scholarly journals Genetic Diversity Analysis of Soybean [Glycine max (L.) Merrill.] Germplasms in Bangladesh Using SSR Markers

2021 ◽  
Vol 13 (2) ◽  
pp. 1
Author(s):  
M. K. Khatun ◽  
M. A. Haque ◽  
M. A. Malek ◽  
M. H. Rashid ◽  
S. Islam ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Polymorphic Information Content ◽  
Mean Value ◽  
Ammonium Bromide ◽  
Diversity Analysis ◽  
Dna Ladder ◽  
Genetic Diversity Analysis ◽  
Soybean Genotypes ◽  
The Mean

The purpose of the present study was to investigate the genetic diversity and molecular characterization of 50 soybean genotypes in Bangladesh with 20 SSR markers. Genomic DNA was isolated by modified standard cetyl tri-methyl ammonium bromide (CTAB) extraction protocol and alleles were amplified by polymerase chain reaction (PCR). Allele sizes were estimated in comparison with 50 bp DNA ladder. The software NTSYSpc version 2.2 and POPGENE version 1.31 were utilized for molecular data analysis and preparation of dendrogram. Polymorphic Information Content (PIC) values varied from 0.53 (Satt664) to 0.98 (Satt009, Satt330 and Satt522) with the mean value 0.897 and expected heterozygosity varied from 0.4059 (Satt685) to 0.1246 (Satt664) with the mean value 0.244. The dendrogram analysis depicted that the 50 genotypes were grouped in four (4) major clusters. The most diverse genotypes were SBG-1, PM-78-6-3-13, BS-3 and AGS-31, which suggest that the simple sequence repeat (SSR) markers are very efficient for genetic diversity analysis. The similarity matrix revealed the diversity among genotypes. The diverse genetic materials obtained from the present study on genetic diversity of soybean genotypes in Bangladesh may be utilized in the future breeding programme.

scholarly journals Microsatellite based genetic variation among the buffalo breed populations in Pakistan

2017 ◽  
Vol 61 (4) ◽  
pp. 535-542 ◽  
Author(s):  
Tanveer Hussain ◽  
Masroor Ellahi Babar ◽  
Akhtar Ali ◽  
Asif Nadeem ◽  
Zia Ur Rehman ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Polymorphic Information Content ◽  
Mean Value ◽  
Diversity Analysis ◽  
Phenotypic Differentiation ◽  
Genetic Diversity Analysis ◽  
Expected Heterozygosity ◽  
The Mean ◽  
Average Gene

AbstractIntroduction: Eight microsatellite loci were used to define genetic diversity among five native water buffalo breeds in Pakistan.Material and Methods: Blood samples (10 mL) from 25 buffaloes of each of the Nili, Ravi, Nili-Ravi, Kundhi, and Azi-Kheli breeds were collected aseptically from the jugular vein into 50 ml Falcon tubes containing 200 μl of 0.5 M EDTA. The phenol-chloroform method was used to extract DNA and the regions were amplified for microsatellite analysis. The eight microsatellite markers ETH10, INRA005, ILSTS029, ILSTS033, ILSTS049, ILSTS052, ETH225, and CSSM66 were analysed.Results: The effective number of alleles across all loci was as usual lower than the observed values with a mean value of 2.52 alleles per locus. The overall allele frequency varied from 0.0041 for alleles B, I, and J over respective loci ILSTS052, INRA005, and ILSTS029 to 0.80 for allele H over locus ILSTS029. The average observed and expected heterozygosity values across all polymorphic loci in all studied buffalo breeds were 0.43 and 0.53, respectively. The overall value for polymorphic information content of considered microsatellite markers was 0.53, suggesting their appropriateness for genetic diversity analysis in buffalo. The mean Fis value was 0.13 and all loci except ILSTS049 were found significantly deviated from HWE, most likely due to non-random breeding. The five buffalo populations were genetically less diverse as indicated by a small mean Fst value (0.07). The average gene flow (Nm) indicative for population migration was calculated as 3.31. Nei’s original measures of genetic distance (Ds) revealed ancient divergence of the Nili and Azi-Kheli breeds (Ds = 0.1747) and recent divergence of the Nili and Ravi breeds (Ds = 0.0374).Conclusion: These estimates of genetic diversity were seen to coincide with phenotypic differentiation among the studied buffalo breeds. The present study reports the first microsatellite marker-based genetic diversity analysis in Pakistani buffalo breeds, and might facilitate similar studies in other livestock breeds of Pakistan.

