scholarly journals Molecular Characterization of 28 Mango Germplasm Using RAPD

1970 ◽  
Vol 17 (1) ◽  
pp. 71-77 ◽  
Author(s):  
ML Rahman ◽  
MG Rabbani ◽  
MNA Siddique ◽  
MA Rahman ◽  
EJ Garvey ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Genetic Distance ◽  
Rapd Analysis ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Similarity Index ◽  
The Other ◽  
Germplasm Characterization ◽  
Upgma Dendrogram

Genetic variation and relationship among 28 mango germplasm were analyzed using Random Amplified Polymorphic DNA (RAPD). Out of 20 primers screened, four were selected, which gave 50 clear and bright fragments, out of which 48 fragments were considered polymorphic. The proportion of polymorphic loci and gene diversity values across all loci were 96% and 0.29, respectively. The UPGMA dendrogram based on genetic distance segregated the 28 mango germplasm into two main clusters. Sukul alone formed one cluster and the rest germplasm were grouped together into another cluster. Mallika and Amrapali cultivar pair was very close to each other with the highest intervarietal similarity index (87.30%) and lowest genetic distance (0.08). On the other hand, Sukul and Meghnath pair was more distant to each other with the lowest intervarietal similarity index (14.29%) and highest genetic distance (0.87). The results of the present study indicated that the RAPD analysis could be utilized by breeders for further improvement of mango varieties.Key words: Germplasm, Characterization, Mango, RAPDDOI = 10.3329/ptcb.v17i1.1123Plant Tissue Cult. & Biotech. 17(1): 71-77, 2007 (June)

scholarly journals Genetic Relationship Among Ten Promising Eggplant Varieties Using RAPD Markers

1970 ◽  
Vol 19 (2) ◽  
pp. 119-126 ◽  
Author(s):  
Md. Sanaullah Biswas ◽  
Md. Abdullah Yousuf Akhond ◽  
Md. Al-Amin ◽  
Mahmuda Khatun ◽  
Muhammed Rezwan Kabir
Keyword(s):  
Genetic Diversity ◽  
Genetic Distance ◽  
Genetic Relationship ◽  
Plant Tissue ◽  
Rapd Markers ◽  
Gene Diversity ◽  
Similarity Index ◽  
The Other ◽  
Upgma Dendrogram ◽  
Potential Tool

RAPD technique was used as a tool for assessing genetic diversity and varietal relationships among ten varieties of eggplant. Out of 21 primers screened four were selected. With these primers 76 clear and bright fragments were obtained of which 44 fragments considered polymorphic. The proportion of polymorphic loci and gene diversity values across all loci were 57.89% and 0.23, respectively. The UPGMA dendrogram based on genetic distance segregated the ten varieties of eggplant into two main clusters. Dohazari, Kazla, Nayantara and ISD-006 were grouped together in cluster I whereas Uttara, Islampuri, Khatkhatia, Singnath, BARI Begun-08 and Eggplant Line-083 into cluster II. Kazla and Nayantara variety pair was very close to each other with the highest intervarietal similarity index (92.54%) and lowest genetic distance (0.14). On the other hand, Khatkhatia and Nayantara pair was the lowest intervarietal similarity index (41.67%) with highest genetic distance (0.48). Therefore, identification of genetically distinct varieties using RAPD markers could be a potential tool for eggplant improvement. Key words: Eggplant, Polymorphism, Genetic relationship, RAPD D.O.I. 10.3329/ptcb.v19i2.5006 Plant Tissue Cult. & Biotech. 19(2): 119-126, 2009 (December)

Molecular Characterization of Five Medicinally Important Species of Typhonium (Araceae) through Random Amplified Polymorphic DNA (RAPD)

2005 ◽  
Vol 60 (7-8) ◽  
pp. 600-604 ◽  
Author(s):  
Laxmikanta Acharya ◽  
Arup Kumar Mukherjee ◽  
Pratap Chandra Panda ◽  
Premananda Das
Keyword(s):  
Molecular Characterization ◽  
Genetic Similarity ◽  
Rapd Analysis ◽  
Random Amplified Polymorphic Dna ◽  
Similarity Index ◽  
The Other ◽  
Important Species ◽  
Species Specific ◽  
Maximum Similarity

