Genetic diversity among microsporidian isolates from the silkworm, Bombyx mori, as revealed by randomly amplified polymorphic DNA (RAPD) markers

2011 ◽  
Vol 56 (4) ◽  
Author(s):  
B. Surendra Nath ◽  
W. Hassan ◽  
S. Nageswara Rao ◽  
N. Vijaya Prakash ◽  
S. Gupta ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Type Species ◽  
Rapd Markers ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Rapd Pcr ◽  
Random Amplification ◽  
Major Cluster ◽  
Sources Of Infection ◽  
Polymerase Chain

AbstractRandom amplification of polymorphic DNA polymerase chain reaction (RAPD-PCR) was carried out to assess the genetic diversity of five new microsporidian isolates viz., NIWB-11bp, NIWB-12n, NIWB-13md, NIWB-14b and NIWB-15mb identified from the silkworms. A type species, NIK-1s_mys was used as control for comparison. Differences in the spore shape, length and width were observed. Of the 30 decamer random primers tested, 22 primers gave repeatable RAPD profiles and yielded a total of 143 fragments, of which 78 were polymorphic (55%). The resulting data was used to derive genetic similarity values for constructing a dendrogram. The neighbour joining method based on Dice coefficients indicate a major cluster comprising NIK-1s_mys, NIWB-11bp and NIWB-12n, whereas NIWB-13md, NIWB-14b and NIWB-15mb appear to be different from each other as well from the major cluster mentioned above which includes the type species (NIK-1s_mys). Based on the reproducibility of RAPD profiles, we are able to identify these microsporidians as different isolates. The RAPD technique may be useful in detecting sources of infection of this economically important domestic insect.

scholarly journals Genetic diversity analysis of endemic species, Garcinia cambogia Gaertn using randomly amplified Polymorphic DNA markers

2017 ◽  
Vol 7 ◽  
Author(s):  
Santosh P ◽  
Suresh B. Arakera
Keyword(s):  
Genetic Diversity ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Consumer Preference ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Garcinia Cambogia ◽  
Polymerase Chain ◽  
Polymorphic Bands ◽  
Dna Pcr

<p><strong>Polymerase chain reaction based random amplified polymorphic DNA (PCR-RAPD) markers were employed to assess genetic diversity in eight <em>Garcinia  cambogia</em>  genotypes. Among the 20 random primers used in the present investigation, 9 primers showed polymorphism. A total number of 227 bands were obtained from 9 primers, out of which 225 were polymorphic, showing 99.11% polymorphism. An average of 25.22 bands per primer was scored and average number of polymorphic bands found to be 25. The eight accessions fall into two major clusters. Cluster analysis showed that the red and yellow accessions cannot be regarded as two different varieties. The use of red and yellow fruits for commercial and medicinal purposes, respectively, is purely based on consumer preference. </strong></p>

ANALYSIS OF GENETIC DIVERSITY OF 26 CASSAVA VARIETIES (Manihot esculenta CRANTZ) WITH DIFFERENT RESPONSES TO WATERLOGGING CONDITIONS BY USING RAPD MARKERS

2021 ◽  
Vol 66 (3) ◽  
pp. 170-179
Author(s):  
Sengsoulichan Dethvongsa ◽  
Vu Nguyen Anh ◽  
Van Tran Khanh
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Tree ◽  
Manihot Esculenta ◽  
Rapd Markers ◽  
Flood Tolerance ◽  
Randomly Amplified Polymorphic Dna ◽  
Manihot Esculenta Crantz ◽  
Rapd Pcr ◽  
Cassava Production ◽  
Cassava Varieties

RAPD (Randomly Amplified Polymorphic DNA) is an indicator for high and stable polymorphism, widely used in the study of the diversity of cassava. In this paper, the results of using 20 polymorphic primers OPK combined with the establishment of the phylogenetic tree to analyze the genetic diversity of 26 cassava varieties with different responses to waterlogging conditions by using the RAPD-PCR technique were presented. The purpose of this experiment was to show the genetic relevance of the studied cassava varieties. The results showed that the flood tolerance of cassava was not related to the polymorphism and branching characteristics of the stem. This information may be use as a basis for selecting flood-tolerant cassava varieties for cassava production, as well as the basis for selecting genetically different parents for breeding.

scholarly journals A Pseudomonas syringae Diversity Survey Reveals a Differentiated Phylotype of the Pathovar syringae Associated with the Mango Host and Mangotoxin Production

2013 ◽  
Vol 103 (11) ◽  
pp. 1115-1129 ◽  
Author(s):  
José A. Gutiérrez-Barranquero ◽  
Víctor J. Carrión ◽  
Jesús Murillo ◽  
Eva Arrebola ◽  
Dawn L. Arnold ◽  
...  
Keyword(s):  
Pseudomonas Syringae ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Catabolic Diversity ◽  
Rapd Pcr ◽  
Geographical Regions ◽  
Extensive Collection ◽  
Polymerase Chain ◽  
Apical Necrosis ◽  
Dna Pcr

