Genetic diversity and differentiation of indica and japonica rice detected by RFLP analysis

Zhang, Qifa; Maroof, M. A. Saghai; Lu, Tianjun; Shen, B. Z.

doi:10.1007/bf00226539

Cited by 226 publications

(125 citation statements)

References 8 publications

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“…More alleles were found at each locus and the range in size of the alleles was higher, because of the larger population size and diversity of the samples. In accordance with previous reports, the number of alleles per locus was much larger than those reported in previous studies using different types of markers [34,35], RFLPs [26,36] and SSRs [25,26,37].The highest number of alleles (21) and the highest level of gene diversity (0.91) were detected at the locus RM474. Ni [38] also found significantly higher genetic diversity on chromosomes 6 and 7 of japonica cultivars compared with Indica at 111 microsatellite markers loci, through evaluating thirty-eight rice cultivars.…”

Section: Genetic Diversity In Flood and Tidal Prone Rice Varietiessupporting

confidence: 90%

“…Ni [38] also found significantly higher genetic diversity on chromosomes 6 and 7 of japonica cultivars compared with Indica at 111 microsatellite markers loci, through evaluating thirty-eight rice cultivars. In rice, molecular markers have been used to determine the genetic structure and pattern of diversity [24][25][26]37,[39][40][41] and to identify rice accessions [42].…”

Section: Genetic Diversity In Flood and Tidal Prone Rice Varietiesmentioning

confidence: 99%

“…Microsatellites provide a reliable means to measure intraspecific variation and genetic distance within populations [18,19]. The usefulness of markers for estimation of genetic diversity has been demonstrated in many crops, including barley [20], wheat [21,22], potato [23] and rice [24][25][26]. Due to their abundance, SSR markers are widely being used to determine the genetic structure and diversity patterns in different species [27,28].…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

SSR Marker-based Genetic Diversity Analysis of Tidal and Flood Prone Areas in Rice (Oryza sativa L.)

Masuduzzaman¹,

Haque²,

Ahmed³

et al. 2016

J Biotechnol Biomater

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One hundred and sixty rice varieties from the tidal and flood prone areas of south and south East Asian countries were analyzed. Samples sizes were: 50 varieties from Bangladesh (deepwater, tidal and flood prone rice and modern varieties), 14 varieties from India (flood prone rice), 16 varieties from Sri Lanka (flood prone rice), 7 varieties from Vietnam (tidal varieties), 69 varieties from Indonesia (tidal varieties) and 4 check varieties from IRRI. All 30 primer pairs created polymorphic bands among the 160 rice varieties from flood and tidal prone areas, which indicated that the microsatellites used were suitable for diversity analysis. A total of 337 alleles were detected with an average of 11 alleles per locus and the number of alleles per locus varied from 4 to 21. The highest PIC values were observed for the primer of RM474 (0.91), followed by RM5 (0.82), RM484 (0.81), RM214 (0.81), and RM19 (0.79). Cluster analysis divided the genotypes into four main clusters and six sub-clusters based on geographical origins and ecotypes. Microsatellite clustering (over 30 polymorphic loci) and submergence screening data indicated greater genetic diversity among 160 genotypes for molecular loci and for submergence tolerance. Tolerant genotypes in Cluster-1 are expected to have different tolerance genes. Finding relationship between tolerance and country of origin, highly tolerant varieties (FR13A and FR43B) were found from east India. Genetic diversity analysis among flood prone rice will be useful for identifying the varieties having maximum diversity with submergence tolerance and selected varieties will be useful for further studies.

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Section: Genetic Diversity In Flood and Tidal Prone Rice Varietiessupporting

confidence: 90%

Section: Genetic Diversity In Flood and Tidal Prone Rice Varietiesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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SSR Marker-based Genetic Diversity Analysis of Tidal and Flood Prone Areas in Rice (Oryza sativa L.)

