scholarly journals The Application and Performance of Single Nucleotide Polymorphism Markers for Population Genetic Analyses of Lepidoptera

2011 ◽  
Vol 2 ◽  
Author(s):  
Brad Steven Coates ◽  
Darrell O. Bayles ◽  
Kevin W. Wanner ◽  
Hugh M. Robertson ◽  
Richard L. Hellmich ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Population Genetic ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Genetic Analyses ◽  
And Performance ◽  
Population Genetic Analyses

scholarly journals A Highly Polymorphic Panel Consisting of Microhaplotypes and Compound Markers with the NGS and Its Forensic Efficiency Evaluations in Chinese Two Groups

Genes ◽  
2020 ◽  
Vol 11 (9) ◽  
pp. 1027
Author(s):  
Xiaoye Jin ◽  
Xingru Zhang ◽  
Chunmei Shen ◽  
Yanfang Liu ◽  
Wei Cui ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Markers ◽  
Population Genetic ◽  
Indel Polymorphism ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Forensic Research ◽  
Expected Heterozygosity ◽  
Forensic Efficiency ◽  
Population Genetic Analyses

Novel genetic markers like microhaplotypes and compound markers show promising potential in forensic research. Based on previously reported single nucleotide polymorphism (SNP) and insertion/deletion (InDel) polymorphism loci, 29 genetic markers including 22 microhaplotypes and seven compound markers were identified. Genetic distributions of the 29 loci in five continental populations, Kazak and Mongolian groups in China were investigated. We found that the expected heterozygosity values of these 29 loci were >0.4 in these populations, indicating these loci were relatively high polymorphisms. Population genetic analyses of five continental populations showed that five loci displayed relatively high genetic variations among these continental populations and could be useful markers for ancestry analysis. In summary, the 29 loci displayed relatively high genetic diversities in continental populations and Chinese two groups and could be informative loci for forensic research.

scholarly journals No evidence for intermolecular recombination in human fibroblast and blood mtDNA from individuals with biparental mtDNA transmission

2020 ◽  
Author(s):  
Baoheng Gui ◽  
Zeyu Yang ◽  
Shiyu Luo ◽  
Jesse Slone ◽  
Sushma Nagaraj ◽  
...  
Keyword(s):  
Molecular Evolution ◽  
Single Molecule ◽  
Population Genetic ◽  
Genetic Recombination ◽  
Phylogenetic Reconstruction ◽  
Sequencing Technology ◽  
Single Nucleotide ◽  
Genetic Analyses ◽  
Human Mitochondrial Genome ◽  
Population Genetic Analyses

AbstractStrictly maternal inheritance and lack of intermolecular recombination of the human mitochondrial genome (mtDNA) are the assumed preconditions for molecular evolution studies, phylogenetic reconstruction and population genetic analyses. This hypothesis, however, has been challenged by investigations providing evidence for genetic recombination of mtDNA, thus sparking controversy. Using single-molecule real-time (SMRT) sequencing technology, we sequenced the entire mtDNA from blood and fibroblast cells from five individuals with biparental mtDNA transmission in three separate, multiple-generation families. After phasing the single nucleotide polymorphism (SNP) genotypes of mtDNA, no intermolecular recombination between paternal and maternal mtDNA was found when the mtDNA was transmitted in either biparental or maternal mode. Our study provides support for the argument that intermolecular mtDNA recombination is absent or extremely rare in humans. As a consequence, these results support the feasibility of mtDNA-based molecular evolution studies and phylogenetic and population genetic analyses for humans, while also avoiding inaccurate phylogenetic inferences and incorrect rejection of the molecular clock.

scholarly journals Single‐Nucleotide Polymorphism–Based Population Genetic Analysis ofMycobacterium tuberculosisStrains from 4 Geographic Sites

2006 ◽  
Vol 193 (1) ◽  
pp. 121-128 ◽  
Author(s):  
Michaela M. Gutacker ◽  
Barun Mathema ◽  
Hanna Soini ◽  
Elena Shashkina ◽  
Barry N. Kreiswirth ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Analysis ◽  
Population Genetic ◽  
Nucleotide Polymorphism ◽  
Population Genetic Analysis ◽  
Single Nucleotide

scholarly journals Comparative Performance of Single Nucleotide Polymorphism and Microsatellite Markers for Population Genetic Analysis

2009 ◽  
Vol 100 (5) ◽  
pp. 556-564 ◽  
Author(s):  
Brad S. Coates ◽  
Douglas V. Sumerford ◽  
Nicholas J. Miller ◽  
Kyung S. Kim ◽  
Thomas W. Sappington ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Analysis ◽  
Microsatellite Markers ◽  
Population Genetic ◽  
Nucleotide Polymorphism ◽  
Population Genetic Analysis ◽  
Comparative Performance ◽  
Single Nucleotide

scholarly journals Waste not, want not: microsatellites remain an economical and informative technology for conservation genetics

2021 ◽  
Author(s):  
Samantha Hauser ◽  
Giridhar Athrey ◽  
Paul Leberg
Keyword(s):  
Genetic Diversity ◽  
Population Genetic ◽  
Genetic Research ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Genetic Analyses ◽  
Source Populations ◽  
Landscape Genetic ◽  
Source Sink ◽  
Population Genetic Analyses

Comparisons of microsatellite and single-nucleotide polymorphisms (SNPs) have found that SNPs outperform microsatellites in population genetic analyses, calling into the question the continued utility of microsatellites in population and landscape genetics. Yet highly polymorphic markers may be of value in species that have reduced genetic variation. This study repeated analyses previously done using microsatellites with SNPs developed from ddRAD sequencing in the black-capped vireo source-sink system. SNPs provided greater resolution of genetic diversity, population differentiation, and migrant detection but could not reconstruct parentage relationships due to insufficient heterozygosities. The biological inferences made by both sets of markers were similar: asymmetrical gene flow from source populations to the remaining sink populations. With the landscape genetic analyses, we found different results between the two molecular markers, but associations of the top environmental features (riparian, open habitat, agriculture, and human development) with dispersal estimates were shared between marker types. Despite the higher precision of SNPs, we find that microsatellites effectively uncover population processes and patterns and are superior for parentage analyses in this species with reduced genetic diversity. This study illustrates the continued applicability and relevance of microsatellites in population genetic research.

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