7 Works

Data from: Assessing species boundaries and the phylogenetic position of the rare Szechwan Ratsnake, Euprepiophis perlacea (Serpentes: Colubridae), using coalescent-based methods

Xin Chen, Ke Jiang, Peng Guo, Song Huang, Dingqi Rao, Li Ding, Hirohiko Takeuchi, Jing Che, Yaping Zhang, Edward A. Myers, Frank T. Burbrink & Ya-Ping Zhang
Delimiting species and clarifying phylogenetic relationships are the main goals of systematics. For species with questionable taxonomic status, species delimitation approaches using multi-species coalescent models with multiple loci are recommended if morphological data are unavailable or unhelpful. Moreover, these methods will also reduce subjectivity based on genetic distance or requirement of monophyletic genetic lineages. We determine the validity and phylogenetic position of a rare and long controversial species of Chinese reptile, the Szechwan ratsnake (Euprepiophis...

Data from: Multilocus phylogeographic assessment of the California Mountain Kingsnake (Lampropeltis zonata) suggests alternative patterns of diversification for the California Floristic Province

Edward A. Myers, Javier A. Rodríguez-Robles, Dale F. DeNardo, Richard E. Staub, Alyssa Stropoli, Sara Ruane & Frank T. Burbrink
Phylogeographic inference can determine the timing of population divergence, historical demographic processes, patterns of migration, and when extended to multiple species, the history of communities. Single locus analyses can mislead interpretations of the evolutionary history of taxa and comparative analyses. It is therefore important to revisit previous single-locus phylogeographic studies, particularly those that have been used to propose general patterns for regional biotas and the processes responsible for generating inferred patterns. Here we employ a...

Data from: Signatures of rapid evolution in urban and rural transcriptomes of white-footed mice (Peromyscus leucopus) in the New York metropolitan area

Stephen E. Harris, Jason Munshi-South, Craig Obergfell, Rachel O'Neill & Rachel O’Neill
Urbanization is a major cause of ecological degradation around the world, and human settlement in large cities is accelerating. New York City (NYC) is one of the oldest and most urbanized cities in North America, but still maintains 20% vegetation cover and substantial populations of some native wildlife. The white-footed mouse, Peromyscus leucopus, is a common resident of NYC’s forest fragments and an emerging model system for examining the evolutionary consequences of urbanization. In this...

Data from: Characterization of human cortical gene expression in relation to glucose utilization.

Kirstin N. Sterner, Michael R. McGowen, Harry T. Chugani, Adi L. Tarca, Chet C. Sherwood, Patrick R. Hof, Christopher W. Kuzawa, Amy M. Boddy, Ryan L. Raaum, Amy Weckle, Leonard Lipovich, Lawrence I. Grossman, Monica Uddin, Morris Goodman & Derek E. Wildman
Objectives: Human brain development follows a unique pattern characterized by a prolonged period of postnatal growth and reorganization, and a postnatal peak in glucose utilization. The molecular processes underlying these developmental changes are poorly characterized. The objectives of this study were to determine developmental trajectories of gene expression and to examine the evolutionary history of genes differentially expressed as a function of age. Methods: We used microarrays to determine age-related patterns of mRNA expression in...

Data from: Recommendations for using msBayes to incorporate uncertainty in selecting an ABC model prior: a response to Oaks et al.

Michael James Hickerson, Graham N. Stone, Konrad Lohse, Terrence C. Demos, Xiaoou Xie, Cedric Landerer & Naoki Takebayashi
Prior specification is an essential component of parameter estimation and model comparison in Approximate Bayesian computation (ABC). Oaks et al. present a simulation-based power analysis of msBayes and conclude that msBayes has low power to detect genuinely random divergence times across taxa, and suggest the cause is Lindley's paradox. Although the predictions are similar, we show that their findings are more fundamentally explained by insufficient prior sampling that arises with poorly chosen wide priors that...

Data from: Conservation genetics of extremely isolated urban populations of the Northern Dusky Salamander (Desmognathus fuscus) in New York City

Jason Munshi-South, Yana Zak & Ellen Pehek
Urbanization is a major cause of amphibian decline. Stream-dwelling plethodontid salamanders are particularly susceptible to urbanization due to declining water quality and hydrological changes, but few studies have examined these taxa in cities. The northern dusky salamander (Desmognathus fuscus) was once common in the New York City metropolitan area, but has substantially declined throughout the region in recent decades. We used five tetranucleotide microsatellite loci to examine population differentiation, genetic variation, and bottlenecks among five...

Data from: Combining genetic and demographic information to prioritize conservation efforts for anadromous alewife and blueback herring

Eric P. Palkovacs, Daniel J. Hasselman, Emily E. Argo, Stephen R. Gephard, Karin E. Limburg, David M. Post, Thomas F. Schultz & Theodore V. Willis
A major challenge in conservation biology is the need to broadly prioritize conservation efforts when demographic data are limited. One method to address this challenge is to use population genetic data to define groups of populations linked by migration and then use demographic information from monitored populations to draw inferences about the status of unmonitored populations within those groups. We applied this method to anadromous alewife (Alosa pseudoharengus) and blueback herring (Alosa aestivalis), species for...

Registration Year

  • 2013

Resource Types

  • Dataset


  • Queens College, CUNY
  • City University of New York
  • Northwestern University
  • Duke University
  • SUNY College of Environmental Science and Forestry
  • City College of New York
  • George Washington University
  • Wayne State University
  • University of Alaska Fairbanks
  • University of Nevada Reno