Microsatellite Gene Diversity Analysis in Landlocked Arctic Char from Maine

2002 ◽  
Vol 131 (6) ◽  
pp. 1106-1118 ◽  
Author(s):  
Louis Bernatchez ◽  
James G. Rhydderch ◽  
Frederick W. Kircheis
Keyword(s):  
Gene Diversity ◽  
Arctic Char ◽  
Diversity Analysis

Microsatellite gene diversity analysis in anadromous arctic char, Salvelinus alpinus, from Labrador, Canada

1998 ◽  
Vol 55 (5) ◽  
pp. 1264-1272 ◽  
Author(s):  
Louis Bernatchez ◽  
J Brian Dempson ◽  
Sylvain Martin
Keyword(s):  
Mitochondrial Dna ◽  
Salvelinus Alpinus ◽  
Gene Diversity ◽  
Arctic Char ◽  
Diversity Analysis ◽  
Fine Scale ◽  
Geographic Scale ◽  
Scale Population ◽  
Population Structuring ◽  
Heterozygous Deficiency

We analysed six loci among 257 Arctic char (Salvelinus alpinus) representing seven locations in Labrador and Newfoundland to provide a first assessment of microsatellites gene diversity in anadromous char and to determine the geographic scale of population structuring within the species. The number of alleles per locus varied between 9 and 48, and gene diversity ranged from 0.190 to 0.968. Significant FST and differences in allele frequencies were observed among most samples, as well as heterozygous deficiency, which was indicative of a Wahlund's effect. These results implied the existence of genetically distinct populations on a microgeographic scale (less than 10 km) and that our samples represented an admixture of char from those populations that interchange among rivers for owerwintering, in congruence with tagging investigations. These results indicate that microsatellites potentially offer more sensitivity than allozymes and mitochondrial DNA to infer fine-scale population structure in anadromous arctic char.

Molecular Diversity Analysis of Lentil (Lens culinaris Medik.) through RAPD Markers

2012 ◽  
Vol 22 (1) ◽  
pp. 51-58 ◽  
Author(s):  
M.E. Hoque ◽  
M.M. Hasan
Keyword(s):  
Genetic Distance ◽  
Rapd Markers ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Genetic ◽  
Group Method ◽  
Diversity Analysis ◽  
Pair Group ◽  
Molecular Genetic Diversity

Random Amplified Polymorphic DNA (RAPD) markers were used to study the molecular genetic diversity analysis among six BARI released lentil varieties viz. BARI masur-1, BARI masur-2, BARI masur-3, BARI masur-4, BARI masur-5 and BARI masur-6. PCR amplified products were visualized on 1.0% agarose gel and the band for each primer were scored. Ten RAPD markers were used in this study. Out of them 7 primers showed amplification of 53 DNA fragments with 60.37% of them being polymorphic. The highest number of polymorphic loci was noticed in the variety BARI masur-3. The same variety also showed maximum Nei’s gene diversity value (0.0552). The highest Nei’s genetic distance (0.5002) was observed in BARI masur-1 vs. BARI masur-5 whereas, the lowest genetic distance (0.0692) was found in BARI masur-1 vs. BARI masur-2. The unweighted pair group method of arithmetic mean (UPGMA) dendrogram based on Nei’s genetic distance grouped the six cultivars into two main clusters. BARI masur-1, BARI masur-2 and BARI masur-3 were in cluster I and BARI masur-4, BARI masur-5 and BARI masur-6 were in cluster II. The cultivar BARI masur-4 was closest to the cultivar BARI masur-6 with the lowest genetic distance (0.0972) and the highest genetic distance (0.5002) was found between BARI masur-1 and BARI masur-5. The RAPD markers were found to be useful in molecular characterization of lentil varieties which could be utilized by the breeders for the improvement of lentil cultivars. DOI: http://dx.doi.org/10.3329/ptcb.v22i1.11260 Plant Tissue Cult. & Biotech. 22(1): 51-58, 2012 (June)

scholarly journals An RNA Sequencing Transcriptome Analysis and Development of EST-SSR Markers in Chinese Hawthorn through Illumina Sequencing

Forests ◽  
2019 ◽  
Vol 10 (2) ◽  
pp. 82 ◽  
Author(s):  
Suliya Ma ◽  
Wenxuan Dong ◽  
Tong Lyu ◽  
Yingmin Lyu
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Gene Diversity ◽  
Low Cost ◽  
Polymorphism Analysis ◽  
Diversity Analysis ◽  
Large Set ◽  
Mean Values ◽  
Genetic Diversity Analysis ◽  
Geographical Regions

