SSR and RAPD analysis of genetic diversity in walnut (Juglans regia L.) genotypes from Jammu and Kashmir, India

Ahmed, Nazeer; Mir, Javid Iqbal; Mir, Reyazul Rouf; Rather, Nazir Ahmad; Rashid, Rizwan; Wani, Shabir Hussain; Shafi, Wajida; Mir, Hidayatullah; Sheikh, M. A.

doi:10.1007/s12298-012-0104-z

Cited by 43 publications

(30 citation statements)

References 35 publications

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“…The hierarchical clustering algorithm UPGMA was used to construct dendrograms separately for the RAPD and the SSR markers, with slightly different results in the similarities of genotypes, showing that these sets of markers provide complementary information on genetic similarity. Therefore, the data from both markers were combined for maximal information (Ahmed et al, 2012;Zhan et al, 2012), and analyzed for seventeen recommended genotypes and the four rubber clones selected. The genetic distances were quantified by means of the Jaccard index, to arrive at the similarity matrix used in the clustering.…”

Section: Discussionmentioning

confidence: 99%

Performance and genetic assessment of rubber tree clones in Southern Thailand

Pethin

Nakkanong

Nualsri

2015

Sci. agric. (Piracicaba, Braz.)

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Thailand is the world leader in the production of latex extracted from the rubber tree (Hevea brasiliensis). However, the most cultivated clone RRIM 600, is highly susceptible to diseases, and there is economic incentive to develop new rubber tree clones. Four rubber tree clones (T2, SK1, NK1 and SK3) that have high latex yield potential from plantations in Southern Thailand were selected for this study. Yield performance, latex biochemical parameters and anatomical characteristics of bark were monitored for two years, using RRIM 600 clones in the same fields as paired controls. The average yields of the clones SK1, NK1 and SK3 were 129.3, 74.2 and 53.9 g per tree per tapping, respectively, surpassing the paired RRIM 600 controls (94.3, 49.9 and 43.9 g per tree per tapping in matching order). There was a difference in girth increment of SK1, SK3and T2 clones when compared with RRIM 600, whereas the clones SK1 and T2 had higher renewed bark thickness than the paired RRIM 600. The anatomical measurements showed that the diameter of the latex vessels and density of latex vessels mm −2 were the highest in clone NK1, which also had the best latex biochemical parameters. This indicates NK1 is superior, and supports its use inHevea breeding programs to improve latex yield. Our genetic characterization and assessment of the four clones selected used Random Amplified Polymorphic DNA (RAPD) and Simple Sequence Repeats (SSR). Seventeen recommended rubber clones were included as references. The clones SK3 and SK1 were closely related to RRIM 600 with similarity coefficients of 0.891 and 0.809, while NK1 and T2 were closely related to RRIT 250 (0.836) and RRIC 110 (0.864), respectively.

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Section: Discussionmentioning

confidence: 99%

Performance and genetic assessment of rubber tree clones in Southern Thailand

Pethin

Nakkanong

Nualsri

2015

Sci. agric. (Piracicaba, Braz.)

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“…Dom João Hoff mann, 313, 99700-000, Erechim, RS, Brazil variability both within and among species (Rutledge et al 2000;Amin et al 2012;Cruz et al 2016). RAPD (Random Amplified Polymorphic DNA) is a molecular marker that allows detection of polymorphism without previous knowledge of genetic sequences, and is commonly used in plant population studies (Ahmed et al 2012;Zhang et al 2013;Tiwari & Shrivastava 2016). Isozymes are biochemical markers used in the investigation of genetic diversity in natural populations (Kaya & Bilben 2012;Saini & Yadav 2013), allowing analysis of genotype frequencies, coefficients of diversity genetic and heterozygosis, and estimation of possible derivations of Hardy-Weinberg´s equilibrium (Alfenas et al 1998).…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity in populations of Maytenus dasyclada (Celastraceae) in forest reserves and unprotected Araucaria forest remnants

