi Kannan Dhavamani ◽  
Manoj Srinivas Ravi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Oryza Sativa ◽  
Tamil Nadu ◽  
Random Amplified Polymorphic Dna ◽  
Rice Variety ◽  
Resolving Power ◽  
Bioactive Metabolites ◽  
Similarity Coefficients ◽  
Rice Varieties ◽  
Indigenous Rice Varieties

Evaluation of local indigenous medicinal rice (Oryza sativa Linn.) varieties using molecular and metabolic profiling plays dynamic role for unravelling the genetic variability and restorative bio actives. In the present study, 18 screened random decamer (RAPD) markers were used to analyze genetic diversity and relationship among 25 indigenous landraces and 1 commercial rice varieties (White ponni), and GC-MS profiling of phylogenetic clusters positioned 4 random indigenous rice varieties and 1 White ponni rice were documented for exploring bioactive metabolites. Random amplified polymorphic DNA (RAPD) analysis of twenty-six rice varieties of Tamil Nadu divulges significant genetic differentiation. The primers produced total of 92 bands with size ranges from 100-8500bp out of 74 were polymorphic bands indicating 80% polymorphism. The mean values of RAPD for polymorphism information content (PIC) of 0.268, effective multiple ratio (EMR) of 23.38, marker index (MI) of 7.39 and the resolving power (Rp) of 4.34. The primer OPA-02, OPD-08, OPF-13 produced maximum number of bands (8), OPAA-07 produced minimum number of band (2). The UPGMA dendrogram were constructed based on Jaccard’s similarity coefficients. The dendrogram resolved the indigenous rice varieties into 3 main clusters and 3 monoclades ranged from 0.467 to 0.860, commercial rice variety shows marginal ungrouped position of 1. In the 3-main clustering, based GC-MS profilling (methanol and acetone rice bran extracts) of Karuppu Kavuni, Karuthakar, Kottara samba, Kaivara samba and ungrouped position of White ponni revealed 88 distinctive bioactive metabolites. And profiling results substantiate that the traditional rice varieties hold promising therapeutic metabolites for sedentary lifestyle disorders.

scholarly journals Genetic Variability in Bangladeshi Aromatic Rice through RAPD Analysis

2014 ◽  
Vol 3 (3) ◽  
pp. 107 ◽  
Author(s):  
Mehfuz Hasan ◽  
Mohammad Sharif Raihan
Keyword(s):  
Genetic Diversity ◽  
Rapd Analysis ◽  
Oryza Sativa L ◽  
Random Amplified Polymorphic Dna ◽  
Group Method ◽  
Aromatic Rice ◽  
Similarity Coefficients ◽  
Rice Varieties ◽  
Pair Group ◽  
Minimum Number

Genetic polymorphism and relationships among 30 commercial varieties of Bangladeshi aromatic rice (Oryza sativa L.) were established using random amplified polymorphic DNA (RAPD) primers. Out of fifty 10-mer RAPD primers screened initially, four were chosen and used in a comparative analysis of different varieties of indigenous Bangladeshi aromatic rice. Of the 33 total RAPD fragments amplified, 7 (21.21%) were found to be shared by individuals of all eight varieties. The remaining 26 fragments were found to be polymorphic (78.79%). Pair-wise estimates of similarity ranged from 0.101 to 0.911. Highest genetic diversity was determined between Radhunipagol and Dubsail varieties (0.911). The amount of genetic diversity within aromatic rice germplasm was quite high as determined by the genetic similarity coefficients between varieties. Genetic similarities obtained from RAPD data were also used to create a cluster diagram. Cluster analysis using an un-weighted pair-group method with arithmetic averages (UPGMA) was used to group the varieties and the 30 aromatic rice varieties were grouped into 6 clusters where cluster I includes the maximum number of varieties (9). Cluster VI includes minimum number of varieties (2). This Study offered a rapid and reliable method for the estimation of variability between different varieties which could be utilized by the breeders for further improvement of the local aromatic rice varieties.