The interrelationship of five medicinally important species of Typhonium (Araceae) including T. venosum, which was previously placed under the genus Sauromatum, was inferred by analysis of random amplified polymorphic DNA (RAPD). DNA from pooled leaf samples was isolated and RAPD analysis was performed using 20 decamer oligonucleotide primers. Out of a total of 245 bands amplified, 12 were found to be monomorphic while 233 bands were polymorphic including 86 species-specific bands. The genetic similarities were analyzed from the dendrogram constructed by the pooled RAPD data using a similarity index. The dendrogram showed two distinct clades, one containing T. roxburghii, T. trilobatum and T. venosum and the other containing the remainder two species, i.e. T. diversifolium and T. flagelliforme. Both the clusters shared a common node approx. at 23.7% level of similarity. The maximum similarity of 31.2% was observed between T. venosum and T. trilobatum. In view of its close genetic similarity with other members of Typhonium, transfer of Sauromatum venosum to the genus Typhonium and merger of the two genera was supported.

scholarly journals Molecular characterization of Canna indica L. based on random amplified polymorphic DNA markers

2021 ◽  
Vol 28 (1) ◽  
pp. 75-81
Author(s):  
Sabiha Sultana Akhi ◽  
Bivas Kumar Sarkar ◽  
Nahid Sultana ◽  
Zakya Sultana Jui ◽  
RH Sarker ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Dna Markers ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Random Amplified Polymorphic Dna ◽  
The Other ◽  
Canna Indica ◽  
Plant Taxon ◽  
The Relationship

Random amplified polymorphic DNA (RAPD) markers were employed for characterization, assessment of genetic variation and inferring relationships among six variants of Canna indica L. A total of 198 RAPD bands ranging from 200 bp to 3 kbp were generated by all the six variants. Among them, most of the bands were found to be polymorphic, four band were unique of which two bands (OPA022000 and OPA043000) were observed in the variant 2 (small red) and the other two (OPA013000 and OPA053000) were noticed in the variant 4 (orange), and the remaining bands were found to be monomorphic. The pair-wise genetic distance was determined among the six variants that ranged from 0.1446 to 0.6554. A dendogram was constructed based on the RAPD profiling to infer the relationship among the six variants of C. indica that resulted in two major clusters: the first one contained two variants, viz. variant 1 (local red) and variant 2 (small red), while the second cluster composed of the remaining four variants. The results as revealed from the RAPD analysis were found congruent with those of morphological and anatomical investigation of the species. Bangladesh J. Plant Taxon. 28(1): 75-81, 2021 (June)

Molecular Diversity Analysis of Lentil (Lens culinaris Medik.) through RAPD Markers

2012 ◽  
Vol 22 (1) ◽  
pp. 51-58 ◽  
Author(s):  
M.E. Hoque ◽  
M.M. Hasan
Keyword(s):  
Genetic Distance ◽  
Rapd Markers ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Genetic ◽  
Group Method ◽  
Diversity Analysis ◽  
Pair Group ◽  
Molecular Genetic Diversity

Random Amplified Polymorphic DNA (RAPD) markers were used to study the molecular genetic diversity analysis among six BARI released lentil varieties viz. BARI masur-1, BARI masur-2, BARI masur-3, BARI masur-4, BARI masur-5 and BARI masur-6. PCR amplified products were visualized on 1.0% agarose gel and the band for each primer were scored. Ten RAPD markers were used in this study. Out of them 7 primers showed amplification of 53 DNA fragments with 60.37% of them being polymorphic. The highest number of polymorphic loci was noticed in the variety BARI masur-3. The same variety also showed maximum Nei’s gene diversity value (0.0552). The highest Nei’s genetic distance (0.5002) was observed in BARI masur-1 vs. BARI masur-5 whereas, the lowest genetic distance (0.0692) was found in BARI masur-1 vs. BARI masur-2. The unweighted pair group method of arithmetic mean (UPGMA) dendrogram based on Nei’s genetic distance grouped the six cultivars into two main clusters. BARI masur-1, BARI masur-2 and BARI masur-3 were in cluster I and BARI masur-4, BARI masur-5 and BARI masur-6 were in cluster II. The cultivar BARI masur-4 was closest to the cultivar BARI masur-6 with the lowest genetic distance (0.0972) and the highest genetic distance (0.5002) was found between BARI masur-1 and BARI masur-5. The RAPD markers were found to be useful in molecular characterization of lentil varieties which could be utilized by the breeders for the improvement of lentil cultivars. DOI: http://dx.doi.org/10.3329/ptcb.v22i1.11260 Plant Tissue Cult. & Biotech. 22(1): 51-58, 2012 (June)

