Diversity analysis of pea genotypes using RAPD markers

2018 ◽  
Author(s):  
Bharti Thakur ◽  
Susheel Sharma ◽  
Isha Sharma ◽  
Prachi Sharma ◽  
Deepika . ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Similarity Index ◽  
Diversity Analysis ◽  
Clear Pattern ◽  
Binomial Data ◽  
Garden Pea ◽  
Average Similarity ◽  
Minimum Number

Genetic diversity among 54 genotypes of field and garden pea of India were studied using 30 RAPD primers. A total of 168 amplicons were scored, of which 154 were polymorphic revealing 89.3% of polymophism. Out of 30 RAPD primers tested, 22 primers produced clear and reproducible bands. The number of products generated by these primers ranged from 04 to 14 with primer OPU-17 giving maximum (14) and primer OPC-08 giving minimum number of amplicons (04). Genetic similarity estimates based on the binomial data using Jaccard’s coefficient ranged from 0.34 (Kaza-2/IC-218991) to 0.89 (IC-209118/IC-209123) with an average similarity index of 0.54 exhibiting considerable diversity among the pea genotypes studied. The dendrogram showed clear pattern of clustering according to the source of germplasm. This study indicated that Himalayan region germplasm exhibited higher diversity.

scholarly journals Using RAPD Markers to Assess Genetic Diversity in Brassica Germplasm and Chinese Breeding Lines

HortScience ◽  
1995 ◽  
Vol 30 (4) ◽  
pp. 840C-840
Author(s):  
Anfu Hou ◽  
James R. McFerson ◽  
Warren F. Lamboy
Keyword(s):  
Genetic Diversity ◽  
Dna Markers ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Germplasm Conservation ◽  
Breeding Lines ◽  
Dna Assay ◽  
Diversity Assessment ◽  
Average Similarity

Molecular DNA markers based on the RAPD (random amplified polymorphic DNA) assay are gaining use in germplasm assessment. RAPD markers are simple, relatively inexpensive, and highly informative. We used five primers to assess 26 Brassica oleracea breeding lines from the IVF and nine accessions from the PGRU. The test array included eight subspecies of B. oleracea. We generated 90 RAPD markers and were able to unambiguously discriminate among all 35 test entries, but could not separate subspecies within B. oleracea. Genetic similarity between subspecies ranged from 0.629 to 0.738. Average similarity within accessions was 0.96, confirming the suspected homogeneity of breeding lines. Nevertheless, significant genetic diversity was found among kohlrabi, broccoli, and cabbage accessions. Similarity analysis of breeding lines and hybrids confirmed their pedigree relationships. Interestingly, B. o. subsp. costata `Couve Nabica' showed closer similarity to B. napus subsp. oleifera `Jet Neuf' than to other B. o. materials and B. o. subsp. italica `Packman' showed higher similarity to some cabbages than to other broccolis. Results provide further evidence that diversity assessment using RAPDs is broadly applicable and useful in germplasm conservation and utilization.

scholarly journals Diversity analysis of Moroccan carob (Ceratonia siliqua L.) accessions using phenotypic traits and RAPD markers

2007 ◽  
Vol 32 ◽  
pp. 79-90 ◽  
Author(s):  
Ibrahim Konaté ◽  
Abdelkarim Filali-Maltouf ◽  
El Bekkay Berraho
Keyword(s):  
Genetic Diversity ◽  
Rapd Markers ◽  
Phenotypic Traits ◽  
Diversity Analysis ◽  
Ceratonia Siliqua ◽  
Diversité Génétique ◽  
Arbitrary Primers ◽  
The North ◽  
The Mediterranean ◽  
Ceratonia Siliqua L