scholarly journals Validation of Drought Tolerance Gene-linked Microsatellite Markers and Their Efficiency for Diversity Assessment in a Set of Soybean Genotypes

2021 ◽  
pp. 48-57
Author(s):  
Nishi Mishra ◽  
M. K. Tripathi ◽  
Niraj Tripathi ◽  
Sushma Tiwari ◽  
Neha Gupta ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Drought Tolerance ◽  
Ssr Markers ◽  
Diversity Analysis ◽  
Molecular Screening ◽  
Genetic Diversity Analysis ◽  
Drought Tolerant ◽  
Diversity Assessment ◽  
Soybean Genotypes ◽  
Tolerance Gene

Aim: Soybean is well-thought-out to be a major crop owing to its significant involvement as vegetable oil and protein in human diet. However, inopportunely, its production has been melodramatically declined attributable to the commonness of drought related stress. Study Design: During the present study a total of 53 soybean genotypes were selected. For molecular diversity analysis as well as validation total 12 SSR markers were used. Molecular screening of soybean genotypes was done to determine the efficiency of available markers in genetic diversity analysis as well as their validation on the basis of their association with drought tolerance gene. Place and Duration of the Study: The present study was conducted at Department of Plant Molecular Biology and Biotechnology, College of Agriculture, Gwalior, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior, M.P., India during the year 2018 - 2019. Methodology: Template DNA of all 53 selected soybean genotypes extracted for molecular screening. The current investigation has been accomplished to validate the available SSR markers with their efficiency in genetic diversity analysis in a set of soybean genotypes. Results: Among applied drought tolerance gene-linked 12 SSR molecular markers, the highest genetic diversity (0.6629) was noticed in Satt520 while lowest (0.0370) was in Satt557 with an average of 0. 3746.While, the highest PIC value was 0.5887 prearranged by Satt520 and lowest 0.0363 by Satt557 with the mean worth of 0.3063. Conclusion: Dendrogram constructed on the basis of banding profile of employed markers was able to discriminate some putative drought tolerant genotypes i.e., JS97-52, JS95-60 from rest of the genotypes. The results of the present examination may donate towards enhancement of soybean genotypes to bread drought tolerant varieties.

Genetic diversity analysis among soybean genotypes using SSR markers in Uganda

2020 ◽  
Vol 19 (7) ◽  
pp. 439-448
Author(s):  
Mukuze Clever ◽  
Tukamuhabwa Phinehas ◽  
Maphosa Mcebisi ◽  
Dari Shorai ◽  
Onziga Dramadri Isaac ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Diversity Analysis ◽  
Genetic Diversity Analysis ◽  
Soybean Genotypes

scholarly journals Genetic diversity analysis of soybean (Glycine max (L.) Merr.) genotypes making use of SSR markers

2019 ◽  
pp. 1113-1119
Author(s):  
Keitumetse Kujane ◽  
Moosa M Sedibe ◽  
Alina Mofokeng
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Polymorphic Information Content ◽  
Molecular Data ◽  
Dna Ladder ◽  
Ssr Primers ◽  
Soybean Genotypes ◽  
Glycine Max L ◽  
Simple Sequence ◽  
Selection Of

