scholarly journals RAPD Analysis for Genetic Variability Detection of Mutant Soybean (Glycine max (L.) Merr)

2020 ◽  
Vol 5 (1) ◽  
pp. 68
Author(s):  
Didik Wahyudi ◽  
Lia Hapsari ◽  
S. Sundari
Keyword(s):  
Genetic Variability ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Dna Amplification ◽  
Genetic Mutation ◽  
Soybean Seeds ◽  
Whole Genome ◽  
Wild Type ◽  
New Approach

This study aimed to detect and evaluate the genetic mutation from mutagenized soybean by RAPD markers. Soybean seeds of “Grobogan” variety were treated with two different concentrations of EMS (0.5% and 1%) and three incubation times (4, 6 and 8 h). DNA whole-genome was isolated from young leaf seedling with the Qiagen DNeasy Plant Mini Kit. Twenty OPA primers (OPA-1 to OPA-20) were used for DNA amplification. The results showed that EMS treatments successfully generated genetic variation in soybean, which indicated by high values of PIC, EMR, and MI. RAPD primers that effective to detect the mutation were OPA-2, OPA-07, OPA-10, OPA-11, OPA-12, OPA-13, OPA-14, OPA-15, OPA-16, OPA-18 and OPA-20. The band expression of those primers was exhibited a stronger intensity along with increasing of EMS concentration and incubation time used in this study. Treatment of 0.5% EMS in 6 hours incubation was successfully generated soybean mutants with the lowest genetic similarity compared to the wild-type. Thus, this study provides a new approach to generate genetic variability in soybean and has the potential to improve for soybean breeding program.

scholarly journals Genetic variability in physic nuts cultivated in Northeastern Brazil

2013 ◽  
Vol 43 (6) ◽  
pp. 978-984 ◽  
Author(s):  
Vanice Dias Oliveira ◽  
Allivia Rouse Carregosa Rabbani ◽  
Ana Veruska Cruz da Silva ◽  
Ana da Silva Lédo
Keyword(s):  
Molecular Markers ◽  
Genetic Structure ◽  
Genetic Variability ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Dna Amplification ◽  
Northeastern Brazil ◽  
Jaccard Coefficient ◽  
Physic Nut ◽  
Genetic Structure And Diversity

This research had as objective to characterize genetically individuals of physic nut cultivated in experimental areas in Sergipe, Brazil by means of RAPD molecular markers. Leaves of 40 individuals were collected and DNA was isolated using CTAB 2% method. Were used 30 primers RAPD for DNA amplification, and this data was used to estimate the genetic similarity among the pairs of individuals, using Jaccard coefficient, and group them out for the UPGMA method. Also, the genetic structure and diversity of the populations were assessed using AMOVA. Of the 100 fragments generated, 29 of were polymorphic. A similarity average of 0.54 among the individuals was found and the amplitude similarities varied from 0.18 to 1.00. One of them (U5) was unit clusters and formed by the most divergent individuals. AMOVA indicated that there is more variation within (63%) the population. In conclusion, it was possible verify genetic variability in physic nut using RAPD markers at these experimental areas.

scholarly journals Genetic analysis of species in the Genus Catasetum (ORCHIDACEAE) using RAPD Markers

2010 ◽  
Vol 53 (2) ◽  
pp. 375-387 ◽  
Author(s):  
Luciana do Valle Rego Oliveira ◽  
Ricardo Tadeu de Faria ◽  
Claudete de Fátima Ruas ◽  
Paulo Maurício Ruas ◽  
Melissa de Oliveira Santos ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Genetic Variability ◽  
Genetic Analysis ◽  
Genetic Relationship ◽  
Genetic Similarity ◽  
Core Collection ◽  
Rapd Markers ◽  
Dna Amplification ◽  
Breeding Programs

In this work, RAPD molecular markers were used to access the genetic variability and to study the inter and intraespecifc relationship in a group of 37 species, including 56 individuals. A total of 15 RAPD primers were selected for DNA amplification. From a total of 221 bands analyzed, 209 (95%) were polymorphics. The level of interespecifc genetic similarity ranged from 37% between Catasetum complanatum and Catasetum laminatum to 83% between Catasetum triodon and Catasetum uncatum. The intraspecifc genetic similarity varied 88% for the individuals of Catasetum triodon to 93% between the individuals of Catasetum atratum and Catasetum macrocarpum. These results would contribute to understand the genetic relationship in Catasetum, to define the strategies to establish a germplasm core collection for the genus and to provide support for breeding programs.