SUMMARY. Diversity analysis of moroccan carob (Ceratonia siliqua L.) accessions using phenotypic traits and RAPD markers. The carob (Ceratonia siliqua L.) is a perennial leguminous (Caesalpinioideae) that grows as an evergreen shrub or tree. It’s an important component of the Mediterranean vegetation and its adaptation in marginal soils of the Mediterranean regions is important environmentally and economically. Phenotypic and genetic diversity among 10 Ceratonia siliqua accessions coming from different areas of Morocco were studied with morphometric and RAPD approaches. The analysis of discriminative fruit characters showed highly significant differences among these accessions, the closely related ones have a similarity level less than 65%. No molecular studies have been carried out so far on Ceratonia siliqua. To provide markers useful for molecular diversity study of the carob tree, genomic DNA extraction and amplification conditions were finalized and 67 arbitrary primers were screened. 52 of them showed clearly reproducible banding patterns. The analysis of RAPD profiles revealed a high degree of genetic diversity within these carob accessions and enabled each of them to be uniquely fingerprinted. Overall, in our study we note that morphological relationship between carob accessions is deeply different to their molecular relationship. Concerning the distribution of the accessions according to their geographical origin, clustering based on RAPD data revealed a rough distribution of theses accessions. Indeed, Sidi Bou Ottman, Demnate and Essaouira accessions coming from the south of Morocco seem to be linked in the PCA plot. However, two geographically distant accessions, Aïn Sfa and Ouazzane coming from the north (about 700 Km) were clustered with Essaouira and Demanate - Sidi Bou Ottman, respectively.Key words. Carob, Ceratonia siliqua L., genetic variability, morphometry, RAPD.RÉSUMÉ. Analyse de la diversite des accessions du caroubier marocain (Ceratonia siliqua L.) utilisant des traits phenotypiques et des marqueurs RAPD. Le caroubier (Ceratonia siliqua L.) est une légumineuse pérenne (Caesalpinioideae), à feuillage persistant et pouvant croître entant qu’arbrisseau ou arbre. C’est un composant important de la végétation méditerranéenne et son adaptation aux sols marginaux des régions méditerranéennes est d’une grande importance écologique et économique. La diversité phénotypique et génétique au sein de 10 accessions de caroubier provenant de différentes régions du Maroc a été étudiée par des approches morphométriques et moléculaires (RAPD). L’analyse des caractères morphologiques discriminants du fruit a montré des différences hautement significatives au sein des accessions, puisque les apparentées d’entre elles n’ont approximativement que 65% de similarité. Jusqu’à nos jours, aucune étude moléculaire n’a été entreprise sur Ceratonia siliqua. Pour mettre à disposition des marqueurs utiles pour l’étude de la diversité moléculaire du caroubier, l’extraction de l’ADN génomique et les conditions de l’amplification ont été mises au point et 67 amorces arbitraires ont été criblées. 52 d’entre elles ont montré clairement des profils de bandes reproductibles. L’analyse des profils RAPD a révélé une diversité génétique de haut niveau entre les accessions de caroubier ce qui a permis à chacune d’elles d’être distinguée génétiquement de façon singulière. De manière générale, nous avons noté que la relation morphologique entre les accessions du caroubier est profondément différente de leur relation moléculaire. Concernant la distribution des accessions selon leur origine géographique, le regroupement basé sur les données de la RAPD a révélé une distribution grossière. En effet, les provenances de Sidi Bou Ottman, Demnate et Essaouira, originaires du sud de Maroc, semblent être liés par l’analyse des composantes principales (PCA). Cependant, deux accessions géographiquement distantes, Aïn Sfa et Ouazzane, originaires du Nord (approximativement 700 Kms) ont été liées avec Essaouira et Demanate - Sidi Bou Ottman, respectivement.Mots clés. Caroubier, Ceratonia siliqua L., diversité génétique, morphométrie, RAPD.

Genetic Diversity Analysis of Starchy Curcuma Species Using RAPD Markers

2008 ◽  
Vol 17 (2) ◽  
pp. 173-176 ◽  
Author(s):  
G. R. Angel ◽  
T. Makeshkumar ◽  
C. Mohan ◽  
B. Vimala ◽  
B. Nambisan
Keyword(s):  
Genetic Diversity ◽  
Rapd Markers ◽  
Diversity Analysis ◽  
Genetic Diversity Analysis

scholarly journals Genetic diversity among 24 clones of robusta coffee in Lampung based on RAPD markers

2021 ◽  
Vol 22 (6) ◽  
Author(s):  
Sri Ramadiana ◽  
Dwi Hapsoro ◽  
Rusdi Evizal ◽  
Kukuh Setiawan ◽  
Agus Karyanto ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Breeding Program ◽  
Similarity Coefficients ◽  
Robusta Coffee ◽  
Genomic Dnas ◽  
Polymerase Chain ◽  
Group Ii ◽  
Group 1