Chinese hawthorn (Crataegus pinnatifida) is an important ornamental and economic horticultural plant. However, the lack of molecular markers has limited the development and utilization of hawthorn germplasm resources. Simple sequence repeats (SSRs) derived from expressed sequence tags (ESTs) allow precise and effective cultivar characterization and are routinely used for genetic diversity analysis. Thus, we first reported the development of polymorphic EST-SSR markers in C. pinnatifida with perfect repeats using Illumina RNA-Seq technique. In total, we investigated 14,364 unigenes, from which 5091 EST-SSR loci were mined. Di-nucleotides (2012, 39.52%) were the most abundant SSRs, followed by mono- (1989, 39.07%), and tri-nucleotides (1024, 20.11%). On the basis of these EST-SSRs, a total of 300 primer pairs were designed and used for polymorphism analysis in 70 accessions collected from different geographical regions of China. Of 239 (79.67%) pairs of primer-generated amplification products, 163 (54.33%) pairs of primers showed polymorphism. Finally, 33 primers with high polymorphism were selected for genetic diversity analysis and tested on 70 individuals with low-cost fluorescence-labeled M13 primers using capillary electrophoresis genotyping platform. A total of 108 alleles were amplified by 33 SSR markers, with the number of alleles (Na) ranging from 2 to 14 per locus (mean: 4.939), and the effective number of alleles (Ne) ranging from 1.258 to 3.214 (mean: 2.221). The mean values of gene diversity (He), observed heterozygosity (Ho), and polymorphism information content (PIC) were 0.524 (range 0.205–0.689), 0.709 (range 0.132–1.000), and 0.450 (range 0.184–0.642), respectively. Furthermore, the dendrogram constructed based on the EST-SSR separated the cultivars into two main clusters. In sum, our study was the first comprehensive study on the development and analysis of a large set of SSR markers in hawthorn. The results suggested that the use of NGS techniques for SSR development represented a powerful tool for genetic studies. Additionally, fluorescence-labeled M13 markers proved to be a valuable method for genotyping. All of these EST-SSR markers have agronomic potential and constitute a scientific basis for future studies on the identification, classification, and innovation of hawthorn germplasms.

scholarly journals Genetic Diversity Analysis in Chickpea (Cicer arietinum L) Genotypes Grown in Northwestern Algeria using Microsatellite Markers (SSR)

2019 ◽  
Author(s):  
Bouri Amina ◽  
Mediouni Mohammed Rida ◽  
Ameur Ameur Abdelkader ◽  
Udupa Sripada ◽  
Gaouar Souheil Bechir Semir
Keyword(s):  
Genetic Diversity ◽  
Information Content ◽  
Cicer Arietinum ◽  
Gene Diversity ◽  
Polymorphic Information Content ◽  
Geographic Origin ◽  
Diversity Analysis ◽  
Factorial Correspondence Analysis ◽  
Genetic Diversity Analysis ◽  
Cicer Arietinum L

The present study aimed to characterize a subset of 10 selected chickpea accessions (Cicer arietinum L.) using SSR. The result indicated a presence of a total of 59 alleles. The genetic diversity at the 15 microsatellites loci was varied from 0, 32 for TA22 to 0.78 for TA72 and TA117 with an average of 0.66. Polymorphic information content (PIC) values ranged from 0.27 to 0.74. This study also detected a high significant (P less than 0.01) positive correlation between alleles per locus, gene diversity (H) and polymorphism information content (PIC). In the dendrogram and on the PCoA bi-plots, chickpea genotypes were adjoined according to their geographic origin, type of chickpea (Kabuli/ Desi). Nevertheless, the distribution of the different grouping through the factorial correspondence analysis (AFC) is due to the genetic variability.

Coconut Microsatellite Gene Diversity Analysis Technology Transfer to Cote D’ivoire

2007 ◽  
Vol 6 (3) ◽  
pp. 383-388 ◽  
Author(s):  
Konan K. Jean Noel ◽  
Konan K. Jean Lois ◽  
Koffi K. Edmond ◽  
Patricia Lebrun ◽  
Sangare Abdouraham
Keyword(s):  
Technology Transfer ◽  
Cote D'ivoire ◽  
Côte D’Ivoire ◽  
Gene Diversity ◽  
Diversity Analysis ◽  
Cote D’Ivoire ◽  
Côte D'ivoire

scholarly journals The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level

2018 ◽  
Vol 46 (W1) ◽  
pp. W282-W288 ◽  
Author(s):  
Luis M Rodriguez-R ◽  
Santosh Gunturu ◽  
William T Harvey ◽  
Ramon Rosselló-Mora ◽  
James M Tiedje ◽  
...  
Keyword(s):  
Gene Diversity ◽  
Diversity Analysis ◽  
Whole Genome ◽  
Microbial Genomes ◽  
Genome Level

scholarly journals GENETIC STRUCTURE OF PILEOLARIA PSEUDOMILITARIS (POLYCHAETA: SPIRORBIDAE)

Genetics ◽  
1980 ◽  
Vol 96 (3) ◽  
pp. 711-726
Author(s):  
Richard Beckwitt
Keyword(s):  
Genetic Structure ◽  
Founder Effect ◽  
Gene Diversity ◽  
Phosphoglucose Isomerase ◽  
Diversity Analysis ◽  
Habitat Types ◽  
Gene Frequencies ◽  
Selection Pressures ◽  
Subdivided Population

ABSTRACT The genetic structure of Pileolaria pseudomilitaris was studied by means of gene-diversity analysis of allozyme frequencies. At an esterase locus, most of the gene diversity was due to subdivision of the population into colonies and subpopulations separated by less than 100 meters. Gene frequencies at a phosphoglucose isomerase locus were similar over many kilometers, but differed between two habitat types. Differences between colonies are attributed to drift and founder effect; similarities over greater distances are attributed to similar selection pressures. A mathematical appendix details the method of gene diversity analysis for a multi-leveled, hierarchically subdivided population.

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