A5085436260- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- Plant and animal studies
- Microbial Community Ecology and Physiology
- Environmental DNA in Biodiversity Studies
- Chromosomal and Genetic Variations
- Molecular Biology Techniques and Applications
- Horticultural and Viticultural Research
- Forest Insect Ecology and Management
- Soybean genetics and cultivation
- Plant Disease Resistance and Genetics
- Genetic and Environmental Crop Studies
- Plant Ecology and Taxonomy Studies
- Rangeland and Wildlife Management
- Sunflower and Safflower Cultivation
- Phytoestrogen effects and research
- Species Distribution and Climate Change
- Fermentation and Sensory Analysis
- CRISPR and Genetic Engineering
- Botany, Ecology, and Taxonomy Studies
- Advanced biosensing and bioanalysis techniques
- RNA and protein synthesis mechanisms
University of Georgia
2015-2019
Vanderbilt University
2008
Massively parallel DNA sequencing offers many benefits, but major inhibitory cost factors include: (1) start-up (i.e., purchasing initial reagents and equipment); (2) buy-in getting the smallest possible amount of data from a run); (3) sample preparation. Reducing preparation costs is commonly addressed, are rarely addressed. We present dual-indexing systems to address all three these issues. By breaking library construction process into universal, re-usable, combinatorial components, we...
Molecular ecologists frequently use genome reduction strategies that rely upon restriction enzyme digestion of genomic DNA to sample consistent portions the from many individuals (e.g., RADseq, GBS). However, researchers often find existing methods expensive initiate and/or difficult implement consistently, especially because it is multiplex sufficient numbers samples fill entire sequencing lanes. Here, we introduce a low-cost and highly robust approach for construction dual-digest RADseq...
Next-generation sequencing (NGS) of amplicons is used in a wide variety contexts. In many cases, NGS amplicon remains overly expensive and inflexible, with library preparation strategies relying upon the fusion locus-specific primers to full-length adapter sequences single identifying sequence or ligating adapters onto PCR products. Adapterama I, we presented universal stubs produce thousands unique index combinations modifiable system for incorporating them into Illumina libraries. Here,...
Abstract Next-generation DNA sequencing (NGS) offers many benefits, but major factors limiting NGS include reducing costs of: 1) start-up (i.e., doing for the first time); 2) buy-in getting smallest possible amount of data from a run); and 3) sample preparation. Reducing preparation is commonly addressed, are rarely addressed. We present dual-indexing systems to address all three these issues. By breaking library construction process into universal, re-usable, combinatorial components, we...
The inheritance of mitochondrial genetic (mtDNA) markers in the gynodioecious plant Silene vulgaris was studied using a series controlled crosses between parents known mtDNA genotype followed by quantitative PCR assays offspring genotype. Overall, approximately 2.5% derived from individuals that were homoplasmic for different marker genotypes showed evidence paternal leakage. When source population pollen donor considered, however, population-specific rates leakage varied significantly...
Pueraria montana var. lobata, or kudzu, is an invasive species whose invasion in North America not genetically well characterized. The clonality of kudzu introduces challenges to population genetic analyses that can bias the assessment spatial patterns genotypes. Assessing diversity while considering necessary understand and spread its range.We screened 1747 individuals from 87 populations across range with 15 microsatellite markers a 789 bp chloroplast region. We performed detailed clonal...
Abstract Next-generation sequencing (NGS) of amplicons is used in a wide variety contexts. Most NGS amplicon remains overly expensive and inflexible, with library preparation strategies relying upon the fusion locus-specific primers to full-length adapter sequences single identifying sequence or ligating adapters onto PCR products. In Adapterama I , we presented universal stubs produce thousands unique index combinations modifiable system for incorporating them into Illumina libraries. Here,...
Abstract Molecular ecologists frequently use genome reduction strategies that rely upon restriction enzyme digestion of genomic DNA to sample consistent portions the from many individuals (e.g., RADseq, GBS). However, researchers often find existing methods expensive initiate and/or difficult implement consistently, especially due inability highly-multiplex samples fill entire sequencing lanes. Here, we introduce a low-cost and highly robust approach for construction dual-digest RADseq...
Premise of the study: To facilitate population genetic analyses, microsatellite markers were developed for pokeweed ( Phytolacca americana ), a large, weedy, perennial herb native to eastern North America that is emerging as significant invasive species in China. Methods and Results: We mined 1,100,538 Illumina MiSeq reads from genomic DNA microsatellites identified 58 primer pairs. screened these primers polymorphism two populations. 11 loci amplified consistently. The number alleles per...