Genetic diversity analysis in &lt;i&gt;Brassica&lt;/i&gt; varieties through RAPD markers

Ghosh, K. P.; Haque, M. E.; Parvin, Shahnaj; Akhter, Firoza; Rahim, M.

doi:10.3329/bjar.v34i3.3976

Cited by 17 publications

(11 citation statements)

References 9 publications

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“…The size of the amplification products ranged from 100 to 1000 bp. Ghosh et al (2009) reported 59 reproducible DNA bands generated by four arbitrary selected primers of which 58 (98.03%) bands were proved to be polymorphic and these bands ranged from 212 to 30686 bp in size. The selected 3 primers produced comparatively maximum number of high intensity band with minimal smearing, good technical resolution and sufficient variation among different variants.…”

Section: Resultsmentioning

confidence: 99%

“…Finally, the cluster C included NAP-0838 and NAP-0758-2. According to Ghosh et al (2009), the 9 accessions were capable of being classified into 2 major groups. One group consists of BARI Sharisha-12, Agrani, Sampad, Daulot, Rai-5, Alboglabra and another group contained BINA Sharisha-4, BINA Sharisha-5, and BARI Sharisha-13.…”

Section: Resultsmentioning

confidence: 99%

“…In mustard, various marker systems have been used for assessing the genetic diversity. There is increasing number of reports where molecular markers like restriction fragment length polymorphism (RFLP) (Diers and Osborn, 1994;Hallden et al, 1994), random amplified polymorphic DNAs, (RAPDs) (Ghosh et al, 2009;Yildirim et al, 2010;Khan et al, 2011), amplified fragment length polymorphism (AFLP) (Sun et al, 2001;Zhao et al, 2005) and microsatellites or simple sequence repeats (SSRs) (Abbas et al, 2009;Wang et al, 2009) have been used to study genome organization, varietal differences and diversity analysis in Brassicas. Among molecular marker RAPDs are increasingly being employed in genetic research owing to their speed and simplicity (Williams et al, 1990;Welsh and McClelland, 1990).…”

Section: Introductionmentioning

confidence: 99%

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Genetic diversity analysis of mustard (Brassica spp.) germplasm using molecular marker for selection of short duration genotypes

Iqbal¹,

Hamim²,

Haque³

et al. 2015

Afr. J. Biotechnol.

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Molecular characterization of 16 mustard (Brassica spp.) genotypes by using 12 RAPD markers revealed that three primers GLA-11, OPB-04 and OPD-02 showed good technical resolution and sufficient variations among different genotypes. A total of 40 RAPD bands were scored of which 38 (94.87%) polymorphic amplification products were obtained. Besides, the primer OPD-02 amplified maximum number of polymorphic bands (100.00%) while the primer GLA-11 and OPB-04 generated the least (92.31%) polymorphic bands, which were minimal in number. The present study produced 13.33 scorable bands per primer and 12.67 polymorphic bands per primer. Frequencies of maximum number of polymorphic loci were found to be high with the exception of GLA-11(0.750), OPB-04 (0.875) and OPD-02 (0.750). The estimate of Nei's genetic diversity for the entire genotypes of mustard was 0.3596 and Shannon's information index was 0.535. There was a high level of genetic variation among the mustard genotypes studied from the proportion of polymorphic loci point of view. The values of pair-wise comparison of Nei's genetic distance between genotypes were computed from combined data for the three primers; ranged from 0.1054 to 0.9862. BINA Sarisha-3 and BINA Sarisha-4 showed the lowest genetic distance of 0.1054 where Tori-7 and NAP-0758-2 showed highest genetic distance of 0.9862. The 16 mustard genotypes were differentiated into three main clusters:

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genetic diversity analysis of mustard (Brassica spp.) germplasm using molecular marker for selection of short duration genotypes

Iqbal¹,

Hamim²,

Haque³

et al. 2015

Afr. J. Biotechnol.

