Genetic diversity ofBradyrhizobiumstrains isolated fromArachis hypogaea

2001 ◽  
Vol 47 (2) ◽  
pp. 118-122 ◽  
Author(s):  
Lilly M Saleena ◽  
P Loganathan ◽  
Sunita Rangarajan ◽  
Sudha Nair
Keyword(s):  
Genetic Diversity ◽  
Tamil Nadu ◽  
Rapd Markers ◽  
Indigenous Population ◽  
Atmospheric Nitrogen ◽  
Ph Tolerance ◽  
Rapd Pcr ◽  
Pcr Rflp ◽  
Different Populations ◽  
High Degree

Rhizobia are used exclusively in agricultural systems for enhancing the ability of legumes to fix atmospheric nitrogen. Knowledge about the indigenous population is necessary for the selection and application of inoculant strains. In this study, we have assessed the genetic diversity of Bradyrhizobium strains isolated from the host plant, Arachis hypogaea along the coastline of Tamil Nadu. Different populations collected from varying environmental conditions were analysed for salt and pH tolerance. Genetic diversity among the strains was studied using RAPD markers and PCR-RFLP of 16S rDNA and nifD genes. The approaches used in this study yielded consistent results, which revealed a high degree of heterogeneity among strains and detection of two distinct genetic groups.Key words: rhizobia, diversity, salinity, RAPD, PCR-RFLP.

Genetic Diversity of Basil (Ocimum spp. - Lamiaceae) Based on RAPD Markers and Volatile Oil Constituents

HortScience ◽  
1998 ◽  
Vol 33 (3) ◽  
pp. 492f-493
Author(s):  
Roberto F. Vieira ◽  
James E. Simon ◽  
Peter Goldsbrough ◽  
Antonio Figueira
Keyword(s):  
Genetic Diversity ◽  
Molecular Markers ◽  
Rapd Markers ◽  
Volatile Oil ◽  
Essential Oil Composition ◽  
Oil Composition ◽  
Traditional Medicines ◽  
The Tropics ◽  
High Degree ◽  
First Time

Essential oils extracted from basil (Ocimum spp.) by steam distillation are used to flavor foods, oral products, in fragrances, and in traditional medicines. The genus Ocimum contains around 30 species native to the tropics and subtropics, with some species naturalized and/or cultivated in temperate areas. Interand intraspecific hybridization have created significant confusion in the botanical systematics of this genus. Taxonomy of basil (O. basilicum) is also complicated by the existence of numerous varieties, cultivars, and chemotypes within the species that do not differ significantly in morphology. In this study we are using RAPD markers and volatile oil composition to characterize the genetic diversity among the most economically important Ocimum species. We hypothesize that the genetic similarity revealed by molecular markers will more accurately reflect the morphological and chemical differences in Ocimum than essential oil composition per se. Preliminary research using five Ocimum species, four undetermined species, and eight varieties of O. basilicum (a total of 19 accessions) generated 107 polymorphic fragments amplified with 19 primers. RAPDs are able to discriminate between Ocimum species, but show a high degree of similarity between O. basilicum varieties. The genetic distance between nine species and among 55 accessions within the species O. americanum, O. basilicum, O. campechianum, O. × citriodorum, O. gratissimum, O. kilimandscharium, O. minimum, O. selloi, and O. tenuiflorum will be analyzed by matrix of similarity and compared to the volatile oil profile. This research will for the first time apply molecular markers to characterize the genetic diversity of Ocimum associate with volatile oil constituent.

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.

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 Molecular Evaluation of Three Populations of Farafra Sheep in Comparison to Ossimi and Rahmani Sheep Breeds

2020 ◽  
Vol 68 (6) ◽  
pp. 929-936
Author(s):  
Talaat Bashandy ◽  
Ahmed Hussein ◽  
Mohamed Solma ◽  
Ayman Kassab ◽  
Hatem Hamdon
Keyword(s):  
Genetic Diversity ◽  
Molecular Markers ◽  
Rapd Markers ◽  
Rapd Marker ◽  
Sheep Breeds ◽  
Main Cluster ◽  
Ideal Approach ◽  
Different Populations ◽  
The Mean ◽  
Molecular Evaluation