Pseudomonas syringae pv. syringae, the causal agent of bacterial apical necrosis (BAN) in mango crops, has been isolated in different mango-producing areas worldwide. An extensive collection of 87 P. syringae pv. syringae strains isolated from mango trees affected by BAN from different countries, but mainly from Southern Spain, were initially examined by repetitive sequence-based polymerase chain reaction (rep-PCR) to analyze the genetic diversity with an epidemiological aim. rep-PCR was powerful in assessing intrapathovar distribution and also allowing clustering of the P. syringae pv. syringae strains isolated from mango, depending on the isolation area. A clear pattern of clustering was observed for all the P. syringae pv. syringae strains isolated from mango distinct from strains from other hosts, including strains for the same geographical regions as the mango isolates. For this reason, a representative group of 51 P. syringae pv. syringae strains isolated from mango and other hosts, as well as some P. syringae strains from other pathovars, were further characterized to determine their possible genetic, phenotypic, and phylogenetic relationships. Similar to the rep-PCR results, the randomly amplified polymorphic DNA PCR (RAPD-PCR) and catabolic diversity analysis using the Biolog GN2 profile grouped 90% of the mango isolates together in a unique cluster. Interestingly, the majority of P. syringae pv. syringae strains isolated from mango produced mangotoxin. The analysis of the phylogenetic distribution using the multilocus sequence typing analysis strongly supports the existence of a differentiated phylotype of the pathovar syringae mainly associated with the mango host and characterized by the mangotoxin production.

scholarly journals Genetic diversity assessment using RAPD primers in insecticide resistant populations of diamondback moth Plutella xylostella (Linn.)

2015 ◽  
Vol 7 (1) ◽  
pp. 219-225 ◽  
Author(s):  
V. Sunitha ◽  
T.V. K. Singh ◽  
V. Ramesh Babu ◽  
J. Satyanarayana
Keyword(s):  
Genetic Diversity ◽  
Polymerase Chain Reaction ◽  
Genetic Variability ◽  
Plutella Xylostella ◽  
Rapd Markers ◽  
Diamondback Moth ◽  
Chain Reaction ◽  
Diversity Assessment ◽  
Polymerase Chain ◽  
Cluster A

Genetic diversity in acephate, spinosad and Cry2Ab resistant Plutella xylostella collected from three states of India was assessed by RAPD markers. The DNA extracted from larvae was subjected to polymerase chain reaction using 10 RAPD primers. The highest number alleles (7) were produced by primer ABA-13, followed by six alleles each by primers ABA-2, 7, 8, 11, 14; five alleles each were produced by ABA-4, 9, 10, 12. UPGMA analysis clustered the acephate, spinosad and Cry2Ab treated P.xylostella populations into two groups with overall similarity level of 33%, 27% and 34% respectively. Cluster A consisted 11 samples while Cluster B consisted only F1 of acephate and spinosad treated Karnataka population. In Cry2Ab treated population Cluster B comprised 11 samples and Cluster A had out grouped singly i.e. F0 generation from Karnataka. The genetic variability between the acephate, spinosad and Cry2Ab treated populations ranged from 33 to 69%, 27 to 56% and 34 to 69% respectively. Acephate and spinosad treated F1 population and Cry2Ab treated F0 population from Karnataka were out grouped from rest of the populations.

scholarly journals Investigations on Transfer of Pathogens between Foster Cows and Calves during the Suckling Period

Animals ◽  
2021 ◽  
Vol 11 (9) ◽  
pp. 2738
Author(s):  
Katharina Köllmann ◽  
Nicole Wente ◽  
Yanchao Zhang ◽  
Volker Krömker
Keyword(s):  
Pasteurella Multocida ◽  
Dairy Farm ◽  
Mammary Glands ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Calf Health ◽  
Flight Mass Spectrometry ◽  
Rapd Pcr ◽  
Organic Dairy ◽  
Polymerase Chain

To date, there have been few studies on the health effects of foster cow systems, including the transmission of mastitis-associated pathogens during suckling. The present study aimed to compare the pathogens detected in the mammary glands of the foster cow with those in the oral cavities of the associated foster calves and to evaluate the resulting consequences for udder health, calf health and internal biosecurity. Quarter milk sampling of 99 foster cows from an organic dairy farm was conducted twice during the foster period. Oral cavity swabs were taken from 345 foster calves. Furthermore, quarter milk samples were collected from 124 biological dams to investigate possible transmission to the foster cows via the suckling calves. All samples were microbiologically examined and confirmed by MALDI-TOF (matrix-assisted laser desorption time-of-flight mass-spectrometry). Using RAPD-PCR (randomly amplified polymorphic DNA polymerase chain reaction), strain similarities were detected for Pasteurella multocida, Staphylococcus aureus, S. sciuri and Streptococcus (Sc.) suis. Transmission of P. multocida and S. aureus probably occurred during suckling. For S. sciuri and Sc. suis, environmental origins were assumed. Transmission from dam to foster cow with the suckling calf as vector could not be clearly demonstrated.

scholarly journals Optimization of RAPD-PCR conditions for the study of genetic diversity in Nepal’s Swertia chirayita (Roxb. Ex Fleming) H. Karst