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“…A diverse level of polymorphism in different crops have been reported earlier such as Chickpea 98.14% (Rasool 2013), Brassica 98.03% (Ghosh et al 2009), Eggplant 57.89% (Biswas et al 2009) and Chilli 90% (Paran et al 1998). A wide range of RAPD polymorphism in cotton germplasms was also reported.…”

Section: Polymorphism As Detected By Rapd Analysismentioning

confidence: 93%

SSR and RAPD-Based Genetic Diversity in Cotton Germplasms

Sultana

Alam

2016

CYTOLOGIA

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SummaryThis study aimed to evaluate the genetic diversity and to characterize 11 Gossypium hirsutum L. (cotton) germplasms by RAPD and SSR markers. The genomic DNA from the 11 cotton germplasms was amplified with 10 oligonucleotide primers and five microsatellite primer pairs for RAPD and SSR assay, respectively. The 10 RAPD primers generated 335 distinct bands with 100% polymorphisms indicated highly diversed nature. In addition to polymorphism, 29 unique RAPD sequences were identified in 11 cotton germplasms. The five SSR primer pairs generated 69 distinct bands of which 39 were considered as polymorphic (56.52% polymorphisms). Moreover, four unique SSR sequences were identified in three germplasms, namely CB-1, CB-5 and CB-9. The combined RAPD and SSR dendrogram made CB-11 germplasm distinct from the rest and placed alone in a separate cluster that correlated with its phenotypic and agronomic features. Thus, by means of RAPD and SSR markers the genetic diversity was assessed and the 11 cotton germplasms could be characterized authentically.

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“…In B. juncea various marker systems have been used for assessing the genetic diversity. There is increasing number of reports where molecular markers like Restriction Fragment Length Polymorphism, (RFLP; Song, Osborn & Williams, 1988;Diers & Osborn, 1994;Hallden, Nilsson, Rading & Sall, 1994;Das Santos, Nienhuis, Skroch, Tivang & Slocum, 1994), Random Amplified Polymorphic DNAs, (RAPDs; Ghosh, Haque, Parvin, Akhter & Rahim, 2009;Yildirim, Yildirim, Ercisli, Agar & Karlidag, 2010;Khan et al, 2011), Amplified Fragment Length Polymorphism, (AFLP; Sun, Zhao, Song & Chen, 2001;Guo, Zhou, Ma & Cao, 2002;Zhao et al, 2005) and microsatellites or Simple Sequence Repeats (SSRs; Abbas, Farhatullah, Marwat, Khan & Munir, 2009;Wang et al, 2009;Redden, Vardy, Edwards, Raman & Batley, 2009) have been used to study genome organization, varietal differences and diversity analysis in Brassicas. SSRs are co-dominant, highly polymorphic PCR-based markers and are expected to be very powerful in cultivar discrimination.…”

mentioning

confidence: 99%

Evaluación de la diversidad genética en genotipos de <i>Brassica juncea</i> (Brassicaceae) utilizando diferencias fenotípicas y marcadores SSR

Vinu

Singh

Vasudev

et al. 2013

RBT

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Evaluación de la diversidad genética en genotipos de Brassica juncea (Brassicaceae) utilizando diferencias fenotípicas y marcadores SSR. Brassica mustard species represent one of the most important oilseed crops in India, nevertheless, their genetic diversity is barely known. A better understanding on this topic is essential for the proper utilization of genotypes in breeding programmes. We evaluated the genetic diversity among 44 Indian mustard (Brassica juncea) genotypes including varieties/purelines from different agro-climatic zones of India and few exotic genotypes (Australia, Poland and China). For this, we used A and B genome specific SSR markers and phenotypic data on 12 yield and yield contributing traits. Out of the 143 primers tested, 134 reported polymorphism and a total of 355 alleles were amplified. Dendrograms based on Jaccard's similarity coefficients and Manhattan dissimilarity coefficients were generated based on an average linkage algorithm (UPGMA) using marker data and phenotypic data. Genotypes were grouped into four clusters based on genetic distances. Both the clustering patterns based on Jaccard's similarity and Manhattan dissimilarity coefficients, independently, discriminated the genotypes effectively as per their pedigree and origin. PCoA revealed that, the grouping of genotypes based on SSR marker data is more convincing than phenotypic data, however, the correlation between phenotypic and genetic distance matrices was observed to be very low (r=0.11). Hence, for diversity studies reliability on molecular markers is worth proving and SSR markers are the stronger tools than quantitative traits in discriminating B. juncea genotypes. Rev. Biol. Trop. 61 (4): 1919Trop. 61 (4): -1934. Epub 2013 December 01.

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Genetic diversity analysis in <i>Brassica</i> varieties through RAPD markers

Cited by 17 publications

References 9 publications

Genetic diversity analysis of mustard (Brassica spp.) germplasm using molecular marker for selection of short duration genotypes

Genetic diversity analysis of mustard (Brassica spp.) germplasm using molecular marker for selection of short duration genotypes

SSR and RAPD-Based Genetic Diversity in Cotton Germplasms

Evaluación de la diversidad genética en genotipos de <i>Brassica juncea</i> (Brassicaceae) utilizando diferencias fenotípicas y marcadores SSR

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