Pandey p, anurag pj, tiwari dk, yadav sk, kumar b 2009 genetic variability, diversity and association of quantitative traits with grain yield in rice oryza sativa l. Asian cultivated rice provides a clear picture of multiple foundations of crop diversity. Sixteen informative primer pairs were selected, having high. There were 600 pairs of ssr primers screened against 11 rice varieties. Genetic diversity and disease control in rice request pdf. Marker analysis of these genotypes was carried out for three major drought tolerance qtls as well as green revolution gene, sd1. Assessment of the genetic diversity and population. Request pdf genetic diversity and disease control in rice crop heterogeneity is a possible solution to the vulnerability of monocultured crops to disease1, 2, 3. The isolates from the liaoning province, where rice false smut has generated different take. A set of 192 diverse rice germplasm lines were genotyped using 61 genome wide ssr markers to assess the molecular genetic diversity and genetic relatedness. Genetic diversity of aromatic rice germplasm revealed by ssr. The availability of an array of molecular marker systems allowed comparing the efficiency of two of these marker systems to estimate the relationships among various taxa. Research open access genetic structure and diversity of. Aug 17, 2000 control plots of monocultured crops allowed us to calculate the effect of diversity on the severity of rice blast, the major disease of rice5.
The knowledge of the extent and pattern of diversity in the crop species is a prerequisite for any crop improvement as it helps breeders in deciding suitable breeding strategies for their future improvement. Northeast rice collections are known to possess various agronomically important traits like biotic and abiotic stress tolerance, unique grain and cooking quality. Assessment of genetic diversity in rice oryza sativa l. Evaluation of genetic diversity in rice subspecies using microsatellite markers junjian ni, peter m. Genetic diversity and population structure of rice. Genetic diversity and population structure of rice varieties.
Using rice genetic diversity to support farmers adaptation to climate change for sustainable production and improved livelihoods in india overall objective. Knowledge of genetic diversity and relationships among basmati rice genotypes. Useful analysis tools in the study of genetic diversity in rice. Thus, the present investigation was intended to characterize the genetic resources of local landraces of rice oryza sativa l. Assessment and utilization of the genetic diversity in. Level and organization of genetic diversity of rice cultivars. Mackill abstract molecular markers can reveal differences among accesmolecular markers are useful tools for evaluating genetic diversity sions at the dna level and thus provide a more direct, and determining cultivar. Genetic diversity, microsatellites, oryza sativa, rice, temperate japonica germplasm. Department of agricultureagricultural research service dale bumpers national rice research center, stuttgart. The rice diversity project is a collaborative effort to explore the genetic basis of variation in rice and its wild ancestors.
Genetic diversity of the rice blast fungus in a disease nursery in colombia. Tai,2 jason coburn, steve kresovich and susan mccouch,3 plant breeding department, cornell university, ithaca, new york 148531901 and u. The objective of the present study was to analyze how genetic diversity is distributed within and among populations of the wild rice species oryza glumaepatula in costa rica. Molecular marker based genetic diversity analysis in rice. Diversity of some indonesia local glutinous rice oryza l. Multiple streams of genetic diversity in japonica rice. We also evaluated the likelihood of gene flow between wild and.
A rice diversity panel evaluated for genetic and agro. Assessing the genetic diversity of rice originating from. Irri seeks to understand rice genetic diversity and uncover new genes and traits in rice that will help rice producers face challenges brought about by climate change, pests and diseases, and other unfavorable conditions. Sikdar1, nayem zobayer1 1department of genetic engineering and biotechmology, school of life sciences, shahjalal. Genetic diversity and classification of oryza sativa with. Diversity estimates are generally lacking for many wild crop relatives. Genetic diversity of aromatic rice germplasm revealed by. Assessing the genetic diversity for miniaturization of crop collections to form mini core collection will lead to greater utilization of germplasm to. Agrama 1, wengui yan2, melissa jia2, robert fjellstrom2, anna m. Genetic diversity and classification of oryza sativa with emphasis on. This diversity is supposed to play an important role in rice genetic improvement. Mcclung 2 1university of arkansas, rice research and extension center, stuttgart, usa.