Detection of genetic diversity in tea (Camellia sinensis) using RAPD markers

Genome ◽  
1995 ◽  
Vol 38 (2) ◽  
pp. 201-210 ◽  
Author(s):  
F. N. Wachira ◽  
R. Waugh ◽  
W. Powell ◽  
C. A. Hackett
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Southeast Asia ◽  
Camellia Sinensis ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Random Amplified Polymorphic Dna ◽  
Systematic Assessment ◽  
Tree Crop ◽  
Taxonomic Relationships

Camellia sinensis is a beverage tree crop native to Southeast Asia and introductions have been made into several nonindigenous countries. No systematic assessment of genetic variability in tea has been done anywhere. In this study, random amplified polymorphic DNA (RAPD) analysis was used to estimate genetic diversity and taxonomic relationships in 38 clones belonging to the three tea varieties, assamica, sinensis, and assamica ssp. lasiocalyx. Extensive genetic variability was detected between species, which was partitioned into between and within population components. Seventy percent of the variation was detected within populations. Analyses based on band sharing separated the three populations in a manner consistent with both the present taxonomy of tea and with the known pedigrees of some clones. RAPD analysis also discriminated all of the 38 commercial clones, even those which cannot be distinguished on the basis of morphological and phenotypic traits.Key words: genetic diversity, RAPDs, Camellia sinensis.

A Study on the Genetic Variability of Biatora Helvola using Rapd Markers

1999 ◽  
Vol 31 (5) ◽  
pp. 491-499 ◽  
Author(s):  
Christian Printzen ◽  
H. Thorsten Lumbsch ◽  
Imke Schmitt ◽  
G. Benno Feige
Keyword(s):  
Genetic Variability ◽  
Central Europe ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Genetic Differences ◽  
Disjunct Distribution ◽  
Spruce Forest ◽  
Beech Forests ◽  
Last Glaciation ◽  
The Alps

AbstractBiatora helvola is a corticolous crustose lichen occurring in boreal and montane spruce and spruce-fir-beech forests. After the last glaciation, spruce reinvaded Europe from three refugia situated in the Carpathians, southeastern parts of the Alps and the Ural Mts., resulting in a slightly disjunct distribution. Our aim was to find out whether the glacial fragmentation of the distributional area of spruce is reflected by genetic differences in a typical spruce-forest lichen. Collections of Biatora helvola from Scandinavia and various parts of Central Europe were investigated using RAPD analysis. Algal free periclinal sections of the apothecia were obtained using a freezing microtome and transferred directly into PCR tubes. Six different RAPD primers were used. The data were analysed using PAUP*. It was shown that genetic differences between samples of B. helvola reflect the glacial disjunction of spruce in Europe.

scholarly journals Analysis of intra-population variability of bald cypress (Taxodium distichum L. Rich.) in seed stand near Backa Palanka using RAPD markers

Genetika ◽  
2015 ◽  
Vol 47 (2) ◽  
pp. 571-580
Author(s):  
Vladan Popovic ◽  
Aleksandar Lucic ◽  
Danijela Ristic ◽  
Ljubinko Rakonjac ◽  
Sabahudin Hadrovic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Dna Markers ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Genetic Distances ◽  
Similarity Coefficients ◽  
Bald Cypress ◽  
Seed Stand

The analysis of Bald cypress genetic variability at the level of test trees was performed using RAPD (Random Amlified Polymorphic DNA) markers. RAPD analysis was performed on 20 test trees with 13 primers. A total of ten primers gave a clear picture while three primers amplified weakly. 60 is a total number of detected bands obtained by RAPD analysis with 10 selected primers, and the average number of bands is 6. Based on presence/absence of RAPD fragments among all 20 Bald cypress test trees were calculated similarity coefficients by Dice and they range from 0.73 to 1. Based on similarity coefficients was performed the cluster analysis and results were presented as a dendrogram. All 20 test trees were grouped into two sub-clusters. Test trees 1, 4 and 11 were grouped in the first sub-cluster while other test trees were grouped in the second sub-cluster. By analysis of relations within every sub-cluster and sub-sub-cluster the existence of genetic distances between observed test trees can be noticed. The greatest similarity is between test trees 2, 12, 15 and 18. The results of genetic similarity and distance between observed test trees indicate the overwhelming presence of genetic diversity.

