scholarly journals Genetic diversity of a natural population of Mezilaurus itauba (Meisn.) Taub. ex Mez. in the southern Amazon, Brazil

2017 ◽  
Vol 38 (3) ◽  
pp. 1635
Author(s):  
Alexandre Ebert ◽  
Aisy Botega Baldoni Tardin ◽  
Leandro Skowronski ◽  
Michel Ângelo Constantino de Oliveira ◽  
João Henrique de Souza Barros ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Random Amplified Polymorphic Dna ◽  
Forest Fragments ◽  
Forest Species ◽  
Adult Trees ◽  
Genetic Patterns ◽  
Diversity Studies ◽  
Dna Primers ◽  
Distribution Intensity

Genetic diversity studies in natural forest species populations have consistently expanded in recent years. Considering that biodiversity is directly related to genetic variation among and within populations, its study has become essential to the knowledge of genetic patterns. The study assessed genetic diversity of a Mezilaurus itauba population, detecting similarity and dissimilarity evaluating distribution intensity of adult and juvenile trees in remnant rain forest fragments in southern Amazon, Brazil. Leaf and cambium samples were randomly collected from 36 reproductive individuals. Eleven RAPD (random-amplified polymorphic DNA) primers were tested for genetic similarity analyses. The obtained data demonstrated that the species presented 79.77% polymorphism among the loci observed, with genetic diversity occurring between juvenile and adult trees. The population studied presented genetic diversity, forming three well-distinguished groups.

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 Virulence profile of ten Paracoccidioides brasiliensis isolates: association with morphologic and genetic patterns

2005 ◽  
Vol 47 (5) ◽  
pp. 257-262 ◽  
Author(s):  
Cilmery S. Kurokawa ◽  
Catalina R. Lopes ◽  
Maria F. Sugizaki ◽  
Eiko E. Kuramae ◽  
Marcello F. Franco ◽  
...  
Keyword(s):  
Genetic Similarity ◽  
Paracoccidioides Brasiliensis ◽  
Random Amplified Polymorphic Dna ◽  
Cell Recovery ◽  
Fungal Virulence ◽  
Genetic Patterns ◽  
Extreme Phenotypes ◽  
High Virulence ◽  
Outbred Mice

Ten isolates of Paracoccidioides brasiliensis were examined for differences in virulence in outbred mice intravenously inoculated with the fungus, associated with mycelial morphology, and genetic patterns measured by random amplified polymorphic DNA (RAPD). Virulence was evaluated by viable yeast cell recovery from lungs and demonstration of histopathologic lesions in different organs. The results showed that the isolates presented four virulence degrees: high virulence, intermediate, low and non-virulence. RAPD clustered the isolates studied in two main groups with 56% of genetic similarity. Strains with low virulence, Pb265 or the non-virulent, Pb192, showed glabrous/cerebriform morphology and high genetic similarity (98.7%) when compared to the other isolates studied. The same was observed with Bt79 and Bt83 that shared 96% genetic similarity, cottony colonies and high virulence. The RAPD technique could only discriminate P. brasiliensis isolates according to glabrous/cerebriform or cottony colonies, and also high from low virulence strains. Isolates with intermediate virulence such as Pb18, Pb18B6, Bt32 and Bt56 showed variability in their similarity coefficient suggesting that RAPD was able to detect genetic variability in this fungal specie. Virulence profile of P. brasiliensis demonstrated that both mycelial morphologic extreme phenotypes may be associated with fungal virulence and their in vitro subculture time. Thus, RAPD technique analysis employed in association with virulence, morphologic and immunologic aspects might prove adequate to detect differences between P. brasiliensis isolates.

scholarly journals Genetic Similarity of Commerson’s Anchovy across Segara Anakan Cilacap Assessed Using Randomly Amplified Polymorphic DNA (RAPD) Markers

Jurnal Biota ◽  
2021 ◽  
Vol 7 (1) ◽  
pp. 42-50
Author(s):  
Muhammad Khoerol Anam ◽  
Adi Amurwanto ◽  
Kusbiyanto Kusbiyanto ◽  
Hendro Pramono ◽  
M Husein Sastranegara ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Genetic Differences ◽  
Population Genetic Study ◽  
Randomly Amplified Polymorphic Dna ◽  
High Genetic Diversity ◽  
Impressive Result

Segara Anakan areas can be divided into three different regions according to their salinity. Salinity differences suggested that Commerson’s anchovy population in that area can be divided into three subpopulations due to genetic differences. Genetic differences among subpopulation can be assessed through a population genetic study using random amplified polymorphic DNA. This study aims to evaluate the genetic variation and differences of Commerson's anchovy (Stolephorus commersonnii) collected at three different water salinities in Segara Anakan estuary Cilacap Indonesia. Total genomic DNA was isolated using the Chelex method. Genetic diversity and differences were assessed using RAPD markers and were analyzed statistically using an analysis of molecular variance, as implemented in Arlequin software.  The results showed that high genetic diversity was observed within the subpopulations. However, no significant genetic differences were observed among subpopulations which indicate genetic similarity. A high number of offspring are likely to cause high genetic variation within subpopulations.  Adult and larvae migration is the cause of genetics similarity across Segara Anakan. Another impressive result is that water salinity did not affect the genetic characteristic of Commerson,s anchovy. Genetic similarity of Commerson’s anchovy indicates that Segara Anakan forms a single genetic conservation unit.