Breeding for Improving Human Nutrition and Grain Quality through Biofortification of Traditional Land Races and Improved Cultivars in Rice (Oryza sativa L.)

2017 ◽  
pp. 126-148
Author(s):  
P. Savitha ◽  
R. Usha Kumari
Keyword(s):  
Oryza Sativa ◽  
Tamil Nadu ◽  
Oryza Sativa L ◽  
Farming Systems ◽  
Total Production ◽  
Micronutrient Deficiencies ◽  
Rice Varieties ◽  
The Family ◽  
Iron And Zinc

Rice (Oryza sativa L.) which belongs to the family poaceae, is the life and the prince among cereals as this unique grain helps to sustain two thirds of the world's population. India have traditionally been used or rice cultivation due to availability of water and conductive soil (Nadesa panic). Rice was grown in 155.30 million hectares and around 600 million tonnes of rice harvested each year globally. About 114 countries produce rice with China and India supporting 50 per cent of total production. India stands first in area under cultivation (41.85 mha) and ranks second in production, where as China ranks first in production with just half of the area. India's production is 89.13 million tonnes with a productivity of 2130 kg/ha. Among the rice producing states of India, Tamil Nadu ranks sixth in production (6.53 million tonnes) and second in productivity of 3918 kg/ha with an area of 20.16 lakh ha (Season and Crop Report, 2012). Local farmers in such farming systems retain the traditional varieties based on their knowledge of the quality of the rice varieties and their adaptation to varying agro-ecological situations created by diverse seasons and land situations (Tapasi das & Ashesh Kumar Das, 2014). Among the major micronutrient deficiencies common in rice consuming countries, iron and zinc deficiencies (“hidden hunger”), affect over three billion people worldwide, mostly in developing countries (Welch & Graham, 2004).

scholarly journals Risk Behavior of Farmers Cultivating Traditional Rice Varieties in Erode District, Tamil Nadu

2021 ◽  
pp. 349-357
Author(s):  
G. Kaviya ◽  
A. Vidhyavathi ◽  
S. Padma Rani ◽  
M. Nirmala Devi
Keyword(s):  
Risk Behavior ◽  
Tamil Nadu ◽  
Rice Variety ◽  
Soil Health ◽  
Risk Attitude ◽  
Farm Income ◽  
Rice Varieties ◽  
Natural Risk ◽  
Small Areas ◽  
Traditional Rice

This study investigates the risk behavior of traditional rice variety growers in Erode District of Tamil Nadu state, using Moscardi and De Janvry approach and Discriminant analysis technique. A well structured questioner was prepared and purposive random sampling was done in three blocks which covers highest cultivable area under paddy namely Gobichettipalayam, Modakurichi and Bhavani in Erode district. Each traditional rice varieties have some unique characteristics i.e some are pest and disease resistant, drought resistant, resistant to waterlogged condition and have medicinal values. The present study was done to identify the major risks, to quantify the risk attitude and to identify the factors influencing risk attitude of the traditional variety growers in Erode District. In the research it was found that the varieties preferred by farmers were Thuyamalli, Kichadi samba, Karuppukavuni, Mapillai samba,Arcaud Kichadi Samba, Poongar, Thanga Samba, Sivan Samba and few other varieties they were cultivating in small areas using organic farming method.The major risk found in cultivating traditional rice varieties were market risk followed by human labour risk, processing risk, input risk, technology risk, institutional risk, natural risk and other risks include transport risk and storage risk. The farmers were grouped into three categories i.e., risk preferrers (63.33 per cent), risk neutral (28.33 per cent) and risk averse (8.33 per cent) based on risk attitude. Once again the farmers in each group was categorized into low, medium, high risk based on nine factors namely, farmers age, major occupation, years of schooling, family size, membership in any of the farmers association, proportion of paddy area to total farm area, proportion of paddy income to total farm income, experience and adequacy of market which were influencing the risk attitude of farmers. In order to conserve the traditional rice varieties from extinction, to restore the soil health, to ensure nutritional security the farmers were willing to take risk.

scholarly journals Identification of fgr gene and preliminary evaluation for agronomic traits of pandan sticky rice variety (Oryza sativa L.)