scholarly journals GENETIC VARIATION AND RELATEDNESS AMONG HIGH YIELDING RICE VARIETIES (Oryza sativa L.) REVEALED BY RAPD MARKERS

2008 ◽  
Vol 21 (1) ◽  
pp. 07-14
Author(s):  
F. Easmin ◽  
M. S. Rahman ◽  
M. S. Islam ◽  
M. A. Samad ◽  
M. S. Alam
Keyword(s):  
Genetic Variation ◽  
Genetic Distance ◽  
Rapd Markers ◽  
Oryza Sativa L ◽  
Gene Diversity ◽  
Chain Reaction ◽  
Rice Varieties ◽  
Upgma Dendrogram ◽  
Polymerase Chain ◽  
High Level

Genetic variation is a principal concern for the plant breeders. Genetic variation and relationship among high yielding rice varieties viz. Binadhan 4, Binadhan 5, Binadhan 6, Binasail, BRRI dhan28 and BRRI dhan29 were analyzed using four decamer random primers. Polymerase Chain Reaction (PCR) amplified 22 RAPD markers, of which 18 (81.82%) were polymorphic. The proportion of polymorphic loci and the gene diversity values were 59.09% and 0.25 for the Binadhan 4; 59.09% and 0.21 for Binadhan 6; 54.55% and 0.23 for Binasail; 54.55% and 0.19 for BRRI dhan29; 50.00% and 0.19 for Binadhan 5 and 45.45% and 0.18 for BRRI dhan28, respectively. The coefficient of gene differentiation (Gst) across all loci was calculated as 0.35 reflecting the existence of high level of genetic variation among the six modern rice varieties. UPGMA dendrogram based on Nei’s genetic distance segregated the six high yielding rice varieties into two clusters: all four mutant varieties viz. Binadhan 4, Binadhan 5, Binadhan 6 and Binasail formed one cluster and two varieties of BRRI grown in boro season, BRRI dhan28 and BRRI dhan29 grouped together in another cluster. Among the mutants, two boro season varieties, developed from the same parent, Binadhan 5 and Binadhan 6 grouped together with genetic distance of 0.10. Therefore, RAPD offer a reliable method to evaluate genetic variation and relatedness among the high yielding rice varieties.DOI: http://dx.doi.org/10.3329/bjpbg.v21i1.17042

scholarly journals Genetic diversity analysis of tropical sugar beet (Beta vulgaris L.) varieties in Bangladesh using RAPD markers

Genetika ◽  
2016 ◽  
Vol 48 (1) ◽  
pp. 151-164
Author(s):  
Saidin Saclain ◽  
Abdul Latif ◽  
Babul Bala ◽  
Mithun Mallik ◽  
Shahidul Islam
Keyword(s):  
Genetic Variation ◽  
Sugar Beet ◽  
Genetic Distance ◽  
Rapd Markers ◽  
Gene Diversity ◽  
Similarity Index ◽  
Genetic Distances ◽  
Group Method ◽  
Pair Group ◽  
Major Cluster