Analysis of genetic diversity and spatial structure in Tunisian populations of Hordeum marinum ssp. marinum based on molecular markers

2019 ◽  
Vol 157 (5) ◽  
pp. 399-412 ◽  
Author(s):  
W. Saoudi ◽  
M. Badri ◽  
M. Gandour ◽  
A. Smaoui ◽  
C. Abdelly ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Random Amplified Polymorphic Dna ◽  
Geographic Origin ◽  
Conservation Strategies ◽  
Entire Collection ◽  
High Discrimination ◽  
High Level ◽  
Dna Primers ◽  
Altitudinal Difference

AbstractHordeum marinum commonly known as sea barley is a salinity-tolerant species of grass. In the current study, 150 lines from ten populations of H. marinum ssp. marinum collected from five Tunisian bioclimatic sites were screened for polymorphism with 13 selected random amplified polymorphic DNA primers. Results exhibited a high level of polymorphism (160 polymorphic bands with an average of 12.46 per primer) and a high level of genetic diversity in all the studied populations (on average UHe = 0.247 and I = 0.358). High discrimination capacity was found for the 13 primers and a combination of three allowed assignation of a unique profile for each of the 150 lines. The partition of genetic diversity with Analysis of Molecular Variance suggested that the majority of genetic variation (67%) was within populations. The components between-populations within ecoregions and between-ecoregions explained 21 and 12%, respectively, of the total genetic variance. There was no significant association of population differentiation (ФPT) with geographical distance or altitudinal difference. Results also showed that the 150 lines grouped into three clusters with no respect to geographic origin. A sub-set of 13 lines was identified, which captured the maximum genetic diversity of the entire collection. The genetic variation found in this collection of H. marinum is deemed to be useful in formulating conservation strategies for this species.

scholarly journals Keragaman Genetik Beberapa Genotipe Teh Berdasarkan Penanda RAPD (Random Amplified Polymorphic DNA)

2014 ◽  
Vol 1 (1) ◽  
pp. 1 ◽  
Author(s):  
Budi Martono ◽  
Laba Udarno
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Camellia Sinensis ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Dna Marker ◽  
Random Amplified Polymorphic Dna ◽  
Rapd Marker ◽  
Plant Breeding Program ◽  
Marker Loci

<p>Informasi keragaman genetik dan ketersediaan plasma nutfah teh (Camellia sinensis) diperlukan dalam perakitan varietas unggul. Keragaman genetik berdasarkan penanda DNA dapat memberikan hasil yang lebih konsisten karena tidak dipengaruhi lingkungan. Dalam penelitian ini sebanyak 9 genotipe teh dianalisis keragamannya menggunakan enam penanda RAPD (OPA 03, OPA 05, OPB 04, OPB 06, OPC 06, dan OPD 08). Penelitian dilakukan mulai bulan Maret sampai Mei 2013 di Laboratorium Terpadu Biotrop Bogor. Perhitungan koefisien kesamaan genetik dan analisis gerombol dilakukan dengan menggunakan perangkat lunak NTSYSpc versi 2.02. Sebanyak 54 lokus penanda RAPD berhasil diamplifikasi menggunakan enam primer dan 47 lokus di antaranya memiliki alel yang polimorfik (87,04%). Hasil analisis gerombol berdasarkan kesamaan genetiknya mengelompokkan 9 genotipe ke dalam enam kelompok. Empat kelompok (I, II, IV, V) masing-masing terdiri atas satu genotipe, sementara dua kelompok yang lain yaitu kelompok III dan VI masing-masing beranggotakan tiga dan dua genotipe.</p><p>Kata Kunci: Camellia sinensis, diversitas genetik, penanda RAPD</p><p>The availability of diverse tea (Camellia sinensis) germplasms as well as the information about their genetic diversity is required for plant breeding program. Genetic diversity analysis based on DNA marker is known to be more effective since the markers provide more consistent results. In this study, nine tea genotypes were evaluated for their genetic diversity using six Random Amplified Polymorphic DNA (RAPD) markers (OPA 03, OPA 05, OPB 04, OPB 06, OPC 06, and OPD 08). The study was conducted from March to May 2013 in the Integrated Laboratory of Biotrop Bogor. The estimation of genetic similarity and the cluster analysis were done using NTSYSpc version 2.02. Of the six RAPD markers used in this study, a total of 54 RAPD marker loci have been successfully amplified. In which, 47 loci (87.04%) were polymorphic and subsequently used for the evaluation of tea genotypes. The results of cluster analysis showed that those tea genotypes were clustered into six groups. Each of four groups (I, II, IV, V) consisted of only one genotype. Meanwhile, the other two groups (III and VI) had three and two genotypes, respectively.</p>