2019 ◽  
Vol 02 ◽  
pp. 39-48
Author(s):  
Toan D. Pham
Keyword(s):  
Oryza Sativa ◽  
Agronomic Traits ◽  
Oryza Sativa L ◽  
Rice Variety ◽  
Rice Production ◽  
Molecular Techniques ◽  
High Yield ◽  
Preliminary Evaluation ◽  
Rice Varieties ◽  
Fgr Gene

Rice (Oryza sativa L.) is the most important food crop in Vietnam particularly in the Mekong Delta. Screening of good quality and high yield rice varieties are needed for rice production in Vietnam. The purpose of this study was to use molecular techniques to identify fgr gene and to evaluate preliminarily agronomic traits of pandan sticky rice variety. The results showed that this variety contained fgr gene. The fragrant allele was amplified by ESP - IFAP primers with a product of 255 bp in size. Similarly, evaluation of agronomic traits showed that the pandan sticky rice variety displayed many desirable characteristics such as plant height of 108 cm, panicle length of 25.6 cm, seed/panicle 135, 100-grain weight 2.07 g, pandan smell, level 2 of alkali digestion, gel consistency 93 mm. These results were useful information and could be applied for improving and providing pandan sticky rice variety for rice production.

scholarly journals The Development and Characterization of Near-Isogenic and Pyramided Lines Carrying Resistance Genes to Brown Planthopper with the Genetic Background of Japonica Rice (Oryza sativa L.)

Plants ◽  
2019 ◽  
Vol 8 (11) ◽  
pp. 498
Author(s):  
Cuong D. Nguyen ◽  
Holden Verdeprado ◽  
Demeter Zita ◽  
Sachiyo Sanada-Morimura ◽  
Masaya Matsumura ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Resistance Genes ◽  
Genetic Background ◽  
Oryza Sativa L ◽  
Rice Variety ◽  
Brown Planthopper ◽  
Nilaparvata Lugens ◽  
Japonica Rice ◽  
Rice Varieties ◽  
Nilaparvata Lugens Stål

The brown planthopper (BPH: Nilaparvata lugens Stål.) is a major pest of rice, Oryza sativa, in Asia. Host plant resistance has tremendous potential to reduce the damage caused to rice by the planthopper. However, the effectiveness of resistance genes varies spatially and temporally according to BPH virulence. Understanding patterns in BPH virulence against resistance genes is necessary to efficiently and sustainably deploy resistant rice varieties. To survey BPH virulence patterns, seven near-isogenic lines (NILs), each with a single BPH resistance gene (BPH2-NIL, BPH3-NIL, BPH17-NIL, BPH20-NIL, BPH21-NIL, BPH32-NIL and BPH17-ptb-NIL) and fifteen pyramided lines (PYLs) carrying multiple resistance genes were developed with the genetic background of the japonica rice variety, Taichung 65 (T65), and assessed for resistance levels against two BPH populations (Hadano-66 and Koshi-2013 collected in Japan in 1966 and 2013, respectively). Many of the NILs and PYLs were resistant against the Hadano-66 population but were less effective against the Koshi-2013 population. Among PYLs, BPH20+BPH32-PYL and BPH2+BPH3+BPH17-PYL granted relatively high BPH resistance against Koshi-2013. The NILs and PYLs developed in this research will be useful to monitor BPH virulence prior to deploying resistant rice varieties and improve rice’s resistance to BPH in the context of regionally increasing levels of virulence.

