scholarly journals Genetic Diversity Study of African Rice (Oryza glaberrima) and its Wild Relatives using Microsatellites Markers

2021 ◽  
pp. 75-87
Author(s):  
David Montcho ◽  
Mounirou Sow ◽  
Olufisayo Kolade ◽  
Roland Bocco ◽  
Clement Agbangla
Keyword(s):  
Genetic Diversity ◽  
Polymorphic Information Content ◽  
Wild Relatives ◽  
Oryza Glaberrima ◽  
Molecular Tools ◽  
Microsatellites Markers ◽  
Polymorphic Microsatellites ◽  
Locus Number ◽  
Genetic Diversity Study ◽  
Diversity Study

The Africa Rice Center Gene Bank hold about 2,500 accessions of Oryza glaberrima. To understand well the genetic diversity in O. glaberrima and its wild species, the use of molecular tools is prominent. The sample consisted of 217 accessions of O. glaberrima, 46 of O. barthii and 7 of O. sativa (checks) was genotyped with 21 polymorphic microsatellites markers. A total of 245 alleles were detected with average 11.67 alleles per locus. Number of alleles was ranged from 2 (RM124) to 20 (RM536). The polymorphic information content value was 0.49 while the heterozygosity was 0.091. The result showed that the sample can be clustered into four genotypic groups. Two groups among them were homogeneous. The first one consisted of O. barthii accessions with 82 alleles in total with average 3.90 alleles per locus. However, the second one consisted of only O. glaberrima accessions with 122 alleles with average 5.80 alleles per locus. O. glaberrima accessions were analyzed using model-based population structure. Results revealed two groups among O. glaberrima accessions. At the end, the identified core collection has 26 accessions consisted of 16 O. glaberrima and 10 O. barthii based on 21 microsatellites markers.

scholarly journals Isolation and Characterization of Microsatellite Loci of Clarias macrocephalus and Their Application to Genetic Diversity Study

1999 ◽  
Vol 65 (4) ◽  
pp. 520-526 ◽  
Author(s):  
Uthairat Na-Nakorn ◽  
Nobuhiko Taniguchi ◽  
Estu Nugroho ◽  
Shingo Seki ◽  
Wongpathom Kamonrat
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Loci ◽  
Isolation And Characterization ◽  
Clarias Macrocephalus ◽  
Genetic Diversity Study ◽  
Diversity Study

scholarly journals Molecular diversity analysis in hexaploid wheat (Triticum aestivum L.) and two Aegilops species (Aegilops crassa and Aegilops cylindrica) using CBDP and SCoT markers

2021 ◽  
Vol 19 (1) ◽  
Author(s):  
Ghazal Ghobadi ◽  
Alireza Etminan ◽  
Ali Mehras Mehrabi ◽  
Lia Shooshtari
Keyword(s):  
Genetic Diversity ◽  
Triticum Aestivum ◽  
Gene Diversity ◽  
Polymorphic Information Content ◽  
Crop Improvement ◽  
Wild Relatives ◽  
Resolving Power ◽  
Start Codon ◽  
Aegilops Cylindrica ◽  
Aegilops Crassa

Abstract Background Evaluation of genetic diversity and relationships among crop wild relatives is an important task in crop improvement. The main objective of the current study was to estimate molecular variability within the set of 91 samples from Triticum aestivum, Aegilops cylindrica, and Aegilops crassa species using 30 CAAT box–derived polymorphism (CBDP) and start codon targeted (SCoT) markers. Results Fifteen SCoT and Fifteen CBDP primers produced 262 and 298 fragments which all of them were polymorphic, respectively. The number of polymorphic bands (NPB), polymorphic information content (PIC), resolving power (Rp), and marker index (MI) for SCoT primers ranged from 14 to 23, 0.31 to 0.39, 2.55 to 7.49, and 7.56 to 14.46 with an average of 17.47, 0.34, 10.44, and 5.69, respectively, whereas these values for CBDP primers were 15 to 26, 0.28 to 0.36, 3.82 to 6.94, and 4.74 to 7.96 with a mean of 19.87, 0.31, 5.35, and 6.24, respectively. Based on both marker systems, analysis of molecular variance (AMOVA) indicated that the portion of genetic diversity within species was more than among them. In both analyses, the highest values of the number of observed (Na) and effective alleles (Ne), Nei’s gene diversity (He), and Shannon’s information index (I) were estimated for Ae. cylindrica species. Conclusion The results of cluster analysis and population structure showed that SCoT and CBDP markers grouped all samples based on their genomic constitutions. In conclusion, the used markers are very effective techniques for the evaluation of the genetic diversity in wild relatives of wheat.

A genetic diversity study of silkworm using cleaved amplified polymorphic sequence (CAPS) markers

2006 ◽  
Vol 34 (12) ◽  
pp. 868-874 ◽  
Author(s):  
Jianhua Huang ◽  
Muwang Li ◽  
Yong Zhang ◽  
Wenbin Liu ◽  
Minghui Li ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cleaved Amplified Polymorphic Sequence ◽  
Caps Markers ◽  
Genetic Diversity Study ◽  
Diversity Study

Efficiency of phenotypic and DNA markers for a genetic diversity study of alfalfa

2010 ◽  
Vol 46 (11) ◽  
pp. 1314-1319 ◽  
Author(s):  
M. Tucak ◽  
S. Popović ◽  
T. Čupić ◽  
S. Grljušić ◽  
V. Meglič ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Dna Markers ◽  
Genetic Diversity Study ◽  
Diversity Study

scholarly journals Genetic Diversity in Australian Populations of Puccinia graminis f. sp. avenae

2006 ◽  
Vol 96 (1) ◽  
pp. 96-104 ◽  
Author(s):  
F. J. Keiper ◽  
M. S. Haque ◽  
M. J. Hayden ◽  
R. F. Park
Keyword(s):  
Genetic Diversity ◽  
Stem Rust ◽  
Causal Agent ◽  
Puccinia Graminis ◽  
Wheat Stem Rust ◽  
Historical Group ◽  
Rust Pathogens ◽  
Genetic Diversity Study ◽  
Dynamic Population ◽  
Diversity Study

Sequence-tagged microsatellite profiling was used to develop 110 microsatellites for Puccinia graminis f. sp. tritici (causal agent of wheat stem rust). Low microsatellite polymorphism was exhibited among 10 pathogenically diverse P. graminis f. sp. tritici isolates collected from Australian cereal growing regions over a period of at least 70 years, with two polymorphic loci detected, each revealing two alleles. Limited cross-species amplification was observed for the wheat rust pathogens, P. triticina (leaf rust) and P. striiformis f. sp. tritici (stripe rust). However, very high transferability was revealed with P. graminis f. sp. avenae (causal agent of oat stem rust) isolates. A genetic diversity study of 47 P. graminis f. sp. avenae isolates collected from an Australia-wide survey in 1999, and a historical group of 16 isolates collected from Australian cereal growing regions from 1971 to 1996, revealed six polymorphic microsatellite loci with a total of 15 alleles. Genetic analysis revealed the presence of several clonal lineages and subpopulations in the pathogen population, and wide dispersal of identical races and genotypes throughout Australian cereal-growing regions. These findings demonstrated the dynamic population structure of this pathogen in Australia and concur with the patterns of diversity observed in pathogenicity studies.

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