Genetic Relationship Among Ten Promising Eggplant Varieties Using RAPD Markers

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)

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Molecular Characterization of 28 Mango Germplasm Using RAPD

Plant Tissue Culture and Biotechnology ◽

10.3329/ptcb.v17i1.1123 ◽

1970 ◽

Vol 17 (1) ◽

pp. 71-77 ◽

Cited By ~ 6

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)

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Molecular Analysis of Hexaploid Wheat (Triticum aestivum L.) Cultivars by RAPD Markers

Plant Tissue Culture and Biotechnology ◽

10.3329/ptcb.v19i1.4915 ◽

1970 ◽

Vol 19 (1) ◽

pp. 35-44 ◽

Cited By ~ 1

Author(s):

S. Mitra ◽

K. M. Nasiruddin ◽

E. H. Chowdhury

Keyword(s):

Genetic Distance ◽

Rapd Markers ◽

Gene Diversity ◽

Molecular Genetic ◽

Triticum Aestivum L ◽

Molecular Genetic Analysis ◽

Wheat Cultivars ◽

Polymorphic Loci ◽

Upgma Dendrogram ◽

Nei's Genetic Distance

RAPD assay was conducted for molecular genetic analysis of six wheat cultivars, such as, Kanchan, Sourav, Gourab, Shatabdi, Pavon and BAW-1006 to observe genetic variability and relatedness among these cultivars. Three out of 12 decamer random primers showed distinctly polymorphic bands when used to amplify genomic DNA. The primers yielded a total of 23 RAPD markers of which 14 were considered as polymorphic. The proportion of polymorphic loci and gene diversity (h) values were 34.78% and 0.153 for BAW-1006, 30.43% and 0.124 for Kanchan, 26.09% and 0.127 for Shatabdi, 26.09% and 0.127 for Pavon, 26.09% and 0.111 for Gourab, 21.74% and 0.098 for Sourav, respectively. The coefficient of gene differentiation (Gst) and gene flow (Nm) values across all the loci were 0.50 and 0.50, respectively indicating genetic divergence among populations. The UPGMA dendrogram based on Nei’s genetic distance, grouped six cultivars into two main clusters: Kanchan, Sourav, Gourab and Shatabdi in cluster I; Pavon and BAW-1006 in cluster II. The cluster I was further separated: Kanchan alone in sub-cluster I and Sourav, Gourab, Shatabdi in sub-cluster II; furthermore, Sourab and Gourab grouped together in sub-sub-cluster I of sub-cluster II with the lowest genetic distance of 0.035. Thus, RAPD offer a potentially simple, rapid and reliable method to evaluate genetic variation and relatedness among six wheat cultivars. Key words: RAPD, genetic diversity, polymorphic loci, wheat D.O.I. 10.3329/ptcb.v19i1.4915 Plant Tissue Cult. & Biotech. 19(1): 35-44, 2009 (June)

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

Bangladesh Journal of Plant Breeding and Genetics ◽

10.3329/bjpbg.v21i1.17042 ◽

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 Neis 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

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Genetic diversity analysis in Brassica varieties through RAPD markers

Bangladesh Journal of Agricultural Research ◽

10.3329/bjar.v34i3.3976 ◽

1970 ◽

Vol 34 (3) ◽

pp. 493-503 ◽

Cited By ~ 5

Author(s):