2011 ◽  
Vol 6 (8) ◽  
pp. 35-40
Author(s):  
Sangita Shrestha ◽  
Jaishree Sijapati ◽  
Neesha Rana ◽  
Diwa Malla ◽  
Prabha Regmi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Polymerase Chain Reaction ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Genetic ◽  
Molecular Diagnostic ◽  
Chain Reaction ◽  
Natural Habitats ◽  
Molecular Genetic Diversity ◽  
Rapd Pcr ◽  
Polymerase Chain

Of the 30 species (including five varieties) of the genus Swertia in Nepal, nine have been reported to possess medicinal properties. Among these, S. chirayita is the most valuable species, with high demand in domestic and international markets. Nepal’s S. chirayita and related species are being recklessly exploited for commercial purposes. Two problems that have emerged with this lucrative market are (a) adulteration and fraudulent labeling of S. chirayita, and (b) depletion of S. chirayita and allied species from their natural habitats. To address the problem of adulteration and conservation, we studied molecular genetic diversity in S. chirayita populations and developed a molecular diagnostic tool for the purposes of authentication. We studied intra-specific genetic diversity in S. chirayita using Polymerase Chain Reaction (PCR)-based Random Amplified Polymorphic DNA (RAPD) technique. As a preliminary step, we identified optimal RAPD-PCR reaction and cycling conditions by varying PCR reaction parameters such as concentration of template DNA, MgCl2, dNTPs, primer, Taq DNA polymerase and RAPD-PCR programs. The optimized PCR reaction and cycling conditions were then used in subsequent RAPD profiling experiments for the study of genetic diversity within S. chirayita populations from various geographical locations. Genetic diversity characterization of S. chirayita populations at the molecular level would furnish information with significant applications in the conservation and sustainable utilization of S. chirayita and its allied species in Nepal. Key words: Polymerase Chain Reaction, Random Amplified Polymorphic DNA, DNA fingerprinting, genetic diversity DOI: http://dx.doi.org/10.3126/hjs.v6i8.2699 Himalayan Journal of Sciences Vol.6 Issue 8 2010 pp.35-40

scholarly journals Assessment of genetic diversity in five populations of Solanum torvum Swartz. from Tripura using SSR and RAPD markers

2020 ◽  
Vol 7 (1) ◽  
pp. 46-54
Author(s):  
Mitali Das ◽  
H R Singha ◽  
Kishan Saha
Keyword(s):  
Genetic Diversity ◽  
Polymerase Chain Reaction ◽  
High Altitude ◽  
Molecular Characterization ◽  
Rapd Markers ◽  
Common Ancestor ◽  
Chain Reaction ◽  
Solanum Torvum ◽  
Different Populations ◽  
Polymerase Chain

Polymerase Chain reaction (PCR) based molecular characterization has been undertaken for assessing the genetic diversity in five populations of Solanum torvum using SSR and RAPD markers. In this study, 8 SSRs produced 151 fragments of which 131 bands were polymorphic (86.38%). The primers, At5 amplified the highest number of polymorphic loci (27) and the highest PIC was recorded in CBT08 (0.54). In comparison, RAPD assay produced 70 bands with 79.16% polymorphism. The PIC value was highest in OPC14 (0.41). UPGMA clustering for SSR and RAPD markers grouped all the populations into two clusters. Our findings on SSR profile suggests that though different populations of S. torvum are inherited from a common ancestor eventually the population (STP5) with greater genetic diversity is stabilized in the high altitude of Sub - Himalayan region of Tripura in the due course of evolution.

scholarly journals Randomly Amplified Polymorphic DNA Markers Linked to Fusarium Wilt Resistance in Diverse Melons

HortScience ◽  
2000 ◽  
Vol 35 (4) ◽  
pp. 716-721 ◽  
Author(s):  
X.Y. Zheng ◽  
David W. Wolff
Keyword(s):  
Fusarium Wilt ◽  
Rapd Markers ◽  
Southern Hybridization ◽  
Bulked Segregant Analysis ◽  
Randomly Amplified Polymorphic Dna ◽  
Multiple Sources ◽  
Chain Reaction ◽  
Wilt Resistance ◽  
Polymerase Chain ◽  
Fusarium Wilt Resistance

Three randomly amplified polymorphic DNA (RAPD) markers (E07, G17, and 596) linked to the Fom-2 gene, which confers resistance to race 0 and 1 of Fusarium oxysporum f. sp. melonis, were evaluated by RAPD-polymerase chain reaction for their linkage to Fusarium wilt resistance/susceptibility in diverse melon cultigens (48 resistant, 41 susceptible). Primer 596 was identified in the multiple disease-resistant breeding line MR-1, whereas E07 and G17 were identified in the susceptible `Vedrantais'. The RAPD markers E07 (1.25 kb) and G17 (1.05 kb) correctly matched phenotypes in 88% and 81% of the cultigens. The validity of the RAPD scores was verified by Southern hybridization analysis for sequence homology and bulked segregant analysis of a selected cross population for the linkage. These results will facilitate the introgression of resistance genes into susceptible lines from multiple sources in marker-assisted selection.

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