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

2011 ◽  
Vol 41 (No. 2) ◽  
pp. 73-78 ◽  
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. &nbsp;

scholarly journals Assessment of genetic diversity in Tamarind (Tamarindus indica L. ) using random amplified polymorphic DNA markers

2015 ◽  
Vol 13 (1) ◽  
pp. 27-36 ◽  
Author(s):  
M Kumar ◽  
V Ponnuswami ◽  
C Rajamanickam ◽  
TL Preethi
Keyword(s):  
Genetic Diversity ◽  
Dna Markers ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Molecular Level ◽  
Random Amplified Polymorphic Dna ◽  
Tamarindus Indica ◽  
Intrapopulation Diversity ◽  
Desirable Trait

Determination of genetic variation is important to the plant breeders for development of high yielding variety. The aim of the current study was to investigate the genetic diversity of nine tamarind cultivars, out of nine four flowering cultivars using random amplified polymorphic DNA (RAPD) markers. Ten Random amplified polymorphic DNA (RAPD) primers were used to assess the genetic diversity in four flowering cultivars and five non-flowering of tamarind trees. The average genetic similarity level among the four flowering cultivars and five non-flowering accessions grouped into six clusters groups at 0.76%. RAPD profiles of all the tamarind were compared and a total of 58 scorable bands were produced with seven primers ranging from one for OPG-13 to twelve for OPA-R15. Genotypes which were morphological closely related were found to be unrelated at the molecular level. A sizeable amount of intrapopulation diversity recorded in the present study which can be utilized in hybridization programmes to efficiently introgress the desirable trait of interest.SAARC J. Agri., 13(1): 27-36 (2015)

scholarly journals Genetic diversity of Pleurotus ostreatus (Jacq.) P. Kumm. strains in Java based on random amplified polymorphic DNA markers

2021 ◽  
Vol 22 (6) ◽  
Author(s):  
NURAENI EKOWATI ◽  
ARIS MUMPUNI ◽  
JUNI SAFITRI MULJOWATI ◽  
NUNIEK INA RATNANINGTYAS ◽  
ARDHINI RIN MAHARNING
Keyword(s):  
Genetic Diversity ◽  
Dna Sequences ◽  
Dna Markers ◽  
Pleurotus Ostreatus ◽  
Genetic Similarity ◽  
Random Amplified Polymorphic Dna ◽  
Dna Amplification ◽  
Group Method ◽  
Arithmetic Average ◽  
Pair Group

Abstract. Ekowati N, Mumpuni A, Muljowati JS, Ratnaningtyas NI, Maharning AR. 2021. Genetic diversity of Pleurotus ostreatus (Jacq.) P. Kumm. strains in Java based on Random Amplified Polymorphic DNA markers.  Biodiversitas 22: 3488-3493. Genetic variation in a fungal population can occur due to mutation and recombination, resulting in changes in the nucleotides that encode specific DNA sequences. Strains with a high genetic distance and good production capabilities can be used to develop genetic breeding. This study aimed to investigate genetic relationship among Pleurotus ostreatus strains cultivated in Java (Bogor, Cianjur, Tasikmalaya, Purwokerto, Yogyakarta, Tawangmangu, Malang, and Madiun) based on random amplified polymorphic DNA (RAPD) markers.  The research method consisted of DNA isolation and DNA amplification using six primers, i.e. OPA2, OPA3, OPA4, OPA7, OPA9, and OPA10. DNA band data were analyzed using NTSYSpc21 software to determine the level of genetic similarity, based on the Unweighted Pair Group Method with Arithmetic Average Algorithm (UPGMA). In all, 101 amplified DNA bands were obtained, with sizes ranging from 136 to 2320 bp and 96.0% of the bands were polymorphic. Based on cluster analysis, it shows that three clusters were formed. There were genetic variations and relationships among eight P. ostreatus strains in Java with a genetic similarity varying from 37-98%.

scholarly journals VARIASI GENETIK KAMBING BENGGALA DI KABUPATEN MANGGARAI BARAT BERDASARKAN METODE RANDOM AMPLIFIED POLYMORPHIC DNA

