scholarly journals Protein-Based Genetic Diversity Assessment of Tilapia guineensis and Sarotherodon melanotheron Populations from South-West Nigerian Coastal Waters

2020 ◽  
pp. 9-15
Author(s):  
E. A. Ukenye ◽  
I. Megbowon ◽  
M. M. A. Akinwale ◽  
M. A. Fowora ◽  
I. Chidume ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Similarity ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Group Method ◽  
Cichlid Species ◽  
Diversity Assessment ◽  
Sds Page ◽  
Sarotherodon Melanotheron

The present study was carried out to investigate the genetic differences in the Protein banding pattern of Tilapia guineensis and Sarotherodon melanotheron populations in Southwest Nigeria using Sodium Dodecyl Sulfate-Polyacrylamide Gel Electrophoresis (SDS-PAGE). Four populations of Tilapia guineensis and three populations of Sarotherodon melanotheron from Ondo and Lagos states were considered for the study. The sarcoplasmic protein of the studied Cichlid species resolved on 12% SDS-PAGE revealed variations in their genetic diversity indices (number of alleles, shanon information index, heterozygosity and percentage polymorphism). T. guineensis had more proteins and higher genetic diversity as was revealed by the genetic diversity parameters and was found to be more polymorphic with a percentage polymorphism of 78.57% than S. melanotheron (57.14%). The two species had similarity coefficient of 0.82 indicating high genetic similarity between them. UPGMA (Unweighted Pair Group Method with Arithmetic Mean) dendrogram also revealed some level of genetic similarity between the studied populations and among the two species. Analysis of molecular variance (AMOVA) confirmed the low genetic variation among the populations of the cichlid species and demonstrated that genetic variation was mostly within populations in both species. It is established from the study that Tilapia guineensis had higher genetic diversity than Sarotherodon melanotheron and the two species are closely related. Further study involving molecular markers is encouraged to complement this finding.

Assessment of Genetic Variation in Selected Members of Family Apocynaceae using SDS-PAGE

2021 ◽  
Vol 27 (1) ◽  
Author(s):  
Ravindra Singh ◽  
Mahendra Pal Singh ◽  
Rajdeep Kudesia
Keyword(s):  
Genetic Variation ◽  
Plant Species ◽  
Catharanthus Roseus ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Similarity Index ◽  
Group Method ◽  
Rauvolfia Serpentina ◽  
Thevetia Peruviana ◽  
Sds Page

Genetic variation of any plant species is very interesting in reducing genetic vulnerability as well as stabilizing production. In this regard, a study was undertaken to analyze the genetic variation among selected members of family Apocynaceae by using sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE). In this study, a total of 53 protein bands were analyzed, out of them all bands were polymorphic with a total of 100% polymorphism. The electrophoresis of the proteins revealed protein bands in the range of 151 kD to less than 11 kD molecular weight. The similarity index calculated on the basis of presence and absence of protein bands ranged from 0.04 to 0.200. A dendrogram was constructed based on UPGMA (unweighted pair group method using arithmetic averages) clustering method revealed three clusters. Cluster I contained three species namely Thevetia peruviana, Catharanthus roseus and Nerium indicum, in which Thevetia peruviana and Catharanthus roseus were more close than Nerium indicum, while cluster II included only one species namely Rauvolfia serpentina. Carissa carandus emerged as the most primitive species forming an out group (cluster III). Thus, this study revealed that the SDS-PAGE method plays a key role in the study of protein based variation among selected plant species.

Whole-cell protein and ITS rDNA profiles as diagnostic tools to discriminate Fusarium avenaceum intraspecific variability and associated virulence

2009 ◽  
Vol 55 (2) ◽  
pp. 117-125 ◽  
Author(s):  
V. Vujanovic ◽  
S. Vidovic ◽  
M. R. Fernandez ◽  
P. Daida ◽  
D. Korber
Keyword(s):  
Protein Profile ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Intraspecific Variability ◽  
Fusarium Avenaceum ◽  
Cell Protein ◽  
Diagnostic Tools ◽  
Group Method ◽  
Head Blight ◽  
Sds Page