Morphometric and molecular (RAPD) analysis of six Serapias taxa from Croatia

Biologia ◽  
2011 ◽  
Vol 66 (1) ◽  
Author(s):  
Vladimir Hršak ◽  
Slavko Brana ◽  
Zorana Sedlar ◽  
Ivan Pejić
Keyword(s):  
Genetic Variability ◽  
Rapd Markers ◽  
Floral Morphology ◽  
Parental Species ◽  
Rapd Analysis ◽  
Genetic Analyses ◽  
Morphometric Analyses

AbstractThe morphometric analyses and genetic variability assessed by RAPD markers have been used to analyse relations among six Serapias taxa from Croatia (S. istriaca, S. pulae originally described as hybrid, S. ionica, S. vomeracea, S. lingua and S. cordigera). S. istriaca distributed in southern Istria and the island of Lošinj and S. pulae stenoendemic taxon distributed only in southern Istria S. ionica is endemic to the Ionian and Dalmatian islands, while the remaining taxa are more widely distributed. The obtained results shows that the endemic S. istriaca is a well characterised taxon, that S. pulae is a hybrid between S. istriaca and S. lingua and that the hybrid is morphologically and genetically more similar to S. lingua than the second parental species S. istriaca. The division into the subsections Steno-, Medio- and Platypetalae is founded based on the floral morphology while the division into the sections Serapias and Bilamellaria is not evident in the quantitative morphological and genetic analyses. Furthermore, considerable genetic resemblance between S. vomeracea and S. ionica was established.

scholarly journals Anatomical profile and genetic variability of sweet potato (Ipomoea batatas) cultivars in Banyumas, Central Java, based on RAPD markers

2020 ◽  
Vol 21 (4) ◽  
Author(s):  
SITI SAMIYARSIH ◽  
Nur Fitrianto ◽  
ENUR AZIZAH ◽  
WIWIK HERAWATI ◽  
ROCHMATINO
Keyword(s):  
Genetic Variability ◽  
Sweet Potato ◽  
Ipomoea Batatas ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Dna Amplification ◽  
Anatomical Study ◽  
Wide Distribution ◽  
Potato Cultivars ◽  
Central Java

Abstract. Samiyarsih S, Fitrianto N, Azizah E, Herawati W, Rochmatino. 2020. Anatomical profile and genetic variability of sweet potato (Ipomoea batatas) cultivars in Banyumas, Central Java, based on RAPD markers. Biodiversitas 21: 1755-1766. Indonesia has developed a food consumption diversification based on local sources. Sweet potato (Ipomoea batatas) is one of the tubers of carbohydrate sources in addition to wheat, rice, corn, potatoes, and cassava. It has a wide distribution, and high cultivars diversity produces a high variation on its morphology, anatomy, and genetic modification. The objectives of this research were to investigate the anatomical profile and genetic variability of eight sweet potatoes (Ipomoea batatas) cultivars found in Banyumas, Central Java, Indonesia. Anatomical profile was observed by the embedding method and subjected to analysis of variance. DNA amplification using Random Amplified Polymorphic DNA (RAPD) method with 10 primers, namely OPA-1, OPA-2, OPA-3, OPA-4, OPA-9, OPA-11, OPA-13, OPA-15, OPA-16, and OPA-18. The result of the anatomical study showed that eight sweet potato cultivars have significantly different (p<0.05) variation in leaf anatomical profile. RAPD primers produced 52 amplified fragments varying from 100 to 1300 bp in size, and 90.40% of the amplification bands were polymorphic. The genetic similarity level is ranged from 0.37 to 0.93. Two unspecific groups were forming at a coefficient of 55% from the dendrogram. The first group consisted of one cultivar, Cangkuang, and the second group consisted of seven cultivars Antin, Ungu Tua, Borobudur, Sukuh, Sari, Beta, and Kidal. The nearest relationships cultivars were Borobudur, and Ungu Tua had the highest similarity coefficient of 93%, and the lowest similarity found in Cangkuang and Antin with a coefficient of 37%. The range of genetic distance of eight cultivars was from 0.37-0.93. Implementation of the research would particularly useful for the identification and evaluation of the genetic improvement of sweet potato cultivars.

scholarly journals Genetic Variability in Nicotianatabacum and Nicotiana Species as Revealed by RAPD Markers: 1. Development of the RAPD Procedure

2000 ◽  
Vol 19 (1) ◽  
pp. 1-15 ◽  
Author(s):  
L del Piano ◽  
M Abet ◽  
C Sorrentino ◽  
F Acanfora ◽  
E Cozzolino ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Rapd Marker ◽  
Dna Amplification ◽  
Extraction Methods ◽  
Dna Polymorphisms ◽  
Dna Amount ◽  
Reaction Conditions ◽  
Dna Extraction Methods