The result of genetic diversity analysis on 299 varieties of indica inbred rice. Molecular marker based ssr genetic diversity analysis in. Genetic diversity and population structure of basmati rice oryza. Aromatic rice cultivars constitute a small but special group of rice and are considered the best in terms of quality and aroma.
Among them, japonica rice is likely the group derived from the first human manipulations of this species. Genetic diversity and population structure of rice varieties cultivated in temperate regions. Genetic variability study of yield and yield related traits. Genetic diversity and disease control in rice nature. The rice diversity project, funded by nsf, is a collaborative effort, led by susan mccouch at cornell university, to explore the genetic basis of variation in rice and its wild ancestors. Evaluation of genetic diversity in rice subspecies using microsatellite markers. Pdf genetic diversity of rice grain quality rochie. Genetic diversity analysis of traditional rice variety. Genetic diversity is a natural resource for rice breeding to meet current food demands. In the present study, the genetic diversity and population structure of 141 genotypes including landraces, farmers varieties, elite cultivars and advanced breeding lines of basmati rice accession collected from nw himalayas were analyzed using 40 highly polymorphic trait linked ssr markers.
Genetic erosion in traditional rice agroecosystems in. Genetic diversity analysis of rice germplasm in tripura. Pdf the objective of present study was to evaluate the genetic polymorphism and identification of diverse parents among the 76 rice accessions using. Bare coulibaly 2, maji alhassan 1,3, karim traore 1, francis nwilene 4, ibnou dieng 5, rodomiro ortiz 6, and baboucarr manneh 1. Many pigmented rice landraces are still grown by ethnic communities for their nutritional and cultural value. The genetic diversity maintained in a species is considered as a function of its ecological and evolutionary history choudhury et al. To evaluate the genetic diversity and differentiation of major groups of chinese cultivars, we calculated several population genetic parameters for both global and chinese samples. Very few studies, however, have investigated the genetic diversity of aus rice in bangladesh 68. Genotypingbysequencing gbs is a nextgenerationsequencing based method that takes advantage of reduced representation to enable highthroughput genotyping using a large number of snp markers.
Diversity and population structure of red rice germplasm. Pdf analysis of genetic diversity and population structure. The objectives of present study were to examine the extent of genetic diversity in korean rice germplasm and the relationship of genetic diversity with the pedigree genotypes of korean rice cultivars. Agrobiodiversity, ensconced in the matrix of local cultural systems has enabled indigenous societies to cope with uncertainties in food availability. Eizenga abstract a diverse collection of 409 asian rice oryza sativa l. A total of 49 probes were selected to represent the entire rflp map at intervals of 2030 cm.
Evaluation of genetic diversity in rice subspecies. Phyto83n12 1427 american phytopathological society. We make use of the 3,000 rice genomes 3k rg data set, first described in 2018, to explore the genetic diversity of traditional japonica rice. Molecular characterization and genetic diversity analysis of. Despite extensive studies on cultivated rice, the genetic structure and subdivision of this crop remain unclear at both global and local scales. The result of genetic diversity analysis on 299 varieties of indica inbred rice with. Rice is mainly used as a major source of human food. Analysis of genetic diversity of 90 vietnamese localcolored rice accessions was evaluated by using 40 ssr markers.
Jan 24, 2020 indepth studies on the genetic diversity of crops indicate that domestication is likely a drawnout process that differs from the traditional representation of a simple rapid bottleneck. Genetic diversity analysis of rice germplasm in tripura state. Genetic diversity of tropical hybrid rice germplasm. Diversity and population structure of red rice germplasm in. Our study indicated a moderate level of diversity among 16 rice genotypes. The higher the level of genetic variation is in a population. Pdf genetic diversity and population structure of rice. Please view the pdf by using the full text pdf link under view to the left. In this study, a sample of 234 accessions of rice was genotyped at. To accelerate the development of hybrid rice in the tropics, detailed analysis of genetic diversity and the relationships among parental lines should be well.
The objective of this study was to assess the genetic diversity among 40 cultivated varieties and five wild relatives of rice, oryza sativa l. Snpbased analysis of genetic diversity reveals important. Multiple streams of genetic diversity in japonica rice biorxiv. This research was carried out to study the genetic diversity among the 50 aromatic rice accessions from three regions peninsular malaysia, sabah, and. Genetic structure associated with diversity and geographic. However, little study on rice landrace diversity in myanmar has been done.