In this study, we aimed to investigate the genetic diversity and polymorphism among 30 soybean genotypes maintained by the ARC using simple sequence repeat (SSR) markers. Soybean genotypes were characterized using 20 SSR primers. DNA was extracted using the standard cetyl trimethylammonium bromide method and amplified using PCR. Allele size was determined via comparison with a 100 base pair (bp) DNA ladder. Molecular data were analyzed, and a dendrogram and matrix were generated using GGT 2.0 software. A total of 216 alleles with an average of 10.8 alleles per locus were detected. The allele sizes ranged between 2 and 33 bp with an average of 18.7 bp. The polymorphic information content among genotypes varied from 0.85 (Satt001) to 0.75 (Satt43) with an average of 0.716, and heterozygosity ranged from 0.87 to 0.78 with an average of 0.7485. The most diverse genotypes were B 66 S 31, 69S 7, and R5-4-2 M, which indicated the efficiency of the SSR markers for the detection of genetic diversity. The results of the current study revealed the diversity among the soybean genotypes tested, which might aid breeders in the future in the selection of parents for breeding.

scholarly journals Genetic Diversity Analysis and F2 Population Development for Breeding of Long Juvenile Trait in Soybean

2018 ◽  
Vol 14 (1) ◽  
pp. 11 ◽  
Author(s):  
I Made Tasma ◽  
N. P. Mega Gena Yani ◽  
Rosliana Purwaningdyah ◽  
Dani Satyawan ◽  
Kristianto Nugroho ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Segregation Ratio ◽  
Genetic Distances ◽  
Day Length ◽  
Diversity Analysis ◽  
Genetic Diversity Analysis ◽  
F2 Population ◽  
Soybean Genotypes ◽  
The Usa

<p>Genetic diversity analysis using molecular markers is an important step for selecting appropriate parents in a soybean breeding program. The aims of this study were to (1) analyze genetic diversity of 29 soybean genotypes assessed with 27 SSR markers for selecting appropriate parents and (2) develop F2 populations to be used for breeding long juvenile (LJ) trait in soybean to<br />be cultivated in short photoperiod condition. The soybean genotypes used consisted of 11 Indonesian soybean genotypes and 18 genotypes introduced from the USA. F2 populations were developed by crossing Grobogan with three introduced genotypes carrying LJ character. The PIC values of the 27 SSR markers ranged from 0.87 to 0.96. Cluster analysis resulted in three main<br />clusters at coefficient similarity of 0.76. The five LJ introduced accessions and the nine Indonesian genotypes showed high genetic distances and are useful as parent pairs for developing breeding populations. The F1 progeny phenotypic<br />performances of the cross far exceeded the performaces of both parents. Three F2 populations were developed by crossing the distantly related soybean genotypes. The F2 populations were verified by using SSR markers and it was found that they segregated in a 1:2:1 ratio confirming the segregation ratio of codominant SSR markers. The F2 populations should be useful for breeding LJ characters to improve soybean productivity in low latitude tropical countries such as Indonesia, which has day length of approximately 12 h all year round.</p>

scholarly journals Population structure and genetic diversity analysis in Sali (Oryza sativa) rice germplasm of Assam using microsatellite markers

2021 ◽  
Vol 58 (2) ◽  
pp. 279-286
Author(s):  
Sandhani Saikia ◽  
Pratap Jyoti Handique ◽  
Mahendra K Modi
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Genetic Improvement ◽  
Crop Improvement ◽  
Mean Value ◽  
Diversity Analysis ◽  
Rice Cultivars ◽  
Improvement Program ◽  
Information Index ◽  
Improvement Programs

Genetic diversity is the source of novel allelic combinations that can be efficiently utilized in any crop improvement program. To facilitate future crop improvement programs in rice, a study was designed to identify the underlying genetic variations in the Sali rice germplasms of Assam using SSR markers. The 129 SSR markers that were used in the study amplified a total of 765 fragments with an average of 5.93 alleles per locus. The Shannon's Information Index was found to be in the range from 0.533 to 1.786. The Polymorphism Information Content (PIC) fell into the range from 0.304 to 0.691 with a mean value of 0.55. The overall FST value was found to be 0.519 that indicated the presence of genetic differentiation amongst the genotypes used in the study. The Sali population was divided into two clusters. The information obtained from the present study will facilitate the genetic improvement of Sali rice cultivars.