A total of 91 isolates of Fusarium avenaceum were regrouped into 15 phenotypes and 10 vegetative compatibility groups showing specific one-dimensional sodium dodecyl sulphate polyacrylamide gel electrophoresis (1-D SDS–PAGE) protein profiles and less-specific internal transcribed spacer rDNA profiles. Each isolate possessed reproducible signature protein bands. Indeed, the unweighted pair group method with arithmetic averages clustering revealed that the protein profile of each group of isolates correlated with fungus virulence. The use of SDS–PAGE offers a simple and sensitive technique for routine differentiation between pathogenic and nonpathogenic isolates within unknown F. avenaceum populations. The discovery has significant implications for risk assessment of cereal yield to ensure food and feed safety. This low-cost approach has the potential to be optimized and extended to a broad spectrum of Fusarium head blight pathogens.

scholarly journals Protein Profile Study of Some Nigerian Sesame (Sesamum indicum L.) Accessions

2015 ◽  
Vol 3 (2) ◽  
pp. 322-329 ◽  
Author(s):  
Gbenga Olorunshola Alege
Keyword(s):  
Genetic Diversity ◽  
Protein Profile ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Sesamum Indicum ◽  
Genomic Changes ◽  
Sds Page ◽  
Sesame Genotypes ◽  
Species Specific ◽  
Total Seed

This study was carried out to investigate the genetic diversity among 23 sesame (Sesamum indicum L.) accessions obtained from different agro-ecological localities from 10 different states across 4 geopolitical zones in Nigeria using evidence from Sodium Dodecyl Polyacrylamide Gel Electrophoresis (SDS-PAGE). Total seed protein of the studied plants resolved on 12% SDS-PAGE showed variations in numbers and intensity of bands among the different sesame accessions. Thirteen (13) major bands were recorded in this study. Lack of unique band and presence of common band (band 7) among the 23 studied sesame accessions indicate some levels of genetic affinity and evidence of common evolutionary origin of the sesame genotypes. This band can therefore be tagged as species specific band for discriminating Sesamum indicum. Cluster analysis grouped the 23 sesame genotypes into two clusters with similarity coefficient ranging from 0.42 to 0.96 which indicates existence of genetic diversity; therefore there is ample opportunity for improving the 23 sesame genotypes. Variations in protein bands observed among the 23 studied plants could be attributed to genomic changes taken place during species diversification. It can be concluded that genetic diversity existed among Nigerian sesame for the improvement of characters of interest. Accessions 9 (YOL), 15(OTT), 22 (OFF) and 23 (JAL) are therefore recommended for used in future breeding programs for the development of improved sesame varieties.Int J Appl Sci Biotechnol, Vol 3(2): 322-329 DOI: http://dx.doi.org/10.3126/ijasbt.v3i2.12734

scholarly journals Protein Profiles from Intact Cells as a Tool in Bifidobacterium Characteristics

2012 ◽  
Vol 61 (4) ◽  
pp. 305-310 ◽  
Author(s):  
ADAM WAŚKO ◽  
MAGDALENA POLAK-BERECKA ◽  
MICHAŁ KALITA
Keyword(s):  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Molecular Techniques ◽  
Group Method ◽  
Intact Cells ◽  
Arithmetic Average ◽  
Pair Group ◽  
Sds Page ◽  
Liquid Chromatography Tandem Mass ◽  
Electrophoresis Separation

In this study sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) profiles were analysed and differences were confirmed by a unweighted pair group method with arithmetic average (UPGMA) analysis between bifidobacterial species, such as B. infanis ATCC1567, B. bifidum Bb-12, B. longum KN29, B. catenulatum KD14, and B. animalis BI30. Two dimensional electrophoresis separation profiles were compared, and the most characteristic spots were characterized by liquid chromatography-tandem mass spectrometry (LC-MS/MS). We propose proteins extracted from intact cells as an additional trait for bifidobacteria characterization, together with molecular techniques, which can be used to analyze bacterial protein polymorphism and to distinguish among species.

scholarly journals Assessment of genetic diversity and variety identification based on developed retrotransposon-based insertion polymorphism (RBIP) markers in sweet potato (Ipomoea batatas (L.) Lam.)