Development of a core collection from Sri Lankan traditional rice (Oryza sativa) varieties for phenotypic and genetic diversity

2021 ◽  
Vol 13 (1) ◽  
Author(s):  
Shyama Weerakoon ◽  
Seneviratne Somaratne
Keyword(s):  
Genetic Diversity ◽  
Oryza Sativa ◽  
Sri Lanka ◽  
Core Collection ◽  
Morphological Characters ◽  
Morphological Features ◽  
Sri Lankan ◽  
Rice Varieties ◽  
Traditional Rice ◽  
Phenotypic And Genetic Diversity

Abstract. Weerakoon SR, Somaratne S. 2021. Development of a core collection from Sri Lankan traditional rice (Oryza sativa) varieties for phenotypic and genetic diversity. Nusantara Bioscience 13: 61-67. A collection of over 2000 traditional rice varieties are conserved at Gene Bank, Plant Genetics Resource Center, Sri Lanka. Oryza sativa varieties grown in Sri Lanka from ancient times to the middle of the last century are known as traditional rice. These varieties show adaptability to biotic and abiotic stresses and, an important component of biodiversity of Sri Lanka. A detailed understanding of the diversity of traditional rice varieties is essential for effective utilization of rice genetic resources and identification of potential parents possessing valuable genetic traits for future crop improvement. Study objectives were phenotypic and molecular characterization of one-hundred traditional rice varieties and to identify a core collection for phenotypic and genetic diversity. Rice varieties were grown in a plant house following RCBD with 4 replicates and 5 plants per replicate. Thirty-two agro-morphological characters were observed/collected. Genomic DNA was extracted from 20-days-old seedlings. Thirty?three microsatellite (Simple Sequence Repeat-SSR) primer pairs were used to assay genetic variation and PCR products were subjected to fragment analysis by capillary electrophoresis. Descriptive statistics and basic inferential statistical analyses were performed to access variation of agro-morphological characters among rice varieties. Cluster analysis and Multidimensional scaling produced 07 groups which were further analyzed using Classification and Regression Analysis to extract the diagnostic agro-morphological features. Groups of rice varieties were characterized by lemma palea color, awn color at maturity, seedling height, and flag-leaf angle. Traditional varieties represent distant clusters on agro-morphological features. Molecular analyses revealed all 33 loci displayed polymorphism (66.7-96.9%) among 100 traditional rice varieties with a total of 387 alleles identified with an average of 11.72 alleles per variety. All varieties were genetically structured into fifteen well-separated groups. UPGMA analysis based on Jaccard's similarity separated varieties into 05 major clusters. Genetic diversity information is useful in the efficient use of Sri Lankan rice germplasm and managing in situ and ex situ germplasm collections in conserving traditional rice varieties.

Molecular markers to assess genetic diversity of Gentiana lutea L. from the Ukrainian Carpathians

2014 ◽  
Vol 13 (3) ◽  
pp. 266-273 ◽  
Author(s):  
Maryana Z. Mosula ◽  
Igor O. Andreev ◽  
Olena M. Bublyk ◽  
Vitaliy M. Mel'nyk ◽  
Iryna I. Konvalyuk ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Pcr Primers ◽  
Inter Simple Sequence Repeat ◽  
Resolving Power ◽  
Bootstrap Support ◽  
Gentiana Lutea ◽  
Discriminating Power ◽  
Index Value ◽  
Degree Of Differentiation

The aim of the study was to develop the system of polymerase chain reaction (PCR)-based markers for the assessment of genetic diversity and population genetic studies of Gentiana lutea L. as well as to determine the utility of two indices of marker informativeness. The informativeness was determined for 40 PCR primers of different types (random amplified polymorphic DNA, inter simple sequence repeat, inter-retrotransposon amplified polymorphism, resistance gene analog polymorphism and conserved DNA-derived polymorphism markers) by evaluating discriminating power (DL) and resolving power (Rp) in a sample of 30 plants from two populations. Analysis of correlation between the index value and the number of differentiated pairs of genotypes in the given sample revealed that DL is more efficient than Rp; therefore, we selected primers based on the DL value. In total, 12 primers with the largest values of DL were chosen. Analysis of genetic relationship among 86 plants from six populations showed that the number of bands produced by the three of selected primers was sufficient to give average bootstrap support across six key nodes in the dendrogram higher than 85%, while using six of the primers resulted in average bootstrap value exceeding 99%. Thus, a minimal set of three to six selected primers are sufficient for a quick assessment of genetic diversity of G. lutea populations, depending on the sample size and degree of differentiation between populations, while the rest of the primers with DL values above 0.8 may be used for ecogenetic surveys. Preliminary results obtained with selected primers indicate the moderate level of genetic variation within the species and significant differentiation among individual populations.

