A5076197403- Genetic diversity and population structure
- Amphibian and Reptile Biology
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- Evolution and Paleontology Studies
- Paleontology and Evolutionary Biology
- Turtle Biology and Conservation
- Plant and animal studies
- Animal Behavior and Reproduction
- Metabolism and Genetic Disorders
- Genetic Mapping and Diversity in Plants and Animals
- Aquaculture disease management and microbiota
- Molecular Biology Techniques and Applications
- Plant and Fungal Species Descriptions
- Identification and Quantification in Food
- Coral and Marine Ecosystems Studies
- Genetic and phenotypic traits in livestock
- Genetics and Plant Breeding
- Plant Taxonomy and Phylogenetics
- Infant Nutrition and Health
- Infant Development and Preterm Care
- melanin and skin pigmentation
- Evolution and Genetic Dynamics
- Skin Protection and Aging
- Genetic Syndromes and Imprinting
Boston University
2009-2024
University of Pennsylvania
2014-2023
California Academy of Sciences
2014
Louisiana State University
2012
University of Georgia
2007-2012
University of Florida
2012
Houston Museum of Natural Science
2012
Savannah River National Laboratory
2007-2009
San Diego State University
2007
Although massively parallel sequencing has facilitated large-scale DNA sequencing, comparisons among distantly related species rely upon small portions of the genome that are easily aligned. Methods needed to efficiently obtain comparable fragments prior particularly for biologists working with non-model organisms. We introduce a new class molecular marker, anchored by ultraconserved genomic elements (UCEs), universally enable target enrichment and thousands orthologous loci across separated...
Software for the measurement of genetic diversity (SMOGD) is a web-based application calculation recently proposed indices G'(ST) and D(est) . SMOGD includes bootstrapping functionality estimating variance, standard error confidence intervals estimated parameters, also generates distance matrices from pairwise comparisons between populations. accepts standard, multilocus Genepop Arlequin formatted input files produces HTML tab-delimited output. This allows easy data submission, quick...
Phylogenomics offers the potential to fully resolve Tree of Life, but increasing genomic coverage also reveals conflicting evolutionary histories among genes, demanding new analytical strategies for elucidating a single history life. Here, we outline phylogenomic approach using novel class phylogenetic markers derived from ultraconserved elements and flanking DNA. Using species-tree analysis that accounts discord hundreds independent loci, show this marker is useful recovering deep-level...
We present the first genomic-scale analysis addressing phylogenetic position of turtles, using over 1000 loci from representatives all major reptile lineages including tuatara. Previously, studies morphological traits positioned turtles either at base tree or with lizards, snakes and tuatara (lepidosaurs), whereas molecular analyses typically allied crocodiles birds (archosaurs). A recent shared microRNA families found that are more closely related to lepidosaurs. To test this hypothesis...
Evolutionary relationships among birds in Neoaves, the clade comprising vast majority of avian diversity, have vexed systematists due to ancient, rapid radiation numerous lineages. We applied a new phylogenomic approach resolve Neoaves using target enrichment (sequence capture) and high-throughput sequencing ultraconserved elements (UCEs) genomes. collected sequence data from UCE loci for 32 members one outgroup (chicken) analyzed sets that differed their amount missing data. An alignment...
African genomics and skin color Skin varies among human populations is thought to be under selection, with light maximizing vitamin D production at higher latitudes dark providing UV protection in equatorial zones. To identify the genes that give rise palette of tones, Crawford et al. applied genome-wide analyses across diverse (see Perspective by Tang Barsh). Genetic variants were identified likely function phenotypes. Comparison model organisms verified a conserved MFSD12 pigmentation. A...
The rate at which genomes diverge during speciation is unknown, as are the physical dynamics of process. Here, we compare full genome sequences 32 butterflies, representing five species from a hybridizing Heliconius butterfly community, to examine genome-wide patterns introgression and infer how divergence evolves Our analyses reveal that initial restricted small fraction genome, largely clustered around known wing-patterning genes. Over time, rapidly, due primarily origin new divergent...
The International Crocodilian Genomes Working Group (ICGWG) will sequence and assemble the American alligator (Alligator mississippiensis), saltwater crocodile (Crocodylus porosus) Indian gharial (Gavialis gangeticus) genomes. status of these projects our planned analyses are described.
Abstract Adaptive divergence in coloration is expected to produce reproductive isolation species that use colourful signals mate choice and recognition. Indeed, many adaptive radiations are characterized by differentiation signals, suggesting divergent selection acting on may be an important component of speciation. Populations the A nolis marmoratus complex from C aribbean island Guadeloupe display striking colour pattern adult males occurs over small geographic distances, strong selection....
Comparative studies of amniotes have been hindered by a dearth reptilian molecular sequences. With the genomic assembly green anole, Anolis carolinensis available, non-avian genes can now be compared to mammalian, avian, and amphibian homologs. Furthermore, with more than 350 extant species in genus Anolis, anoles are an unparalleled example tetrapod genetic diversity divergence. As important ecological, reference, it is imperative develop standardized gene nomenclature alongside associated...
Abstract Understanding how natural selection acts on the genome and contributes to process of speciation is a primary aim study evolution. Here we used variation in two subspecies Guadeloupean anole ( Anolis marmoratus ssp.), from island Guadeloupe Lesser Antilles, explore genomic basis adaptation lizards. These inhabit distinct ecological environments display marked differences adult male color pattern. We sequenced complete genomes 20 anoles, 10 each subspecies, at 1.4× coverage....
We developed 15 polymorphic microsatellite loci from the Hawaiian tree Metrosideros polymorpha. These were screened against two varieties several populations and 23 individuals one mid-elevation population on Hawaii Island. Loci variable with number of alleles per locus ranging three to 24. Polymorphic information content ranged 0.222 0.941, observed heterozygosity 0.261 0.955.
We isolated and characterized nine microsatellite loci from the American white pelican, Pelecanus erythrorhynchos. The were screened in 23 individuals eastern western populations of North America polymorphic, with number alleles per locus ranging two to eight. Polymorphic information content ranged 0.185 0.820 observed heterozygosity 0.217 0.957. These new will provide tools for studies population structure this species, thereby aiding conservation planning.
We describe polymerase chain reaction primers and amplification conditions for 13 microsatellite DNA loci isolated from two bisexual species of whiptail lizards Aspidoscelis costata huico inornata. Primers were tested on either 16 or 48 individuals A. c. and/or 26 Ten the also against a panel 31 additional taxa. detected three to nine alleles per locus in four 19 inornata, with observed heterozygosity ranging 0.60 0.87 0.15 1.00, respectively. These will be an important resource surveys...
Abstract Twelve polymorphic microsatellite loci were isolated from polyploid alpine wood‐sorrel, Oxalis alpina (Oxalidaceae), and optimized for future studies of its breeding system. The screened variability among 72 individuals Pinos Altos, New Mexico. primers amplified with allele number ranging two to 17 per locus estimates Nei's genetic diversity varying 0.10 0.99. These provide an opportunity use DNA markers study the causes system in this species.
Abstract We developed 11 novel microsatellite loci for Sprague's pipit (Anthus spragueii) , a songbird endemic to the Northern Great Plains of central North America. These were screened in 21 individuals from southern Saskatchewan, Canada. All polymorphic, with number alleles per locus ranging five 23, polymorphic information content 0.312 0.947, and observed heterozygosity 0.476 0.900. will be suitable wide variety studies on natural history, ecology, conservation.