KK Ghosh ◽

ME Haque ◽

S Parvin ◽

F Akhter ◽

MM Rahim

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Rapd Markers ◽

Gene Diversity ◽

Random Amplified Polymorphic Dna ◽

Arithmetic Mean ◽

Polymorphic Band ◽

Group Method ◽

Polymorphic Loci ◽

Pair Group

This investigation was aimed at exploring the genetic diversity and relationship among nine Brassica varieties, namely BARI Sharisha-12, Agrani, Sampad, BINA Sharisha-4, BINA Sharisha-5, BARI Sharisha-13, Daulot, Rai-5, Alboglabra using Random Amplified Polymorphic DNA (RAPD) markers. In total, 59 reproducible DNA bands were generated by four arbitrary selected primers of which 58 (98.03%) bands were proved to be polymorphic. These bands ranged from 212 to 30686 bp in size. The highest proportion of polymorphic loci and gene diversity values were 37.29% and 0.1373, respectively, for BARI Sharisha-12 and the lowest proportion of polymorphic loci and gene diversity values were 8.47% and 0.0318, 8.47% and 0.0382 for BINA Sharisha-4 and Rai-5, respectively. A dendrogram was constructed using unweighted pair group method of arithmetic mean (UPGMA). The result of cluster analysis indicated that 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. where Daulot and Rai-5 showed the lowest genetic distance of 0.049. And another group contains BINA Sharisha-4, BINA Sharisha-5, and BARI Sharisha-1 3, where BINA Sharisha-5 and BARI sharisha-13 showed genetic distance of 0.071. Key Words: RAPD, Brassica, genetic distance, polymorphic band. DOI: 10.3329/bjar.v34i3.3976 Bangladesh J. Agril. Res. 34(3) : 493-5032, September 2009

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

Genetika ◽

10.2298/gensr1601151s ◽

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.

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Assessment of genetic diversity and relationship among some commercial cucumber varieties and genotypes using RAPD markers

Chittagong University Journal of Biological Sciences ◽

10.3329/cujbs.v6i1-2.17081 ◽

2013 ◽

Vol 6 (1-2) ◽

pp. 51-63

Author(s):

SM Faisal ◽

MS Haque ◽

KM Nasiruddin ◽

MM Islam ◽

MA Shrafuzzaman ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Variability ◽

Genetic Distance ◽

Genomic Dna ◽

Rapd Markers ◽

Random Amplified Polymorphic Dna ◽

Upgma Dendrogram ◽

Cluster 2

Genetic variability among the genotypes of any species could be utilized for its improvement. PCR-based Random Amplified Polymorphic DNA (RAPD) technique was used to determine the genetic diversity and relationship among 10 cucumber varieties and genotypes. Five decamer primers were used to amplify genomic DNA and the primers yielded a total of 54 bands of which 36 bands were polymorphic and 18 bands were monomorphic. The UPGMA dendrogram based on Neis (1972) genetic distance indicated segregation of 10 cucumber varieties and genotypes into two main clusters. Variety Joti alone grouped in cluster 1 while variety Green Master, Shahi-50, Shikha, Shila, Shital, Naogaon-5, Shohag-50, Giant Long and genotype CS-043 grouped in cluster 2. Variety Shila was very close to variety Shital with the least genetic distance (0.1712). The highest genetic distance (0.5352) was found between Joti and Naogaon-5. DOI: http://dx.doi.org/10.3329/cujbs.v6i1-2.17081 The Chittagong Univ. J. B. Sci.,Vol. 6(1&2):51-63, 2011

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Genetic Diversity between Yacon Landraces from Different Countries Based on Random Amplified Polymorphic DNAs

Czech Journal of Genetics and Plant Breeding ◽

10.17221/3674-cjgpb ◽

2011 ◽

Vol 41 (No. 2) ◽

pp. 73-78 ◽

Cited By ~ 8

Author(s):

L. Milella ◽

J. Salava ◽

G. Martelli ◽

I. Greco ◽

E.F. Cusimamani ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Genetic Relationship ◽

Genetic Similarity ◽

Morphological Traits ◽

Rapd Markers ◽

Random Amplified Polymorphic Dna ◽

Similarity Coefficient ◽

Crop Germplasm ◽

Relationship Of

Random amplified polymorphic DNA (RAPD) markers are widely used for evaluating the genetic relationship of crop germplasm. Five different landraces of yacon (Smallantus sonchifolius (Poepp. and Hendl.) H. Robinson; Asteraceae) collected in various countries and showing different morphological traits were investigated using a total of 61 decamer primers. A total of 282 RAPD markers were scored and 28.7% of them were polymorphic at least within landraces. RAPD markers generated by one primer (OBP14) discriminated between all landraces. Markers were used to calculate genetic similarity coefficient and to build a dendrogram representing the genetic relationship between analysed landraces. The results suggest that RAPD markers could be used as a reliable tool to perform fingerprinting studies in Smallantus sonchifolius genome. This is the first report on the use of RAPDs to evaluate genetic distance and to distinguish between different landraces in yacon.  

