Genome-wide genetic marker discovery and genotyping using next-generation sequencing

By J. Davey, Paul A Hohenlohe, Paul D. Etter, J. Boone, Julian Catchen, Mark L. Blaxter. Nature reviews genetics, 2011

2,384 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/06ab8ed106228655ad87a83af8545aff6c3afebc

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Citations in the corpus

Genetics and genomics of moso bamboo (Phyllostachys edulis): Current status, future challenges, and biotechnological opportunities toward a sustainable bamboo industry (2020, methodology): “This technique is a reduced dimension sequencing approach and is widely used for SNP identification and genotyping (Baird et al., 2008; Davey et al., 2011).”
DNA molecular markers in plant breeding: current status and recent advancements in genomic selection and genome editing (2018, background): “handling of samples and (V) includes less PCR and purification sets [81].”
High-Throughput SNP Genotyping to Accelerate Crop Improvement (2014, background): “…made possible by the large-scale deployment of new technologies for next-generation sequencing (NGS) and single-nucleotide polymorphism (SNP) genotyping (McCouch et al. 2010; Davey et al. 2011; Feuillet et al. 2011; Morrell et al. 2012; Poland and Rife 2012; Chen et al. 2013b; Huang et al. 2013).”
Stacks: an analysis tool set for population genomics (2013, methodology): “Investigators have employed these methods to move from painstakingly developing dozens of microsatellite markers to rapidly producing tens of thousands of single nucleotide polymorphism (SNP) markers (Davey et al. 2011; McCormack et al. 2013).”
rehh 2.0: a reimplementation of the R package rehh to detect positive selection from haplotype structure (2016, background): “While population geneticists were, until recently, limited by the amount of available data in a handful of presumably independent markers, they now have access to dense single nucleotide polymorphism (SNP) data in both model and nonmodel species (Davey et al. 2011).”
Status and utilisation of Moringa oleifera Lam: A review (2018, methodology): “Today, next generation sequencing (NGS) (Davey et al., 2011) is an approachable tool to discovery genome-wide genetic markers.”
SNP Discovery through Next-Generation Sequencing and Its Applications (2012, background): “There have been a number of approaches developed that use complexity reduction strategies to lower the cost and simplify the discovery of SNP markers using NGS, RNA-Seq, complexity reduction of polymorphic sequences (CRoPS), restriction-site-associated DNA sequencing (RAD-Seq), and GBS [118].”
Genomics of Origin, Domestication and Evolution of Phaseolus vulgaris (2014, background): “These new sequencing tools are also valuable for single nucleotide polymorphism (SNP) discovery and the detection of genetic markers in populations, which in turn, can be exploited in different studies (Davey et al. 2011).”
Restriction site‐associated DNA sequencing, genotyping error estimation and de novo assembly optimization for population genetic inference (2015, methodology): “3d, Table 3), can be accommodated as missing data and mitigated by appropriate statistical corrections (Pool et al. 2010; Davey et al. 2011), as is possible with principal components analysis, PCoA and STRUCTURE (Pritchard et al. 2000).”
Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two-Enzyme Genotyping-by-Sequencing Approach (2012, positive): “The development of new sequencing technologies has greatly increased the discovery of SNPs in many species [5], including important model and non-model crop plants such as rice [6] maize [7], soybean [8], common bean [9], and sorghum [10].”