Masuduzzaman¹,

Haque²,

Ahmed³

et al. 2016

J Biotechnol Biomater

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“…The genetic variation in these traits is narrow in japonica varieties compared with indica and japonica varieties (Zhang et al, 1992). A number of genetic materials such as backcross inbred lines and chromosome segment substitution lines (CSSLs) have been developed in rice.…”

mentioning

confidence: 99%

Alleles Affecting 30 Traits for Productivity in Two Japonica Rice Varieties, Koshihikari and Nipponbare (Oryza sativaL.)

Ujiie

Ishimaru

2014

Plant Production Science

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“…2 4) RFLP analysis has been used to distinguish between species of Oryza 5) and particularly between indica and japonica types of Oryza sativa. 6) Recently, a PCR based marker system has been developed by Williams et al . 7) In this RAPD (Random Amplified Polymorphic DNA) method, short oligo nucleotides of arbitrary sequences are used to support the amplification of regions of the test plant genome and amplified DNAs are separated by gel electrophoresis.…”

mentioning

confidence: 99%

Cultivar Identification of Rice (Oryza sativa L.) by PCR Method and its Application to Processed Rice Products

研一¹,

澄子²

2007

J. Appl. Glycosci.

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Rice is one of the most important edible crops in the world, along with wheat and corn. There are more than several tens of thousands of varieties or cultivars of rice in the world. Rice is markedly diversified from the viewpoint of genetics, morphology and properties. On the other hand, high quality rice is closely related by inbreeding to attain high palatability, high processing suitability, characteristic aroma, etc.Rice grains of the famous cultivars are traded or distributed at higher prices as "premium rice" than the ordinary rice because of their high palatability, processing suitability, special aroma, etc. As those premium rice grains sell at high price, some dishonest rice wholesalers or retailers blend low quality cheap rice with high quality premium rice and mislabel it as "high quality premium rice. Recently, rice consumers have tended to demand more information, such as cultivar name, location of production, year of production, etc., about rice which they purchase. For example, it is required under the JAS LAW (Law Concerning Standardization and Proper Labeling of Agricultural and Forestry Products in Japan) to display the name of rice cultivar on the package. Therefore, technology to identify rice cultivars is very important for breeders, farmers, inspectors, wholesalers, retailers, food industries and consumers.Rice cultivars have been identified on the basis of morphological characteristics of rice plants or grains, ripening ratio after crossing, isozyme patterns, etc. Cultivated rice (Oryza sativa L.) is one of the most polymorphic crop species in the world. In contrast, many cultivars of high quality rice or premium rice are closely related because inbred lines are often used for their development. Therefore, it is necessary to develop a time saving technology to differentiate rice cultivars clearly and precisely.DNA fingerprinting was developed in 1985 1) and is used for criminal investigation and trial at court. Recently, a novel cultivar identification method based on DNA polymorphism has been developed accompanied with the progress in molecular biology. DNA based markers have the obvious advantage of sampling the genome directly and RFLP analysis has been widely used for assessing variation of plants.2 4) RFLP analysis has been used to distinguish between species of Oryza 5) and particularly between indica and japonica types of Oryza sativa. 6)Recently, a PCR based marker system has been developed by Williams et al . 7) In this RAPD (Random Amplified Polymorphic DNA) method, short oligo nucleotides of arbitrary sequences are used to support the amplification of regions of the test plant genome and amplified DNAs are separated by gel electrophoresis.There are some reports on RAPD analysis of rice germplasm including indica and japonica types, to identify suitable parents for linkage map construction, and for gene tagging for drought resistance. 8,9) RAPD analysis was revealed to be reproducible and amenable for identification of each single plant line of F1 hybrid rice in China 10) and A...

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Genetic diversity and differentiation of indica and japonica rice detected by RFLP analysis

Cited by 226 publications

References 8 publications

SSR Marker-based Genetic Diversity Analysis of Tidal and Flood Prone Areas in Rice (Oryza sativa L.)

SSR Marker-based Genetic Diversity Analysis of Tidal and Flood Prone Areas in Rice (Oryza sativa L.)

Alleles Affecting 30 Traits for Productivity in Two Japonica Rice Varieties, Koshihikari and Nipponbare (Oryza sativaL.)

Cultivar Identification of Rice (Oryza sativa L.) by PCR Method and its Application to Processed Rice Products

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