Knowledge on intra-specific genetic variation of an organism is important for its genetic improvement and conservation. In order to estimate genetic variation and relatedness in eleven tropical Sugar beet varieties we used randomly amplified polymorphic DNA (RAPD) markers. The RAPD analysis was performed using six decamer random primers, which amplified a total of 63 DNA fragments of which 43 (68.25%) were found polymorphic. The average polymorphic bands per primer was 7.17 and the overall gene diversity was 0.24. Among the 43 polymorphic loci studied, 2 were specific for 2K 310, 1 for Shubraha, 1 for Natura and 1 for HI-0473 varieties. Pair wise genetic distance and similarity indices were ranged from 0.12-0.51 and 66.73-92.91, respectively. Cauvery and 2K 310 were found to be the most distantly related with a higher genetic distance value (GD = 0.51) and lower similarity index (SI = 66.73), while Aranka and Serenada were the most closely related with their lower GD (0.12) and higher SI(92.91) values. In an unweighted pair group method of arithmetic mean dendrogram constructed on the basis of genetic distances, the eleven varieties grouped into two main clusters: 2K 310 alone was in one cluster whereas 10 other varieties grouped into a major cluster. This indicates that 2K 310 was distantly related with each of the other varieties. Distantly related varieties based on estimated genetic variation could be selected for future breeding program that could result in improvement of this crop.

Isozyme and RAPD variation among and within hemp dogbane (Apocynum cannabinum) populations

Weed Science ◽  
1998 ◽  
Vol 46 (4) ◽  
pp. 408-413 ◽  
Author(s):  
Corey V. Ransom ◽  
David S. Douches ◽  
James J. Kells
Keyword(s):  
Genetic Variation ◽  
Genetic Distance ◽  
Phenotypic Variation ◽  
Population Genetic ◽  
Rapd Analysis ◽  
Analysis Data ◽  
The Other ◽  
Randomly Amplified Polymorphic Dna ◽  
Population Genetic Analysis ◽  
Two Populations

Clonal individuals from 16 hemp dogbane populations with phenotypic variation were analyzed using isozyme and randomly amplified polymorphic DNA (RAPD) analysis. Plants originated from populations in Michigan and Illinois. Three knownApocynumspecies, spreading dogbane, hemp dogbane, and prairie dogbane, were evaluated. Genetic distance among populations was more pronounced with isozyme analysis compared to RAPD analysis. The combined isozyme and RAPD analysis data separated spreading dogbane from all other plants analyzed. Genetic variation was present among the 16 hemp dogbane populations, but was less than expected based on the phenotypic variation present among the collections. The short genetic distance between the 16 hemp dogbane collections and the threeApocynumspecies suggests that variation among populations of hemp dogbane may be from outcrossing with other closely relatedApocynumspecies. Isozyme and RAPD analyses were also conducted on plants from two populations in Michigan to determine the level of genetic variation among plants within the same population. Genetic analysis revealed that one population was entirely clonal, while the other population was a mixture of clonal and segregating plants.

scholarly journals Assessment of Genetic Relationship Among Landraces of Bangladeshi Ridge Gourd (Luffa acutangula Roxb.) Using RAPD Markers

2009 ◽  
Vol 1 (3) ◽  
pp. 615-623 ◽  
Author(s):  
S. Hoque ◽  
M. G. Rabbani
Keyword(s):  
Genetic Distance ◽  
Genetic Relationship ◽  
Genetic Relatedness ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Similarity Index ◽  
Group Method ◽  
Pair Group ◽  
Average Gene ◽  
Luffa Acutangula

Information on genetic relatedness among ridge gourd (Luffa acutangula) genotypes from Bangladesh is currently not reported. Twenty eight accessions collected from different parts of Bangladesh were studied using random amplified polymorphic DNA (RAPD) technique. Four selected decamer primers, out of sixteen screened, could generate a total of 27 RAPD fragments of which 22 were polymorphic (81.5%). The bands ranged from 50 to 1500 bp in size. Genetic variation statistics for all loci estimated the average gene diversity (h) value as 0.278 and the Shannon’s Information Index (I) as 0.415. Dendrogram based on unweighted pair-group method with arithmetic averages (UPGMA) segregated the accessions into five clusters. Cluster III was the largest with 13 members followed by cluster II, V, I and IV with 6, 4, 3 and 2 members, respectively. Accession LA27 and LA29 were found very close to each other with the highest inter-variety similarity index (96.05%) and the lowest genetic distance (0.077); whereas accession LA40 and LA72 were more distant to each other with the lowest inter-variety similarity index (44.43%) and the highest genetic distance (0.73). A DNA extraction method has been standardized. The marker was found to be useful tool for assessing genetic variations in Luffa acutangula. Keywords: Genetic relationship; Germplasm; Ridge gourd; Luffa acutangula; RAPD.  © 2009 JSR Publications. ISSN: 2070-0237 (Print); 2070-0245 (Online). All rights reserved. DOI: 10.3329/jsr.v1i3.1968               J. Sci. Res. 1 (3), 615-623 (2009) 

scholarly journals Genetic variation and molecular relationships among eight taxa of Desmodium Desv. based on RAPD markers