2018 ◽  
Vol 5 (2) ◽  
pp. 222
Author(s):  
Suhendra Pakpahan ◽  
Wayan Tunas Artama ◽  
Rini Widayanti ◽  
I Gede Suparta Budisatria
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Rural Communities ◽  
Genetic Similarity ◽  
Random Amplified Polymorphic Dna ◽  
Extended Period ◽  
Sample Population ◽  
Natural Conditions ◽  
Local Breed ◽  
Blood Samples

Genetic Variation of Benggala Goats in West Manggarai Regency Based on Random Amplified Polymorphic DNA Method ABSTRACTIndonesia has several types of local goats that have had an extended period of adaptation to the natural conditions in Indonesia. Goat is one of the most important germplasm in supporting the economy of rural communities. Benggala is a local breed of goat originating from Flores Island, East Nusa Tenggara province and has distinctive characteristics. The RAPD technique has several advantages and has been widely used in studies of the genetic diversity of goats. A total of 50 blood samples of Benggala goats were taken from four sub-districts in West Manggarai Regency. This study was conducted to estimate genetic variations of Benggala goats using OPA-6 and OPA-16 primers. The OPA-6 primer consisted of 0-11 bands, while the OPA-16 primer consisted of 0-7 bands. The total bands produced on the OPA-6 primer from all samples was 456, whilst OPA-16 primer was 314. The lowest genetic similarity between individuals of Benggala goats was 44% from the sample K46. Based on the sample population, the average genetic similarity level was 72%. These results show that the genetic diversity of Benggala goats is low.Keywords: Benggala  goat, genetic similarity,genetic variation, RAPD, West Manggarai ABSTRAKIndonesia memiliki beberapa jenis kambing lokal yang memiliki periode adaptasi yang panjang dengan kondisi alam di Indonesia. Kambing merupakan salah satu plasma nutfah yang sangat penting dalam mendukung perekonomian masyarakat pedesaan. Benggala adalah jenis kambing lokal yang berasal dari pulau Flores, propinsi Nusa Tenggara Timur dan kambing Benggala memiliki ciri khas. Teknik RAPD memiliki beberapa keunggulan dan telah banyak digunakan pada studi keragaman genetik kambing. Total 50 sampel darah kambing Benggala yang diambil dari empat kecamatan di Kabupaten Manggarai Barat. Penelitian ini dilakukan untuk menguji variasi genetik kambing Benggala dengan menggunakan primer OPA-6 dan OPA-16. Primer OPA-6 terdiri dari 0-11 band, sedangkan primer OPA-16 terdiri dari 0-7 band. Total jumlah pita yang dihasilkan pada primer OPA-6 dari semua sampel adalah 456, sementara primer OPA-16 adalah 314. Kemiripan genetik terendah antara individu-individu kambing Benggala adalah 44% dari sampel K46. Berdasarkan populasi sampel, tingkat kemiripan genetik rata-rata adalah 72%. Hasil ini menunjukkan bahwa keragaman genetik kambing Benggala tergolong rendah.Kata Kunci: kambing Benggala, kemiripan genetik, Manggarai Barat , RAPD, variasi genetik

scholarly journals Gene flow and genetic structure between populations of Hesperis L. (Brassicaceae) species using molecular markers

Genetika ◽  
2021 ◽  
Vol 53 (2) ◽  
pp. 769-782
Author(s):  
Kuanhong Meng ◽  
Jia Yao ◽  
Cong He ◽  
Heravi Morabbi
Keyword(s):  
Genetic Diversity ◽  
Genetic Difference ◽  
Random Amplified Polymorphic Dna ◽  
Principal Component ◽  
Shannon Index ◽  
The Other ◽  
Brassicaceae Species ◽  
Close Relationship ◽  
Geographical Populations ◽  
Dna Primers

Genetic variability and populations, structure were studied in seven geographical populations of Hesperis L. Genetic diversity parameters were determined in these populations. 5 of 10 random amplified polymorphic DNA primers produced 62 reproducible bands with average of 7.1 bands per primer and 55% of polymorphism. Hesperis hyrcana showed the highest number of effective allele (Ne), Shannon index (I) and genetic diversity (H). The highest values of genetic diversity were obtained in Hesperis hyrcana. NJ trees grouped the populations in two different clusters/groups, indicating their genetic difference which is discussed in details. The results of this study showed that the level of genetic variation in Hesperis is relatively high. NJ-based dendrogram showed a close relationship between members of Hesperis straussii and Hesperis hyrcana while the Hesperis luristanica protected population differ the most from the other populations. Principal component analysis, however, showed some minor differences with NJ-based dendrograms.

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