Search Results - "Willis, Stuart"

One species or four? Yes!...and, no. Or, arbitrary assignment of lineages to species obscures the diversification processes of Neotropical fishes by Willis, Stuart C

“…Species are fundamental units in many biological disciplines, but there is continuing disagreement as to what species are, how to define them, and even whether…”
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These aren’t the loci you’e looking for: Principles of effective SNP filtering for molecular ecologists by O'Leary, Shannon J., Puritz, Jonathan B., Willis, Stuart C., Hollenbeck, Christopher M., Portnoy, David S.

“…Sequencing reduced‐representation libraries of restriction site‐associated DNA (RADseq) to identify single nucleotide polymorphisms (SNPs) is quickly becoming…”
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Estimating microhaplotype allele frequencies from low-coverage or pooled sequencing data by Delomas, Thomas A, Willis, Stuart C

“…Abstract Background Microhaplotypes have the potential to be more cost-effective than SNPs for applications that require genetic panels of highly variable…”
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Interrelationships and biogeography of the New World pufferfish genus Sphoeroides (Tetraodontiformes: Tetraodontidae) inferred using ultra-conserved DNA elements by Hunt, Elizabeth P., Willis, Stuart C., Conway, Kevin W., Portnoy, David S.

“…[Display omitted] •Sphoeroides (Tetraodontidae) is recovered as paraphyletic.•Colomesus should be considered a junior synonym of Sphoeroides.•Sphoeroides…”
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Haplotyping RAD loci: an efficient method to filter paralogs and account for physical linkage by Willis, Stuart C., Hollenbeck, Christopher M., Puritz, Jonathan B., Gold, John R., Portnoy, David S.

“…Next‐generation sequencing of reduced‐representation genomic libraries provides a powerful methodology for genotyping thousands of single‐nucleotide…”
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Simultaneous delimitation of species and quantification of interspecific hybridization in Amazonian peacock cichlids (genus cichla) using multi-locus data by Willis, Stuart C, Macrander, Jason, Farias, Izeni P, Ortí, Guillermo

“…Introgression likely plays a significant role in evolution, but understanding the extent and consequences of this process requires a clear identification of…”
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TESTING MITOCHONDRIAL CAPTURE AND DEEP COALESCENCE IN AMAZONIAN CICHLID FISHES (CICHLIDAE: CICHLA) by Willis, Stuart C., Farias, Izeni P., Ortí, Guillermo

“…Hybridization and introgression have important consequences in evolution, such as increasing the genetic diversity and adaptive potential of a species. One of…”
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Genotyping single nucleotide polymorphisms and inferring ploidy by amplicon sequencing for polyploid, ploidy‐variable organisms by Delomas, Thomas A., Willis, Stuart C., Parker, Blaine L., Miller, Donella, Anders, Paul, Schreier, Andrea, Narum, Shawn

“…Whole genome duplication is hypothesized to have played a critical role in the evolution of several major taxa, including vertebrates, and while many lineages…”
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Genetic variation associated with adult migration timing in lineages of Steelhead and Chinook Salmon in the Columbia River by Narum, Shawn R., Horn, Rebekah, Willis, Stuart, Koch, Ilana, Hess, Jon

“…With the discovery of a major effect region (GREB1L, ROCK1) for adult migration timing in genomes of both Chinook Salmon and Steelhead, several subsequent…”
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Contrasting patterns of sequence variation in steelhead populations reflect distinct evolutionary processes by Willis, Stuart, Coykendall, D. Katharine, Campbell, Matthew R., Narum, Shawn

“…Multiple evolutionary processes influence genome‐wide allele frequencies and quantifying effects of genetic drift, and multiple forms of selection remain…”
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The tree of life and a new classification of bony fishes by Betancur-R, Ricardo, Broughton, Richard E, Wiley, Edward O, Carpenter, Kent, López, J Andrés, Li, Chenhong, Holcroft, Nancy I, Arcila, Dahiana, Sanciangco, Millicent, Cureton Ii, James C, Zhang, Feifei, Buser, Thaddaeus, Campbell, Matthew A, Ballesteros, Jesus A, Roa-Varon, Adela, Willis, Stuart, Borden, W Calvin, Rowley, Thaine, Reneau, Paulette C, Hough, Daniel J, Lu, Guoqing, Grande, Terry, Arratia, Gloria, Ortí, Guillermo

“…The tree of life of fishes is in a state of flux because we still lack a comprehensive phylogeny that includes all major groups. The situation is most critical…”
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Steelhead (Oncorhynchus mykiss) lineages and sexes show variable patterns of association of adult migration timing and age‐at‐maturity traits with two genomic regions by Willis, Stuart C., Hess, Jon E., Fryer, Jeff K., Whiteaker, John M., Brun, Chris, Gerstenberger, Ryan, Narum, Shawn R.

