Research Geneticist
Western Ecological Research Center
Email:
avandergast@usgs.gov
Office Phone:
619-225-6445
Fax:
619-225-6436
ORCID:
0000-0002-7835-6571
Location
4165 Spruance Road
Suite 200
San Diego
, CA
92101
US
Supervisor:
Tom S Kimball
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Conversion and fragmentation of wildlife habitat often leads to smaller and isolated populations and can reduce a species’ ability to disperse across the landscape. As a consequence, genetic drift can quickly lower genetic variation and increase vulnerability to extirpation. For species of conservation concern, quantification of population size and connectivity can clarify the influence of genetic drift in local populations and provides important information for conservation management and recovery strategies. Here, we used genome-wide single nucleotide polymorphism (SNP) data and capture-mark-recapture methods to evaluate the population structure, genetic diversity and abundance of seven focal sites of the endangered...
Tags: Genetics,
San Francisco Peninsula,
San Mateo County, California,
Santa Clara County,
Santa Cruz County, All tags...
Thamnophis,
USGS Science Data Catalog (SDC),
Wildlife Biology,
biota,
conservation,
effective population size,
endangered species,
genetic diversity,
population abundance,
population and community ecology,
reptiles, Fewer tags
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Fragmentation and loss of natural habitat have important consequences for wild populations and can negatively affect long-term viability and resilience to environmental change. Salt marsh obligate species, such as those that occupy the San Francisco Bay Estuary in western North America, occupy already impaired habitats as result of human development and modifications and are highly susceptible to increased habitat loss and fragmentation due to global climate change. We examined the genetic variation of the California Ridgway’s rail ( Rallus obsoletus obsoletus), a state and federally endangered species that occurs within the fragmented salt marsh of the San Francisco Bay Estuary. We genotyped 107 rails across 11...
Categories: Data;
Types: Citation,
Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: Clapper Rail,
Fragmentation,
Microsatellites,
Population declines,
Ridgway’s rail, All tags...
San Francisco Bay,
USGS Science Data Catalog (SDC), Fewer tags
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To understand the genetic structure of six rare plant species (Acanthomintha ilicifolia, Baccharis vanessae, Chloropyron maritimum ssp. maritimus, Deinandra conjugens, Dicranostegia orcuttiana, Monardella viminea), we obtained samples from known occurrences in San Diego County, prepared and sequenced ddRAD genomic libraries, and developed and analyzed a panel of genetic markers to assess population diversity and divergence. We provide this SNP genotype dataset in Structure format, produced in Stacks v2.0b8, for future monitoring efforts and population genetic analysis. These data support the following publication: Milano, E.R., and Vandergast, A.G., 2018, Population genomic surveys for six rare plant species in...
Types: Map Service,
OGC WFS Layer,
OGC WMS Layer,
OGC WMS Service;
Tags: Botany,
Genetics,
San Diego,
USGS Science Data Catalog (SDC),
biological population management, All tags...
ddRADseq,
endangered species,
genetic diversity,
plants (organisms), Fewer tags
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Capture-mark-recapture data from San Francisco Gartersnakes at five sites in San Mateo County, California in 2018. These data include capture histories, snout-vent lengths, and sex for individual snakes. R files included with the data fit closed capture-mark-recapture models to estimate the abundance of adult snakes at each site in 2018.
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These data represent stem growth from whitebark pine at 27 sites in the Sierra Nevada of California. Values for stem growth were derived from increment cores, processed following standard methods. Samples were also compared against a genomic data collected at the same trees. These data support the following publication: van Mantgem, P.J., Milano, E.R., Dudney, J., Nesmith, J.C.B, Vandergast, A.G., and Zald, H.S.J., 2023. Growth, drought response, and climate-associated genomic structure in whitebark pine in the Sierra Nevada of California. Ecology and Evolution. https://doi.org/10.1002/ece3.10072.
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