Abstract. Ramadiana S, Hapsoro D, Evizal R, Setiawan K, Karyanto A, Yusnita. 2021. Genetic diversity among 24 clones of robusta coffee in Lampung based on RAPD markers. Biodiversitas 22: 3122-3129. This study aimed to estimate the genetic diversity among 24 clones of Robusta coffee from Lampung, Indonesia, by use of RAPD markers. The clones consisted of 18 local and 6 BP clones. These BP clones were developed from a breeding program of The Indonesian Coffee and Cocoa Research Institute. Genomic DNAs extracted from these clones were subjected to polymerase chain reaction and the amplified products were run using gel electrophoresis. Eleven random primers produced clear, reproducible, scorable bands. Fifty-four of 86 bands showed polymorphism and were used to construct a dendrogram based on UPGMA Jaccard's Similarity Coefficients. The genetic base of the population was narrow (average genetic similarity 68.4%), ranging from 26-93%. The genetic similarity of the local clones was higher than that of BP clones. The clones were clustered into five groups. Group 1 contained one clone (BP 534), while each of Group II-V contained more than one clone. The average genetic similarity of BP 534 to each clone of Group II-V was 41%. The genetic similarity of clones in Group II, III, IV, and V were 55.5%, 43.0%, 81.1%, and 80.1%, respectively. This research should be very useful for selecting parents in a breeding program to produce better clones of Robusta coffee.

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)

scholarly journals Assessment of RAPD Markers to Analyse the Genetic Diversity among Sunflower (Helianthus annuus L.) Genotypes

2018 ◽  
Vol 6 (1) ◽  
pp. 107 ◽  
Author(s):  
Ali Raza ◽  
Haseeb Shaukat ◽  
Qasim Ali ◽  
Madiha Habib
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Polymorphic Information Content ◽  
Random Amplified Polymorphic Dna ◽  
Future Studies ◽  
Group 2 ◽  
Maximum Similarity ◽  
Sunflower Genome ◽  
Group 1

Genetic diversity estimation among different species is an important tool for genetic improvement to maximize the yield, desirable quality, wider adaptation, pest and insect resistance that ultimately boosting traditional plant breeding methods. The most efficient way of diversity estimation is application of molecular markers. In this study, twenty random amplified polymorphic DNA (RAPD) primers were utilized to estimate the genetic diversity between ten sunflower genotypes. Overall 227 bands were amplified by 20 primers with an average of 11.35 bands per primer. RAPD data showed 86.34% polymorophic bands and 13.65% of monomorophic bands. Genetic similarity was ranged from 50.22% to 87.22%. The lowest similarity (50.22%) was observed between FH-352 and FH-359 and the maximum similarity 87.22% was observed between A-23 and G-46. Polymorphic information content (PIC) values were varying from 0.05 to 0.12 with a mean of 0.09. Cluster analysis based on RAPD results displayed two major distinct groups 1 and 2. Group-2 contains FH-352 which was the most diverse genotype, while group-1 consists of few sub groups with all other genotypes. Ample diversity was found in all the genotypes. Present study reveals novel information about sunflower genome which can be used in future studies for sunflower improvement.

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.

scholarly journals Molecular identification and genetic relationships among coffee species (Coffea L.) inferred from ISSR and SRAP marker analyses

2011 ◽  
Vol 63 (3) ◽  
pp. 667-679 ◽  
Author(s):  
Kumar Mishra ◽  
Sandhyarani Nishani ◽  
J Jayarama
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Genetic Relationships ◽  
Resolving Power ◽  
Diversity Analysis ◽  
Srap Marker ◽  
Genetic Diversity Analysis ◽  
Species Specific ◽  
Coffee Species ◽  
Issr Primers

The identification and genetic relationships of 23 coffee species and one coffee-related species Canthium diccocum were studied using ISSR and SRAP markers. The average polymorphism information content of SRAP primers (0.81) was lower than ISSR primers (0.86), whereas the average resolving power of the SRAP primers (9.74) is higher than the ISSR primers (8.64). The genetic similarity among the species ranged from 0.30 to 0.89 using ISSR and 0.11 to 0.90 using SRAP marker systems. Based on marker analysis, all twenty three coffee species were clustered into two major groups. Both the markers amplified species-specific fragments and are useful in genetic diversity analysis of coffee.

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