Geographic pattern of variation among Asian native rice cultivars (Oryza sativa L.) based on fifteen isozyme loci

Genome ◽  
1988 ◽  
Vol 30 (5) ◽  
pp. 782-792 ◽  
Author(s):  
J. C. Glaszmann
Keyword(s):  
Genetic Diversity ◽  
Oryza Sativa ◽  
Oryza Sativa L ◽  
Indian Subcontinent ◽  
Indica Rice ◽  
Japonica Rice ◽  
Geographic Pattern ◽  
Cultivated Rice ◽  
Rice Varieties ◽  
Himalayan Foothills

The geographic pattern of isozyme variation among rice varieties (Oryza sativa L.) in Asia is described based on an electrophoretic survey of 1688 accessions for 15 loci. The distribution patterns are strongly determined by the existence of several varietal groups that are characterized by contrasting multilocus types with dissimilar environmental and macrogeographic distributions. The two main groups correspond to the indica and japonica subspecies. Other types are frequently found in the Indian subcontinent, especially along the Himalayan foothills. These types are predominant in the Indus River basin. They are differentiated into four groups in the eastern part of the Himalayan foothills. There is variation within the groups. Non-random allele distributions are observed, such as regional clines and narrow localization of alleles. Diversity among indica rice is evenly distributed in whole tropical Asia. Variation among japonica rice shows the hilly part of continental Southeast Asia to be the region of highest genetic diversity and its probable area of origin. All this information provides a guide for further analysis aimed at elucidating the history of cultivated rice in Asia and, subsequently, in other continents.Key words: Asian rice, genetic diversity, isozymes, geographic distributions.

scholarly journals ECOLOGY AND THE RAPD TECHNIQUES USED TO ASSESS THE GENETIC DIVERSITY IN PTEROLOBIUM HEXAPETALUM, A SCRAMBLING MEDICINAL SHRUB IN MARUTHAMALAI AND CHENNIMALAI HILLS, THE WESTERN GHATS

2019 ◽  
pp. 72-77 ◽  
Author(s):  
SHARMILA S. ◽  
AKILANDESWARI D. ◽  
RAMYA E. K. ◽  
MOWNIKA S.
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Tamil Nadu ◽  
Climatic Factors ◽  
Rapd Analysis ◽  
Random Amplified Polymorphic Dna ◽  
Climatic Conditions ◽  
Individual Bands ◽  
Reproductive Characters ◽  
Two Populations

Objective: To investigate the ecological and genetic diversity, climatic factors, edaphic factors morphological and reproductive characters and RAPD analysis of medicinal plant species Pterolobium hexapetalum in two hills viz., Maruthamalai (arid) and Chennimalai (very arid), which is located in Coimbatore and Erode districts, Tamil Nadu. Methods: The present research was carried out by using a random amplified polymorphic DNA (RAPD) analysis was made to determine the genetic variation between the two populations of the medicinal shrub, Pterolobium hexapetalum in an environmental gradient. Among the five primers tested, the OPN7 (80 %) and OPN17 (71.4 %) produced higher polymorphism was used in RAPD analysis. Results: The results of RAPD analysis showed the presence of 51 individual bands were formed, out of which, 29 were polymorphic bands which showed the existence of genetic variation between populations. A dendrogram was constructed based on Jaccard’s coefficient to determine the degree of genetic relationship among the two populations and analysed. The primers OPN7 and OPN17 were clustered together at a genetic distance level 10. Considering the elevation and proximity, the temperature ranges from 18 °C to 37.6 °C in Maruthamalai hill and 20 °C to 39.4 °C in Chennimalai hill. Conclusion: From the morphoecological studies the results indicated that both arid and very arid climatic conditions showed slight differences in their vegetative and reproductive characters.

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