scholarly journals Genetic Diversity Analysis of Peach [Prunus persica (L.) Batsch] Varieties Using SSR Markers

2013 ◽  
Vol 45 (3) ◽  
pp. 201-211 ◽  
Author(s):  
Jee-Hwa Hong ◽  
Seung-In Yi ◽  
Yong-Sham Kwon ◽  
Young Kim ◽  
Keun-Jin Choi
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Prunus Persica ◽  
Diversity Analysis ◽  
Genetic Diversity Analysis

scholarly journals Genetic diversity of cultivated and wild-type peanuts evaluated with M13-tailed SSR markers and sequencing

2007 ◽  
Vol 89 (2) ◽  
pp. 93-106 ◽  
Author(s):  
NOELLE A. BARKLEY ◽  
ROB E. DEAN ◽  
ROY N. PITTMAN ◽  
MING L. WANG ◽  
CORLEY C. HOLBROOK ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Polymorphic Information Content ◽  
Data Set ◽  
Mini Core Collection ◽  
Genomic Ssr ◽  
Cultivated Peanut ◽  
The Mean ◽  
Wild Accessions ◽  
Almost All

SummaryThirty-one genomic SSR markers with a M13 tail attached were used to assess the genetic diversity of the peanut mini core collection. The M13-tailed method was effective in discriminating almost all the cultivated and wild accessions. A total of 477 alleles were detected with an average of 15·4 alleles per locus. The mean polymorphic information content (PIC) score was 0·687. The cultivated peanut (Arachis hypogaea L.) mini core produced a total of 312 alleles with an average of 10·1 alleles per locus. A neighbour-joining tree was constructed to determine the interspecific and intraspecific relationships in this data set. Almost all the peanut accessions in this data set classified into subspecies and botanical varieties such as subsp. hypogaea var. hypogaea, subsp. fastigiata var. fastigiata, and subsp. fastigiata var. vulgaris clustered with other accessions with the same classification, which lends further support to their current taxonomy. Alleles were sequenced from one of the SSR markers used in this study, which demonstrated that the repeat motif is conserved when transferring the marker across species borders. This study allowed the examination of the diversity and phylogenetic relationships in the peanut mini core which has not been previously reported.

Development of EST-SSR markers and genetic diversity analysis among three Artemia species from different geographic populations

Crustaceana ◽  
2019 ◽  
Vol 92 (7) ◽  
pp. 841-851
Author(s):  
Xuekai Han ◽  
Ruyi Xu ◽  
Yuyu Zheng ◽  
Meirong Gao ◽  
Liying Sui
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Expressed Sequence Tags ◽  
Polymorphic Information Content ◽  
Diversity Analysis ◽  
Food Items ◽  
Geographical Populations ◽  
Geographic Populations ◽  
Expressed Sequence ◽  
Simple Sequence

Abstract Artemia is one of the most important live food items used in larviculture. In order to study the genetic diversity of Artemia in China, 170 novel simple sequence repeats (SSR) markers were identified from expressed sequence tags (ESTs) of the transcriptome library of Artemia parthenogenetica. Of these, 8 microsatellite loci were developed to characterize three geographical populations of Artemia. The results showed the expected and observed heterozygosity varied from 0.43 to 0.50 and from 0.59 to 0.64, respectively. The PIC (polymorphic information content) ranged from 0.37 to 0.45. These observations indicated that the Yuncheng population has the highest genetic diversity, whereas the Shuanghu population has the lowest. The Fst value (genetic differentiation coefficient) indicated that the three populations are highly differentiated. Genetic identity analyses revealed that the Yuncheng and Shuanghu populations have the closest relationship. The SSR markers described here will serve as a valuable tool for further studies in population and conservation genetics on Artemia.

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