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STUDY OF GENETIC DIVERSITY AND ANALYSIS OF THE DEGREE OF SIMILARITY IN SOME APPLE AND PLUM VARIETIES USING RAPD MARKERS

FRUIT GROWING RESEARCH ◽

10.33045/fgr.v37.2021.03 ◽

2021 ◽

Vol 37 (37) ◽

pp. 19-26

Author(s):

Adina Iancu ◽

◽

Mihai Chivu ◽

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Rapd Markers ◽

The Other ◽

Ex Situ ◽

Allelic Polymorphism ◽

High Genetic Diversity ◽

Ex Situ Collection ◽

Plum Varieties ◽

Degree Of Similarity

Molecular evaluation of germplasm is an important step in breeding programs, and the application of molecular biological techniques has led to important results in terms of both within- and between-species variability of traits. The RAPD technique has been successfully used to reveal allelic polymorphism as well as to measure genetic similarity. In this study, the genetic diversity of 25 genotypes and cultivars for apple species and 26 genotypes and cultivars for plum species was assessed with six RAPD markers. All these cultivars belong to the ex situ collection of apple and the ex situ collection of plum at the Research Institute for Fruit Growing Pitesti. The average number of amplified bands was 19.2 for apple and 17.66 for plum. Statistical analysis of intraspecific allelic polymorphism was expressed using the PIC (Polymorphic Information Content) index, which takes into account the allelic frequency. Two statistical indices were used to quantify genetic diversity: the Shannon index and the Simpson index. The degree of similarity between varieties was analyzed using the NTSYSpc version 2.1. Following RAPD analyses, the allele sizes of the analyzed varieties were within the range quoted in the literature, the genetic profiles of the studied varieties suggesting a medium to high genetic diversity, except for markers OPBC-04 and OPBB-05 for plum species, which expressed a high genetic diversity. Genetic distances calculated based on polymorphism of migrated bands in agarose gel confirmed the known genealogies of the apple and plum varieties studied. Thus, the smallest genetic distance for apple species was found between 'Jonagold' and 'Golden Delicious', 'Pionier' and 'Rustic', 'Jonathan' and 'Idared', 'Wagener Premiat' and 'Granny Smith', 'Remar' and 'Aura', 'Romus 3' and 'Rome Beauty', and the largest between Malus floribunda and the other genotypes studied. In plum, the smallest genetic distance was found between 'Dani' and 'Tita', 'Roman' and 'Tuleu gras', 'Dara' and 'Haganta', 'Romanța' and 'Stanley', 'Anna Spath' and 'Renclod Violet', and the largest between 'Lama', 'Black Diamond' and the other genotypes studied.

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

Journal of Scientific Research ◽

10.3329/jsr.v1i3.1968 ◽

2009 ◽

Vol 1 (3) ◽

pp. 615-623 ◽

Cited By ~ 7

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)

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Assessment of Genetic Diversity of Chili Cultivars Using RAPD Markers

Plant Tissue Culture and Biotechnology ◽

10.3329/ptcb.v22i2.14201 ◽

2013 ◽

Vol 22 (2) ◽

pp. 127-136

Author(s):

MM Uddin ◽

MI Khalil ◽

MS Haque ◽

MB Meah

Keyword(s):

Genetic Diversity ◽

Genetic Distance ◽

Plant Tissue ◽

Genomic Dna ◽

Rapd Markers ◽

Polymorphic Locus ◽

Random Amplified Polymorphic Dna ◽

Rapd Marker ◽

Genetic Identity ◽

Cluster 2

Random amplified polymorphic DNA (RAPD) assay was performed to estimate genetic polymorphisim in ten chili cultivars. Out of 12 primers four (OPA11, OPB03, OPB04 and OPB17) showed amplification of genomic DNA and generated 21 distinct score able bands of which 17 (80.95%) were polymorphic. The highest percentage (85.71) polymorphic locus was found in OPB03 while the lowest (66.67) in OPA11. The highest genetic distance was computed between Jamalpur Balujuri and Matal marich with the lowest genetic identity as against the lowest genetic distance between Hajari marich and Balujuri marich. The UPGMA dendogram indicated segregation of ten chili varieties and genotypes into two main clusters. Variety Bogra marich and Matal marich formed cluster 1 and Balujuri marich, Deshi marich, Jamalpuri balujuri, Bindu marich, Syloti, Hajari, Biroli city, and the genotype Ausadhebrara grouped in cluster 2. The result indicates the genetic diversity among the chili cultivars and RAPD marker could be used for improvement of chili varieties. DOI: http://dx.doi.org/10.3329/ptcb.v22i2.14201 Plant Tissue Cult. & Biotech. 22(2): 127-136, 2012 (December)

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