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Yusha Meng ◽  
Wenjin Su ◽  
Yanping Ma ◽  
Lei Liu ◽  
Xingguo Gu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Sweet Potato ◽  
Variety Identification ◽  
Group Method ◽  
Insertion Polymorphism ◽  
Ltr Retrotransposon ◽  
Germplasm Resources ◽  
Ltr Retrotransposons ◽  
Diversity Assessment

AbstractSweet potato, a dicotyledonous and perennial plant, is the third tuber/root crop species behind potato and cassava in terms of production. Long terminal repeat (LTR) retrotransposons are highly abundant in sweet potato, contributing to genetic diversity. Retrotransposon-based insertion polymorphism (RBIP) is a high-throughput marker system to study the genetic diversity of plant species. To date, there have been no transposon marker-based genetic diversity analyses of sweet potato. Here, we reported a structure-based analysis of the sweet potato genome, a total of 21555 LTR retrotransposons, which belonged to the main LTR-retrotransposon subfamilies Ty3-gypsy and Ty1-copia were identified. After searching and selecting using Hidden Markov Models (HMMs), 1616 LTR retrotransposon sequences containing at least two models were screened. A total of 48 RBIP primers were synthesized based on the high copy numbers of conserved LTR sequences. Fifty-six amplicons with an average polymorphism of 91.07% were generated in 105 sweet potato germplasm resources based on RBIP markers. A Unweighted Pair Group Method with Arithmatic Mean (UPGMA) dendrogram, a model-based genetic structure and principal component analysis divided the sweet potato germplasms into 3 groups containing 8, 53, and 44 germplasms. All the three analyses produced significant groupwise consensus. However, almost all the germplasms contained only one primary locus. The analysis of molecular variance (AMOVA) among the groups indicated higher intergroup genetic variation (53%) than intrapopulation genetic variation. In addition, long-term self-retention may cause some germplasm resources to exhibit variable segregation. These results suggest that these sweet potato germplasms are not well evolutionarily diversified, although geographic speciation could have occurred at a limited level. This study highlights the utility of RBIP markers for determining the intraspecies variability of sweet potato and have the potential to be used as core primer pairs for variety identification, genetic diversity assessment and linkage map construction. The results could provide a good theoretical reference and guidance for germplasm research and breeding.

scholarly journals Los patrones electroforéticos de proteínas salivales permiten diferenciar los grupos transandino y cisandino de las especies de Rhodnius de Colombia

Biomédica ◽  
2020 ◽  
Vol 40 (2) ◽  
pp. 404-411
Author(s):  
Arlid Meneses ◽  
Cristian Camilo Rodríguez ◽  
Yazmín Suárez ◽  
Julio César Carranza ◽  
Gustavo Adolfo Vallejo
Keyword(s):  
Sodium Dodecyl Sulfate ◽  
Trypanosoma Cruzi ◽  
Gel Electrophoresis ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Group Method ◽  
Pair Group ◽  
Sds Page ◽  
Los Grupos ◽  
Unweighted Pair Group Method

Introducción. Las especies Rhodnius (Hemiptera: Reduviidae: Triatominae) están conformadas por insectos hematófagos vectores de Trypanosoma cruzi, agente etiológico de la enfermedad de Chagas, y T. rangeli, parásito infectivo pero no patógeno para el vertebrado. El estudio de la diversidad proteica de la saliva de estos insectos permite la obtención de perfiles electroforéticos unidimensionales característicos de algunas especies de triatominos. Sin embargo, el reporte de los patrones electroforéticos de proteínas salivales de las especies de Rhodnius ha sido escaso.Objetivo. Hacer un análisis comparativo de los perfiles electroforéticos unidimensionales de las proteínas salivales de R. colombiensis, R. pallescens, R. pictipes, R. prolixus y R. robustus.Materiales y métodos. Se obtuvieron los perfiles electroforéticos de la saliva de las especies en estudio mediante electroforesis en gel de poliacrilamida con dodecilsulfatosódico (Sodium Dodecyl Sulfate Polyacrylamide Gel Electrophoresis, SDS-PAGE) y se construyó un fenograma mediante el método UPGMA (Unweighted Pair Group Method Using Arithmetic Averages).Resultados. Los perfiles electroforéticos de las proteínas solubles de saliva presentaron bandas en un rango de masa aproximado de 15 a 45 kDa, los cuales permitieron diferenciar las cinco especies estudiadas. El fenograma reveló la existencia de dos grupos principales: uno conformado por los grupos cisandinos Pictipes y Prolixus y otro constituido por el grupo transandino Pallescens.Conclusiones. Existen diferencias en los perfiles electroforéticos de las proteínas salivales entre R. colombiensis, R. pallescens, R. pictipes, R. prolixus y R. robustus, cuya variabilidad permitió construir un fenograma congruente con los grupos del género Rhodnius.

scholarly journals Evaluation of Genetic Diversity in Barley (Hordeum vulgare) Genotypes using Protein Profiling

