Potential taxonomic use of random amplified polymorphic DNA (RAPD): a case study in Brassica

Demeke, Tigst; Adams, Robert P.; Chibbar, Ravindra N.

doi:10.1007/bf00227415

Cited by 218 publications

(90 citation statements)

References 16 publications

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“…RAPD-like assays can search large genomic portions due to their abundant distribution in the genome and there by presenting a more accurate picture of genetic variation within the crop plants in an efficient and inexpensive ways (Souframanien and Gopalakrishna, 2004). RAPD markers have been successfully used to evaluate genetic diversity in Brassica (Demeke et al, 1992;Jain et al, 1994;Thormann et al, 1994;Bhatia et al, 1995;Dulson et al, 1998;Zu and Wu, 1998;Divaret et al, 1999), common wheat (Liu et al, 1999;Sivolap et al, 1997), maize (Zhang et al, 1998;Bernado et al, 1997), barley (Hamza et al, 2004) and sesame (Salazar et al, 2007). The number of markers used, their abundance in the genome and the degree of precision with which the results are analyzed determine the accuracy to distinguish the genotypes (Schut et al, 1997).…”

Section: Introductionmentioning

confidence: 99%

Assessment of Genetic Variation in Indian Mustard (<i>Brassica juncea</i> L.) Using PCR Based Markers

Gupta¹,

Zargar²,

Gupta³

et al. 2014

mpb

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Indian mustard (Brassica juncea L.) is an important oilseed crop with oil content ranging from 30 to 48 percent. However, presence of high erusic acids, glucosinolates and saturated fatty acids and also narrowed genetic base of existing varieties confines its use. The present investigation was undertaken to explore the diversity among Indian mustard genotypes (varieties) using molecular markers. We used RAPD and EST based SSRs as the markers for assessment of genetic variation among 23 genotypes of Brassica juncea L. cultivated in North India. In order to be sure about the authenticity of primers especially RAPDs, four other genotypes of different Brassica species were also considered for this investigation. To determine the discriminatory power of the RAPD primers, polymorphism percentage, PIC, MI and Rp were calculated. Finally the cluster analysis was done to determine the genetic diversity among the 27 genotypes, which includes 4 genotypes of other Brassica species. The polymorphism percentage of more than 91% and 86.66% was observed using the fifteen reproducible RAPDs and three EST SSRs respectively. Moreover the PIC values observed corresponds to 0.303, with 4.44 marker index and 6.89 resolving power for RAPDs, however, SSRs showed the PIC value of 0.281, with 0.94 marker index and 0.269 resolving power. The parameters calculated to estimate the discriminatory power presented a significant correlation and their high values depict the potential of primers for distinguishing the genotypes. The cluster analysis based on UPGMA separated the genotypes in two major groups. To the best of our expectations, all the genotypes of Brassica juncea are grouped in one major cluster and genotypes of other Brassica species are grouped in different cluster. Based on these preliminary results, the diverse genotypes can be used as a genetic stock for improvement of this crop in future breeding programs.

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Section: Introductionmentioning

confidence: 99%

Assessment of Genetic Variation in Indian Mustard (<i>Brassica juncea</i> L.) Using PCR Based Markers

Gupta¹,

Zargar²,

Gupta³

et al. 2014

mpb

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“…All of these species were then studied with random amplified polymorphic DNA (RAPD) markers to select the most probable parent for the GISH experiments. RAPD analyses (Welsh and McClelland 1990;Williams et al 1990) are now commonly used for estimating genetic relationships among closely related populations or species and for molecular evidence concerning the hybrid origin of plants (Demeke et al 1992;Crawford et al 1993;Wang et al 1994 Maaß andKlaas 1995) in spite of some incongruence in most of the RAPD data sets (Rieseberg 1996). We have used GISH to test the most likely hypotheses suggested by the RAPD data.…”

Section: Introductionmentioning

confidence: 99%

Hybrid origin of some ornamentals of Allium subgenus Melanocrommyum verified with GISH and RAPD

1997

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“…In addition, the reproducibility of RAPD banding patterns can be affected by different concentrations of reaction components and the cycle conditions [4]. RAPD technique has been shown to be useful in genetic [6,7] and phylogenetic analyses [8][9][10], Inter Simple Sequence Repeats (ISSR) utilizes the primers based on microsatellites to amplify inter-SSR DNA sequences on SSR [11]. In this technique various micro satellites attached at the 3' end are used to amplify genomic DNA.…”

Section: Introductionmentioning

confidence: 99%

Evaluation of Genetic Diversity and Relationships in Mulberry Varieties Using Rapd and Issr Molecular Markers

Bk¹,

Mp²

2012

Int J Mol Biol

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Abstract-Studies on genetic diversity and relationships between twenty different varieties of mulberry were assayed with selected RAPD and ISSR genetic markers. In the present investigation, the selected mulberry varieties were amplified with 16 RAPD and 8 ISSR primers. The results showed 70 reproducible bands out of which, 61 were polymorphic accounting 81.3% polymorphism with RAPD primers. In contrast, 43 polymorphic bands were generated by ISSR primers out of which 42 were polymorphic bands with 97.6% polymorphism. The primers used in the present study generated unique banding pattern in all the test varieties and most of the varieties exhibited unique molecular genotype. Population genetic structure analysis of these varieties also revealed high genetic differentiation coefficient (GST), heterozygosity among populations (Ht) and low gene flow (Nm). The dendrogram was generated using Ward's Euclidean distance and UPGMA methods. Based on the number of RAPD and ISSR bands, the mulberry varieties were grouped into 5 clusters. Among these, 5th cluster was paired with other varieties. Based on the results obtained on cluster analyses, it is formulated that, 3 varieties of mulberry were considered as one group, whereas other 4 clusters may be included under separate group.

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Potential taxonomic use of random amplified polymorphic DNA (RAPD): a case study in Brassica

Cited by 218 publications

References 16 publications

Assessment of Genetic Variation in Indian Mustard (<i>Brassica juncea</i> L.) Using PCR Based Markers

Assessment of Genetic Variation in Indian Mustard (<i>Brassica juncea</i> L.) Using PCR Based Markers

Hybrid origin of some ornamentals of Allium subgenus Melanocrommyum verified with GISH and RAPD

Evaluation of Genetic Diversity and Relationships in Mulberry Varieties Using Rapd and Issr Molecular Markers

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