et al. 2017

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Understanding the genetic structure and diversity of plants is fundamental to their conservation and permits their sustainable use by local communities. Th e genus Maytenus (Celastraceae) is composed of plants possessing pharmacological and antioxidant properties. However, the genetic and economic properties of the species M. dasyclada, a typical species of Araucaria forests in Brazil and Uruguay, have been little studied. In this work, the genetic structure and diversity of natural populations of M. dasyclada located in unprotected and preserved forest remnants were investigated using RAPD and isozymes markers. Th e results demonstrated that in areas of preservation, populations of M. dasyclada possess a relatively high degree of polymorphism and high values for Na, Ne, Shannon index, He and Ho, indicating high genetic variability. Moreover, these protected populations are very close to each other and potentially experience signifi cant gene fl ow. Th e results presented here highlight the relevance of preservation areas for the conservation of M. dasyclada, and that populations inhabiting these areas could serve as a genetic source for the recovery of populations in regions where genetic diversity has been lost.

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“…A considerable number of authors reported their results after applying sets of those SSR markers on different walnut samples and species (Dangle et al 2005;Victory et al 2006;Ross-Davis et al 2008;Ardhya et al 2010). The same SSR markers were also used for genetic research of national common walnut populations and cultivars in Europe (Foroni et al 2005;Foroni et al 2006;Foroni et al 2007;Cabral et al 2008;Pollegioni et al 2011;Ruiz Garcia et al 2011) and in Asia (Ahmed et al 2012;Gunn et al 2010;Ibrahimov et al 2010;Karimi et al 2010;Kim et al 2012;Mahmoodi et al 2013;Pollegioni et al 2014;Vahdati et al 2015;Wang et al 2008).…”

Section: Introductionmentioning

confidence: 99%

Optimizations of high throughput multiplex polymerase chain reaction with simple sequence repeat markers for genotyping of common walnut populations (<i>Juglans regia</i> L.)

Ćelepirović¹,

Vlahović²,

Dounavi³

et al. 2016

Silva Fenn.

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Optimizations of high throughput multiplex polymerase chain reaction with simple sequence repeat markers for genotyping of common walnut populations (Juglans regia L.) Ćelepirović N., Karija Vlahović M., Dounavi A., Ivanković M. (2016). Optimizations of high throughput multiplex polymerase chain reaction with simple sequence repeat markers for genotyping of common walnut populations (Juglans regia L.). Silva Fennica vol. 50 no. 5 article id 1674. 9 p. http://dx.doi.org/10.14214/sf.1674 Highlights• We combined eleven SSR markers in one multiplex PCR to make faster and cost effective amplification of the common walnut DNA from Croatia.• Genetic variation of common walnut from Croatia was moderate at analyzed SSR loci.• The resultant multiplex PCR could be used for genotyping of common walnut populations. AbstractMultiplex polymerase chain reaction (PCR) allows amplification of two or more pair of primers in parallel for amplification of multiple target sequences in a single reaction tube. In this study, we combined existing simple sequence repeat (SSR) markers (nuclear microsatellites) in the novel combination of multiplex PCR to study the population genetics of common walnut from Croatia. From twenty one tested SSR markers, eleven produced satisfactory results in one multiplex PCR. Population genetic results achieved from 15 samples of Croatian common walnut showed moderate genetic variability (average value: He 0.473; Ho 0.568). Our multiplex PCR allowed cost effective work concerning chemicals, plastic ware, device, and working time producing optimal results. The optimized multiplex PCR represented the best combination of eleven SSR primers for genotyping common walnut in a single PCR reaction.

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SSR and RAPD analysis of genetic diversity in walnut (Juglans regia L.) genotypes from Jammu and Kashmir, India

Cited by 43 publications

References 35 publications

Performance and genetic assessment of rubber tree clones in Southern Thailand

Performance and genetic assessment of rubber tree clones in Southern Thailand

Genetic diversity in populations of Maytenus dasyclada (Celastraceae) in forest reserves and unprotected Araucaria forest remnants

Optimizations of high throughput multiplex polymerase chain reaction with simple sequence repeat markers for genotyping of common walnut populations (<i>Juglans regia</i> L.)

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