Molecular markers are the most ideal approach to study genetic diversity. Consequently, we utilized both ISSR and RAPD markers to assess genetic diversity and relationships among three different populations of Farafra, Ossimi and Rahmani Egyptian sheep breeds. Both ISSR and RAPD gave moderate polymorphism 41.3% and 48.51%, respectively. Besides, this value was consistent with the moderate value of the mean of polymorphism information content (0.16 and 0.20, respectively). Farafra-F and Farafra-D populations had the highest similarity which was 0.92 for ISSR and 0.90 for the RAPD marker. Furthermore, ISSR and RAPD constructed dendrogram separated all the studied sheep into two main clusters. All the three populations of Farafra breed combined into one main cluster, while the second cluster contained both Rahmani and Ossimi breeds. The used molecular markers were able to discriminate among evaluated sheep and displayed that Farafra breed more closely related to Ossimi than Rahmani breed.

scholarly journals Short Communication: Genetic diversity of fumonisin producing Fusarium isolates from rice using PCR-RFLP of IGS-rDNA region

2018 ◽  
Vol 19 (2) ◽  
pp. 571-576
Author(s):  
SHUBHRANSU NAYAK ◽  
URMILA DHUA ◽  
APURBA CHHOTARAY ◽  
SOMA SAMANTA ◽  
CHANDAN SENGUPTA
Keyword(s):  
Genetic Diversity ◽  
Short Communication ◽  
Fusarium Species ◽  
Fusarium Verticillioides ◽  
Rice Varieties ◽  
Separate Branch ◽  
Pcr Rflp ◽  
Pcr Products ◽  
Silver Nitrate Staining ◽  
High Degree

Nayak S, Dhua U, Chhotaray A, Samanta S, Sengupta C. 2018. Short Communication: Genetic diversity of fumonisin producing Fusarium isolates from rice using PCR-RFLP of IGS-rDNA region. Biodiversitas 19: 571-576. Fusarium verticillioides (Sacc.) and related species produce carcinogenic mycotoxin known as Fumonisins in several agricultural crops including rice. However, this principal food crop has been infected by genetically diverse Fusarium species. Odisha belongs to the coastal part of India and many popular rice varieties are in the food chain in this region. Many Fusarium species producing fumonisins have been found to be associated with these rice varieties. Hence, the genetic diversity of twenty eight Fumonisin producers and non producers of Fusarium pathogens in this region was carried out in the current study. The IGS regions of 28 Fusarium isolates (both fumonisin producing and non producing) were amplified and the PCR products were restriction digested with ECoRI and HhaI. The digested products were separated on PAGE and bands were visualized by Silver Nitrate Staining. The 28 isolates could be separated into 14 IGS haplotypes. The lowest similarity was detected to be of 33% between F40 and F47. A group containing 14 isolates represented the biggest haplotypes. The isolates in which the FUM gene had not been detected (fumonisin non producer) were in a separate group having 90% similarity with each other and placed consistently in separate branch from others. Presence of unique band for this group was observed at 1650bp where as absence of specific bands was observed at 380bp and 300bp. The result of this study indicated a high degree of genetic variation among 28 Fusarium isolates. PCR RFLP of IGS region was also found to be useful for diversity study in Fusarium.

Discriminatory Power of RAPD,PCR-RFLP and Southern Blot Analyses of ureCD or ureA Gene Probes on Helicobacter pylori Isolates

2002 ◽  
Vol 57 (5-6) ◽  
pp. 516-521 ◽  
Author(s):  
Stella Smith ◽  
Franck Cantet ◽  
Fabrice Angelini ◽  
Armelle Marais ◽  
Francis Mégraud ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Helicobacter Pylori ◽  
Southern Blot ◽  
Blot Analysis ◽  
Southern Blot Analysis ◽  
Discriminatory Power ◽  
Gene Probes ◽  
Rapd Pcr ◽  
Pcr Rflp

The genetic diversity of 33 Nigerian Helicobacter pylori isolates were studied using RAPD, PCR-RFLP and Southern blot analysis of ureA or ureCD gene probes. RAPD was able to distinguish the following number of isolates using the primers 3880 : 5ʹ-AAGAGCCCGT-3ʹ (28), 3881 :5ʹ-AACGCGCAAC-3ʹ (33) and OPH8 :5ʹ-GAAACACCCC-3ʹ (25). Southern blot analysis using the ureCD probe was also able to distinguish the 12 isolates tested into ten different patterns. The PCR-RFLP technique distinguished all 33 isolates into six types. In conclusion, considering typeability, discriminatory power, and convenience, RAPD with the 3881 primer was considered the most useful technique.