“…As life history diversity plays a critical role in supporting the resilience of exploited populations, understanding the genetic basis of those life history…”
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The largest fish in the world's biggest river: Genetic connectivity and conservation of Arapaima gigas in the Amazon and Araguaia-Tocantins drainages by Farias, Izeni Pires, Willis, Stuart, Leão, Adam, Verba, Júlia Tovar, Crossa, Marcelo, Foresti, Fausto, Porto-Foresti, Fabio, Sampaio, Iracilda, Hrbek, Tomas

“…Arapaima, pirarucu or paiche (Arapaima gigas) is one of the largest freshwater fish in the world, and has a long history of commercial exploitation in the…”
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Genetic recruitment patterns are patchy and spatiotemporally unpredictable in a deep-water snapper (Lutjanus vivanus) sampled in fished and protected areas of western Puerto Rico by Willis, Stuart C., Hollenbeck, Christopher M., Puritz, Jonathan B., Portnoy, David S.

“…Marine protected areas (MPAs) have the potential to conserve biodiversity and improve fishery sustainability, but their efficacy depends on sound design and…”
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Implications of Large-Effect Loci for Conservation: A Review and Case Study with Pacific Salmon by Waples, Robin S, Ford, Michael J, Nichols, Krista, Kardos, Marty, Myers, Jim, Thompson, Tasha Q, Anderson, Eric C, Koch, Ilana J, McKinney, Garrett, Miller, Michael R, Naish, Kerry, Narum, Shawn R, O’Malley, Kathleen G, Pearse, Devon E, Pess, George R, Quinn, Thomas P, Seamons, Todd R, Spidle, Adrian, Warheit, Kenneth I, Willis, Stuart C

“…Abstract The increasing feasibility of assembling large genomic datasets for non-model species presents both opportunities and challenges for applied…”
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Implications of Large-Effect Loci for Conservation: A Review and Case Study with Pacific Salmon by Waples, Robin S, Ford, Michael J, Nichols, Krista, Kardos, Marty, Myers, Jim, Thompson, Tasha Q, Anderson, Eric C, Koch, Ilana J, McKinney, Garrett, Miller, Michael R, Naish, Kerry, Narum, Shawn R, O'Malley, Kathleen G, Pearse, Devon E, Pess, George R, Quinn, Thomas P, Seamons, Todd R, Spidle, Adrian, Warheit, Kenneth I, Willis, Stuart C

“…The increasing feasibility of assembling large genomic datasets for non-model species presents both opportunities and challenges for applied conservation and…”
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Genomic region associated with run timing has similar haplotypes and phenotypic effects across three lineages of Chinook salmon by Willis, Stuart C., Hess, Jon E., Fryer, Jeff K., Whiteaker, John M., Narum, Shawn R.

“…Conserving life‐history variation is a stated goal of many management programs, but the most effective means by which to accomplish this are often far from…”
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A genomic region associated with iteroparous spawning phenology is linked with age‐at‐maturity in female steelhead trout by Willis, Stuart, Stephenson, Jeff, Pierce, Andrew, Medeiros, Lea, Jenkins, Laura, Hatch, Douglas R., Narum, Shawn

“…Age‐at‐maturity and iteroparity are two life history variations of steelhead trout (Oncorhynchus mykiss) that are believed to increase population resilience…”
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Population genetic structure of the Amazonian black flannelmouth characin (Characiformes, Prochilodontidae: Prochilodus nigricans Spix & Agassiz, 1829): contemporary and historical gene flow of a migratory and abundant fishery species by Machado, Valéria Nogueira, Willis, Stuart C., Teixeira, Aylton S., Hrbek, Tomas, Farias, Izeni Pires

“…In the present study, sequences of the mtDNA control region (834 bp) were analyzed from 337 specimens of Prochilodus nigricans from sites along the main…”
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Multi-locus species tree for the Amazonian peacock basses (Cichlidae: Cichla): Emergent phylogenetic signal despite limited nuclear variation by Willis, Stuart C., Farias, Izeni P., Ortí, Guillermo

“…[Display omitted] •Twenty-one nuclear loci with a median of 14 variable sites per locus were used to infer a phylogeny of Cichla.•There was low resolution,…”
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