2017 ◽  
Vol 24 (2) ◽  
pp. 149-154
Author(s):  
M. Oliur Rahman ◽  
Md. Zahidur Rahman ◽  
Sonia Khan Sony ◽  
Mohammad Nurul Islam
Keyword(s):  
Genetic Variation ◽  
Genetic Distance ◽  
Rapd Markers ◽  
Genetic Relatedness ◽  
Random Amplified Polymorphic Dna ◽  
Banding Patterns ◽  
Upgma Dendrogram ◽  
Close Proximity ◽  
Plant Taxon ◽  
Molecular Relationships

Genetic variation and molecular relationships among eight taxa of Desmodium Desv. were assessed on the basis of random amplified polymorphic DNA (RAPD) markers. The banding patterns of eight taxa namely, Desmodium gangeticum (L.) DC., D. heterocarpon (L.) DC., D. heterophyllum (Willd.) DC., D. motorium (Houtt.) Merr., D. pulchellum (L.) Benth., D. triflorum (L.) DC., D. triquetrum (L.) DC. and D. triquetrumsubsp. alatum (DC.) Prain were compared. A total of 81 DNA fragments were detected by 11 primers. Among the taxa studied D. triquetrum and D. triquetrum subsp. alatum were found to be most closely related followed by close proximity between D. gangeticum and D. motorium. The highest genetic distance was observed between D. triflorum and D. heterophyllum followed by D. heterocarpon and D. heterophyllum. UPGMA dendrogram was constructed to show the genetic relatedness among the taxa employed and the tree revealed a close proximity among D. pulchellum, D. gangeticum and D. motorium. In contrast, D. heterophyllum was found distantly related with rest of the taxa.Bangladesh J. Plant Taxon. 24(2): 149–154.

Molecular Characterization and Genetic Diversity Study in F3 Population of Rice

2013 ◽  
Vol 20 (1-2) ◽  
pp. 1-8
Author(s):  
MM Rahman ◽  
L Rahman ◽  
SN Begum ◽  
F Nur
Keyword(s):  
Genetic Distance ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Genetic ◽  
Molecular Genetic Analysis ◽  
Polymorphic Loci ◽  
Rice Genotypes ◽  
High Level ◽  
Genetic Diversity Study ◽  
Diversity Study

Random Amplified Polymorphic DNA (RAPD) assay was initiated for molecular genetic analysis among 13 F3 rice lines and their parents. Four out of 15 decamer random primers were used to amplify genomic DNA and the primers yielded a total of 41 RAPD markers of which 37 were considered as polymorphic with a mean of 9.25 bands per primer. The percentage of polymorphic loci was 90.24. The highest percentage of polymorphic loci (14.63) and gene diversity (0.0714) was observed in 05-6 F3 line and the lowest polymorphic loci (0.00) and gene diversity (0.00) was found in 05-12 and 05-15 F3 lines. So, relatively high level of genetic variation was found in 05-6 F3 line and it was genetically more diverse compared to others. The average co-efficient of gene differentiation (GST) and gene flow (Nm) values across all the loci were 0.8689 and 0.0755, respectively. The UPGMA dendrogram based on the Nei’s genetic distance differentiated the rice genotypes into two main clusters: PNR-519, 05-19, 05-14, 05-12 and 05-17 grouped in cluster 1. On the other hand, Baradhan, 05-9, 05-13, 05-11, 05-5, 05-6, 05-1, 05-4, 05-15 and 05-25 were grouped in cluster 2. The highest genetic distance (0.586) was found between 05-4 and 05-17 F3 lines and they remain in different cluster.DOI: http://dx.doi.org/10.3329/pa.v20i1-2.16839 Progress. Agric. 20(1 & 2): 1 – 8, 2009

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