AbstractAt present there is no information about the level of genetic variability in N. tabacum and in the Nicotiana genus as revealed by random amplified polymorphic DNA (RAPD). Such knowledge could be useful for taxonomic and breeding purposes. The aim of this paper is to assess the potential application of the DNA polymorphisms generated by RAPD markers within this genus and in tobacco. As rigorously standardized reaction conditions are required to obtain a reproducible RAPD marker, four rapid DNA extraction methods were compared and several parameters of the reaction conditions for the random polymorphic DNA amplification were analysed and optimized. The DNA of six-week-old leaves of N. tabacum var. Samsun was obtained with the following methods differing in the strategy of purification: the cetyltrimethylammonium bromide (CTAB) method, that of Edwards, nucleon phytopure system and the method of Goring. Reproducible amplification profiles were obtained with all the methods except for Edwards'. As regards amplification conditions, the effects of primer-template annealing temperature, of a final extension step, of the number of cycles and of the length of extension time in each cycle were analysed. Moreover, the effects on amplification reaction of the DNA amount, of MgCl2, primer and deoxynucleotide triphosphate (dNTP) concentration were evaluated. Then DNA of 12 Nicotiana species and Nicotianatabacum was amplified with primers OPA-01 and OPA-13 which revealed a considerable polymorphism. The same primers used to analyse 36 var. of N. tabacum belonging to different types, showed identical amplification profiles. Further amplification experiments were carried out with only 12 of the tobacco lines; three primers among the 12 assayed revealed one polymorphic fragment each.

scholarly journals Molecular characterization of elephantgrass accessions through RAPD markers

2005 ◽  
Vol 29 (3) ◽  
pp. 568-574 ◽  
Author(s):  
Leônidas Paixão Passos ◽  
Marco Antonio Machado ◽  
Maria Coletta Vidigal ◽  
Ana Lúcia Campos
Keyword(s):  
Genetic Variability ◽  
Genetic Distance ◽  
Binary Data ◽  
Rapd Markers ◽  
Dna Amplification ◽  
Distance Matrix ◽  
Genetic Distances ◽  
Average Genetic Distance ◽  
Genetic Distance Matrix

Elephantgrass pastures are limited by yield variations and reductions in forage quality and availability, thus making the search for genotypes with reduced seasonality a major concern. In order to verify the extent of genetic variability among contrasting cultivars, ten elephantgrass accessions were analyzed through DNA amplification by RAPD technique. A total of 160 DNA bands were generated with the use of 44 random primers and 23% of these bands were monomorphic for all accessions. Gel-obtained binary data (1 for presence and 0 for absence) were used for generating a genetic distance matrix, which was utilized in a UPGMA grouping analysis. Elephantgrass cultivars Cameroon and Vruckwona were the accessions mostly divergent from the others, with an average genetic distance of 0.34. The accessions with the lowest average genetic distances from the others were Pioneiro and CNPGL 27-5, both with a distance of 0.25. Overall, genetic distances ranged from 0.06 to 0.43, indicating little genetic variability for the set of accessions, despite the contrasting morphology of the studied genotypes.

scholarly journals Genetic Diversity of Croton (Codiaeum variegatum (L.) Rumph.ex A. Juss) and Its Offspring Based on RAPD Markers

2019 ◽  
Vol 4 (2) ◽  
pp. 52
Author(s):  
Mufit Daryatun Asniawati ◽  
Aziz Purwantoro
Keyword(s):  
Genetic Diversity ◽  
Genetic Distance ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Female Parent ◽  
Dna Amplification ◽  
Male Parent ◽  
Native Plant ◽  
Codiaeum Variegatum ◽  
Polymorphic Bands

Croton (Puring) is a native  plant of Indonesia which has varied leaf shapes and colors. The diversity of croton increase through hybridization. The information on genetic diversity and relationship between parent and its offspring of crotons is very limited. This study aims to analyze the genetic diversity of cultivar Mawar (MW) and Walet (W) as parent compare to their offspring i.e, Black Marlet (BM), Kingkit 1 (KA), Kingkit 2 (KB), and Kamaratih (KM) using RAPD markers. This study used DNA extraction from the fresh leaf of six cultivars. The next steps were DNA quantification, primary optimization, DNA amplification with PCR, and electrophoresis. Statistical analysis was carried out using Genalex software. A total of 40 primers were screened, out of which 10 were selected for the analysis of genetic diversity. A total of 106 polymorphic bands were generated, ranging from 130 to 1850 bp. The results of RAPD analysis showed that Mawar as female parent had the highest polymorphic bands percentage of 69.01%, while Walet as male parent and its offspring ranged from 31.15 % to 43.94%. The genetic distance of the offspring with Walet ranged from 0.176 to 0.234 and genetic distance of the offspring with Mawar ranged from 0.314 to 0.372. It was indicated that all of offspring were closer to the male parent.

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