2018 ◽  
Vol 6 (1) ◽  
pp. 23-31
Author(s):  
Manal Eid
Keyword(s):  
Genetic Diversity ◽  
Hordeum Vulgare ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Protein Profiling ◽  
Protein Patterns ◽  
Systematic Classification ◽  
Molecular Weights ◽  
Sds Page ◽  
Solid Foundation

The knowledge of the genetic diversity of barley (Hordeum vulgare) genotypes based on protein polymorphism is very important for breeding programs. The purpose of the current study was to determine the genetic diversity and relationships among ten barley genotypes by using Sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) for protein profiles. A total number of 30 bands with molecular weights ranging from 12 to 148 KD were detected. Out of these, five bands were observed monomorphic. Rest of the bands had shown polymorphism to the extent of 83.3% among the test genotypes. The genetic similarity of the ten genotypes tested varied from 0.26 to 1.00 with an average of 0.51. Cluster analysis divided the ten genotypes into two major clusters comprising four subclusters, which was consistent with the systematic classification of barley done in previous studies. The results of this study indicated that the genotypes of barley could effectively be differentiated based on polymorphism, detected between protein patterns. SDS-PAGE presented a higher differentiation power and better repeatability; thus, could be used as a rapid and reliable method for genetic diversity analysis and laid a solid foundation for future barley breeding.

scholarly journals Revealing contrasting genetic variation and study of genetic diversity in urdbean (Vigna mungo (L.) Hepper) using SDS-PAGE of seed storage proteins

2016 ◽  
Vol 7 ◽  
Author(s):  
Swapan Kumar Tripathy ◽  
Priyadarshini Mohanty ◽  
Monalisha Jena ◽  
Gokul Bihari Dash ◽  
Kedareswar Pradhan ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Storage Protein ◽  
Storage Proteins ◽  
Seed Storage Protein ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Similarity Index ◽  
Seed Storage ◽  
Protein Profiling ◽  
Sds Page

<p><strong>Total seed storage protein profiles of 20 urdbean genotypes including the popular variety T9 were analysed by Sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE). 14 genotypes could be clearly identified based on genotype-specific seed protein fingerprints while rest of the test genotypes were categorized into three protein types. Dendrogram based on electrophoretic data clustered the genotypes into seven groups at 78.5% phenon level.  TU 95-1 with TU 12-25-4 revealed lowest similarity index value (0.33) followed by TU 95-1 with PU 30 and KU 96-3(SI=0.35). Clustering pattern revealed distinctly divergent group formed by TPU 95-1 and TPU 4. These may serve as a valuable source genotype in recombination breeding.   </strong></p><p><strong>Key words: </strong>Seed storage protein profiling, SDS-PAGE, Genetic variation, urdbean.<strong></strong></p>

scholarly journals Short Communication: Muscle protein bands resolved by Sarotherodon melanotheron from fresh and brackish water habitats

2018 ◽  
Vol 10 (1) ◽  
pp. 41-46
Author(s):  
R.N. OLADOSU-AJAYI ◽  
I.T. OMONIYI ◽  
H.E. DIENYE
Keyword(s):  
Fish Species ◽  
Brackish Water ◽  
Muscle Protein ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Electrophoretic Analysis ◽  
Molecular Weights ◽  
Sds Page ◽  
Taxonomic Criterion ◽  
Sarotherodon Melanotheron

Oladosu-Ajayi RN, Omoniyi IT, Dienye HE. 2018. Muscle protein bands resolved by Sarotherodon melanotheron from fresh and brackish water habitats. Nusantara Bioscience 10: 40-45. An electrophoretic analysis of muscle protein of Sarotherodon melanotheron from freshwater (Eleiyele Reservoir, Ibadan, Nigeria) and brackish water (Lekki Lagoon, Lagos, Nigeria) was carried out using the Sodium Dodecyl Sulphate Polyacrylamide Gel Electrophoresis (SDS-PAGE). The protein banding patterns for the fish species were distinguishable. The freshwater S. melanotheron samples displayed 15-22 protein bands with the male samples having the highest while the brackish water S. melanotheron samples displayed 13-20 protein bands with the female having the highest. The freshwater S. melanotheron were also observed to have resolved a higher range of protein bands of molecular weights ranging between 20 kd to 99 kd than the brackish water species, which resolved protein bands of lower molecular weights ranging between 20 kd to 95 kd. The electrophoretic analysis of muscle proteins revealed that SDS-PAGE can be considered a good taxonomic criterion to differentiate among and within fish species.

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