Study on genetic diversity of Castanopsis phuthoensis Luong in Phu Tho province, Vietnam by RAPD markers

2016 ◽  
Vol 14 (2) ◽  
pp. 237-243
Author(s):  
Nguyễn Văn Thọ ◽  
Lê Thị Mai Linh ◽  
Nguyễn Viễn ◽  
Phạm Quang Tiến
Keyword(s):  
Genetic Diversity ◽  
Tree Species ◽  
Dna Polymorphism ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Pcr Analysis ◽  
Dna Fragments ◽  
Similarity Coefficients ◽  
Rapd Pcr ◽  
Rapd Primer

Castanopsis phuthoensis Luong is an endemic tree species of Phu Tho province, only distributed narrowly in forest rehabilitation in two communes belonging to Doan Hung district with density of this species is very low, only from 3.1 to 11.1 trees per hectare. Diameter distributions of the species of number of trees is characterized by curve style with a peak in 20cm or 24cm diameter classes. As it is difficult to find the seedling in the nature, research on forest structure, relations between tree species and genetic diversity is very necessary to define method of conservation for this species. In this study, we used RAPD markers to study on genetic diversity of Castanopsis phuthoensis Luong. The random amplified polymorphic DNA (RAPD) based on the polymeraze chain reaction (PCR) detects nucleotide sequence polymorphism using a single 10mer of arbitrary nucleotided sequence. The RAPD technology has quickly gained widespread acceptance and application because it providesa tool for genetic analysis that have not previously benefited the use of molecular markers. In this study, ten random primers to analyse the genetic diversity of 15 Castanopsis phuthoensis Luong samples that were collected from Phu Tho province, Vietnam. 9 RAPD primers gave DNA polymorphism and 01 RAPD primer OPA20 gave not DNA polymorphism. In the analysis region 0.25-2 kb, there were 56 DNA fragments amplified and 34 DNA fragments were polymorphic. Genetic similarity coefficients of 15 Castanopsis phuthoensis Luong samples ranged from 0.55- 0.95. The phylogenetic tree of 15 samples are divided into two main groups. As results of RAPD-PCR analysis, these samples were collected from the homologous geographical locations and the genetic diversity of 15 samples is not high. Therefore, it is necessary to conserve the "Castanopsis phuthoensis Luong".

Genetic diversity in Xanthoria parietina (L.) Th. Fr. (lichen-forming ascomycete) from worldwide locations

2004 ◽  
Vol 36 (6) ◽  
pp. 381-390 ◽  
Author(s):  
Rosmarie HONEGGER ◽  
Undine ZIPPLER ◽  
Sandra SCHERRER ◽  
Paul S. DYER
Keyword(s):  
Genetic Diversity ◽  
New Zealand ◽  
North America ◽  
Rapd Markers ◽  
Bootstrap Support ◽  
Sequence Analyses ◽  
Ascospore Discharge ◽  
Rapd Pcr ◽  
Xanthoria Parietina ◽  
Axenic Cultures

Specimens of Xanthoria parietina were collected from worldwide locations and ascospore discharge used to establish axenic cultures of the mycobiont. DNA was extracted and RAPD-PCR fingerprinting of 59 isolates was successfully achieved, resulting in 58 unique fingerprints. 110 multilocus RAPD markers were generated and used to construct a dendrogram. Two main groups were distinguished (75% bootstrap support): the first comprising samples from the Iberian Peninsula, the Balearic and Canary Islands; the second comprising all other worldwide samples including isolates from throughout Europe and North America. Samples from Australia and New Zealand clustered with the second group except one additional, phenotypically distinct specimen, not belonging to X. parietina, which formed an outgroup. However, comparative DNA sequence analyses are required to verify this interpretation.

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.

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