We make use of the 3,000 rice genomes 3k rg data set, first described in 2018, to 29 explore the genetic diversity of traditional japonica. Genetic structure associated with diversity and geographic distribution in the usda rice world collection hesham a. Among 27 them, japonica rice is likely the group derived from the first human manipulations of this 28 species. Agriculture relies heavily on the genetic diversity of crop plants. Putting plant genetic diversity and variability at work for breeding. This study assesses the genetic diversity in a collection of pigmented rice accessions from the philippines.
In order to ascertain the diversity for its possible utilization in rice grain quality improvement in pakistan, local rice genetic resources 475 accessions collected from 3 rice cultivation zones and other parts of the country were investigated for the seed characters. Analysis of genetic diversity and population structure of. A significant amount of this genetic diversity is housed in rice gene banks around the world, with a copy also conserved in the snowy depths of svalbard, norway. Abstract assessment of the genetic diversity and population structure in temperate japonica rice germplasm used in. Subramanian former director of research, tnau, coimbatore abstract rice oryza sativa l. The aim of this study is to examine the genetic variation of about 500 landraces from the aus and boro ecotypes of rice that fall within the aus genetic group of rice based on 384 snp markers. Genetic diversity and population structure of rice landraces. Variability assessment for root and drought tolerance traits and. The rice genetic diversity is supplemented and supported by a wide spectrum of diversity at the species and ecosystem levels onfarm. Genetic diversity international rice research institute. Molecular characterization and genetic diversity analysis. Genotyping of 192 rice lines using 61 ssrs produced a total of 205 alleles with the pic value of 0.
Ever since the very beginning of agriculture more than 10 000years ago, during the process of domestication and cultivation of crop plants, a wealth of genetic diversity has been utilized and partly preserved. A similar finding was reported by behera et al 2012 in 33 medicinal rice genotypes when accessing genetic diversity among them. Genetic diversity and differentiation of indica and japonica. Genetic erosion in traditional rice agroecosystems in southern philippines. Genetic diversity analysis of rice cultivars oryza sativa. Assessment of genetic diversity of drought tolerant and. Molecular marker based ssr genetic diversity analysis in deep water rice germplasms of bangladesh sadia matin1, m. Some of these tools have been developed by the rice diversity project. However, it has other uses such as animal feed, production of alcoholic beverages such as wine, rice bran oil, fuel and manufacture of insulation materials chakravarthi and naravaneni, 2006. A genetic diversity assessment of starch quality traits in rice. Pdf genetic diversity analysis of rice faridul islam. Exploring the genetic diversity within traditional. North s 20 estimation of genetic variability and correlation for grain yield components in rice oryza sativa l.
In this study, a sample of 234 accessions of rice was genotyped at 169 nuclear ssrs and two chloroplast loci. Preservation of the genetic diversity of a local common carp in the agricultural heritage rice fish system weizheng rena,1, liangliang hua,1, liang guoa,1, jian zhanga, lu tanga, entao zhanga, jiaen zhangb, shiming luob, jianjun tang a,2, and xin chen acollege of life sciences, zhejiang university, hangzhou 310058, china. Jan 23, 2016 genetic diversity analysis based on genomewide singlenucleotide polymorphism snp assay of a set of indian rice cultivars including modern highyielding varieties and landraces revealed two broad groups, one with aus and the other with indica cultivars. The distribution patterns of some interesting observations were also carried out. Genetic diversity of rice grain quality intechopen. Group b consists of 28 isolates from beijing having a diversity of 0. The high genetic diversity among rice varieties in the northeast indian region is due to combined effect of ecogeographical conditions, diverse agroecosystems, and diverse human cultural preferences. The purpose of this study was 1 to evaluate the conservation status of rice landraces in ethnic group areas in southwest of china, 2 to clarify the differences of genetic diversity of rice landraces between exsitu conservation and onfarm conservation over the past 35 years, 3 to explore the impact of traditional cultures on higher. To assess the genetic diversity of the rice, 24 intragenic molecular markers representing 17 starch synthesisrelated genes were investigated in 115 taihu basin. Genetic diversity analysis reveals importance of green. The similarity coefficients of the rice landraces fluctuated from 0. Sep 26, 2015 a set of 192 diverse rice germplasm lines were genotyped using 61 genome wide ssr markers to assess the molecular genetic diversity and genetic relatedness. There is a wide genetic diversity available in rice among and between landraces.
As the major element of germplasm, genetic diversity is a natural source for rice breeding to encounter existing food requirements 8. While more comprehensive research into genetic variability, as well. Influence of ethnic traditional cultures on genetic diversity. A rice diversity panel evaluated for genetic and agromorphological diversity between subpopulations and its geographic distribution m. Genetic diversity in plants 88 cultivated countries. The numbers of polymorphic alleles ranged from 3 to 12 alleles per locus and average of 7. Assessment of the genetic diversity of rice germplasms. Evaluation of genetic diversity in rice subspecies using. Aroma is one of the most significant quality traits of rice, and variety with aroma has a higher price in the market. Pdf analysis of genetic diversity in rice oryza sativa l.
We determined dna fingerprints and pathotypes on international differentials for 151 isolates of the rice blast fungus pyricularia grisea that were collected from 15 rice cultivars at a blast disease breeding nursery in santa rosa, colombia. Within oryza sativa, there is an ancient and wellestablished divergence between the two major subspecies, indica and japonica, but finer levels of genetic structure are suggested by the breeding history. The northeastern region ner of india, comprising of arunachal pradesh, assam, manipur, meghalaya, mizoram, nagaland and tripura, is a hot spot for genetic diversity and the most probable origin of rice. Genetic diversity and population structure of basmati rice. Wild crop relatives are an important source of genetic diversity for crop improvement. Ensure that rural communities are able to maintain and adapt traditional rice genetic diversity and to combine such actions with the introduction of new varieties landraces. Studies based on the small set of rice genotypes have reported a loss in genetic diversity. The polymorphism information content pic ranged from 0. As far as we know, the collection is one of the earliest collections for rice germplasm resources and therefore we name d it as ting s collection lu et al. Myanmar has diverse agronomic landscape and potentially preserves high level of genetic resources for important crop species. Genetic diversity is the foundation of the genetic improvement of crops. Control plots of monocultured crops allowed us to calculate the effect of diversity on the severity of rice blast, the major disease of rice5. Evaluation of genetic diversity of localcolored rice.
Assessment of genetic diversity and molecular characterization among elite rice varieties of bangladesh is very important for germplasm management, varietal identification, and dna fingerprinting. Ssr markers have been extensively used to identify genetic variation among rice species ren et al. Analysis of population structure and genetic diversity. Singlenucleotide polymorphisms snps have become the genetic markers of choice in various genetic, ecological, and evolutionary studies. Folk rice varieties, traditional knowledge and nutritional. Dna polymorphisms amplified by arbitrary primers diversity and differentiation of indica and japonica rice detected by rflp analysis. Putting plant genetic diversity and variability at. Detailed information about the availability of material pdf.
The studies on genetic variation, diversity and population structure of rice germplasm of north east india could be an important step for. The genetic diversity of rice genetic variation in rice can explain both the visible differences between the different varieties and their preference for certain environmental conditions for example, whether they thrive in the lowlands or at higher altitudes. Mar 01, 2005 within oryza sativa, there is an ancient and wellestablished divergence between the two major subspecies, indica and japonica, but finer levels of genetic structure are suggested by the breeding history. Thirtyfour microsatellite markers were studied across 21 types of rice to characterize and discriminate among different varieties.
Preservation of the genetic diversity of a local common. Increased knowledge into the genetic diversity of any germplasm collection, therefore, enhances the possibility of crop improvement and the development of superior cultivars. Genetic diversity analysis based on genomewide singlenucleotide polymorphism snp assay of a set of indian rice cultivars including modern highyielding varieties and landraces revealed two broad groups, one with aus and the other with indica cultivars. Dec 11, 20 level and organization of genetic diversity of rice cultivars. Pdf genetic diversity studies in rice oryza sativa l. Rice is the main staple crop in india with the large number of varieties released every year. Hybrid rice suitability in west africa by raafat elnamaky 1, mamadou m. The project evaluates genotypes and phenotypes in a diverse set of rice accessions and uses association mapping to link genotype and phenotype.
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