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Jennifer A Fike

Jennifer Fike is a Geneticist and Lab Manager at the Fort Collins Science Center.

Jennifer Fike is a Geneticist at the Fort Collins Science Center and lab manager for the Molecular Ecology Lab (MEL). She specializes in all aspects of laboratory benchwork including DNA extraction, PCR, microsatellite development, microsatellite genotyping, Sanger sequencing, qPCR, ddRAD library preparation, shotgun sequencing, SNP genotyping, working with non-invasive genetic samples and eDNA. The data she generates is used in a wide range of genetic and genomic studies including species identification, sex determination, parentage analysis, landscape genetics/genomics and genetic mark-recapture.

Professional Experience

  • 2009 to present, Geneticist, USGS Fort Collins Science Center, Fort Collins, CO

  • 2006-2009, Research Assistant, Wildlife Genetics Laboratory, Purdue University, West Lafayette, IN

  • 2003-2006, Laboratory Technician VII, Wildlife Genetics Laboratory, Purdue University, West Lafayette, IN

Education and Certifications

  • M.S. in Wildlife/Fisheries Biology, Frostburg State University, 2005

  • B.S. in Biology, Furman University, 2000

Science and Products

The Molecular Ecology Lab at the Fort Collins Science Center

Molecular Ecology Lab (MEL)

The Molecular Ecology Laboratory applies innovative genetic and genomic technologies to address a variety of complex questions and issues facing the Nation's natural resources. While we continually update the scale and efficiency of laboratory procedures to meet stakeholder needs, we must also be innovative and flexible in addressing those needs that have no off-the-shelf solution. We help...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Species Management Research Program, Fort Collins Science Center
Molecular Ecology Lab (MEL)

Molecular Ecology Lab (MEL)

The Molecular Ecology Laboratory applies innovative genetic and genomic technologies to address a variety of complex questions and issues facing the Nation's natural resources. While we continually update the scale and efficiency of laboratory procedures to meet stakeholder needs, we must also be innovative and flexible in addressing those needs that have no off-the-shelf solution. We help...
Learn More
two hands hold up a large black and white spotted lizard, with tables and lab equipment in the background

Early detection and rapid response tools for invasive tegu lizards

Scientists at USGS have shown that much of the US is suitable for invasion by tegu lizards, and suitability will likely increase in the future. While tegus can be removed via trapping, it is difficult to monitor every geographic area where tegus could invade. Thus, methods for quickly detecting and removing tegus in new areas are the best way to prevent spread and minimize damage from these...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center, Wetland and Aquatic Research Center
Early detection and rapid response tools for invasive tegu lizards

Early detection and rapid response tools for invasive tegu lizards

Scientists at USGS have shown that much of the US is suitable for invasion by tegu lizards, and suitability will likely increase in the future. While tegus can be removed via trapping, it is difficult to monitor every geographic area where tegus could invade. Thus, methods for quickly detecting and removing tegus in new areas are the best way to prevent spread and minimize damage from these...
Learn More
A small brown snake with tongue out looks into camera, slithers along a leaf

Developing and evaluating a point-of-use environmental DNA test for rapid field detection of highly invasive brown treesnakes

New terrestrial environmental DNA (eDNA) sampling techniques are sensitive tools for early detection of the highly invasive brown treesnakes (BTS). In a new collaborative research effort involving four USGS science centers, scientists have initiated the development of an innovative point-of-use (POU) assay for BTS. POU assays are tests that can be run in the field with minimal equipment and no...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center, Pacific Island Ecosystems Research Center, Upper Midwest Environmental Sciences Center, Wetland and Aquatic Research Center
Developing and evaluating a point-of-use environmental DNA test for rapid field detection of highly invasive brown treesnakes

Developing and evaluating a point-of-use environmental DNA test for rapid field detection of highly invasive brown treesnakes

New terrestrial environmental DNA (eDNA) sampling techniques are sensitive tools for early detection of the highly invasive brown treesnakes (BTS). In a new collaborative research effort involving four USGS science centers, scientists have initiated the development of an innovative point-of-use (POU) assay for BTS. POU assays are tests that can be run in the field with minimal equipment and no...
Learn More
Fort Collins Science Center

Fort Collins Science Center Labs and Facilities

The Fort Collins Science Center has scientists working in several diverse locations as well as three in house highly specialized laboratories, studying subjects from molecular ecology to brown treesnakes, dendroecology to streamflows, and macroinvertebrate species to Burmese pythons. Our extraordinary scientists work in each of these locations advancing studies in their particular areas of study...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center
Fort Collins Science Center Labs and Facilities

Fort Collins Science Center Labs and Facilities

The Fort Collins Science Center has scientists working in several diverse locations as well as three in house highly specialized laboratories, studying subjects from molecular ecology to brown treesnakes, dendroecology to streamflows, and macroinvertebrate species to Burmese pythons. Our extraordinary scientists work in each of these locations advancing studies in their particular areas of study...
Learn More
A Burmese python slithering in the grass in the Everglades.

Environmental DNA (eDNA) Sampling Improves Occurrence and Detection Estimates of Invasive Burmese Pythons and Other Constrictor Snakes in Florida

Environmental DNA (eDNA) is organismal DNA that can be found in the environment. Environmental DNA originates from cellular material shed by organisms (via skin, excrement, etc.) into aquatic or terrestrial environments that can be sampled and monitored using new molecular methods. Such methodology is important for the early detection of invasive species as well as the detection of rare and...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center
Environmental DNA (eDNA) Sampling Improves Occurrence and Detection Estimates of Invasive Burmese Pythons and Other Constrictor Snakes in Florida

Environmental DNA (eDNA) Sampling Improves Occurrence and Detection Estimates of Invasive Burmese Pythons and Other Constrictor Snakes in Florida

Environmental DNA (eDNA) is organismal DNA that can be found in the environment. Environmental DNA originates from cellular material shed by organisms (via skin, excrement, etc.) into aquatic or terrestrial environments that can be sampled and monitored using new molecular methods. Such methodology is important for the early detection of invasive species as well as the detection of rare and...
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Filter Total Items: 14

Greater sage-grouse genetic data and R code for evaluating conservation translocations in the northwestern United States, 1992–2021 (ver. 1.1, December 2024) Greater sage-grouse genetic data and R code for evaluating conservation translocations in the northwestern United States, 1992–2021 (ver. 1.1, December 2024)

Conservation translocations are a common wildlife management tool that can be difficult to implement and evaluate for effectiveness. Genetic information can provide unique insight regarding local impact of translocations (e.g., presence and retention of introduced genetic variation) and identifying suitable source and recipient populations (e.g., adaptive similarity). We developed two...
By
Fort Collins Science Center

Whole genome sequencing of three North American large-bodied birds Whole genome sequencing of three North American large-bodied birds

The data release details the samples, methods, and raw data used to generate high-quality genome assemblies for greater sage-grouse (Centrocercus urophasianus), white-tailed ptarmigan (Lagopus leucura), and trumpeter swan (Cygnus buccinator). The raw data have been deposited in the Sequence Read Archive (SRA) of the National Center for Biotechnology Information (NCBI), the authoritative...
By
Fort Collins Science Center

Reduced representation sequencing and genotyping of Arizona Toads (Anaxyrus microscaphus) from the southwestern United States Reduced representation sequencing and genotyping of Arizona Toads (Anaxyrus microscaphus) from the southwestern United States

The dataset consists of genotypes (diploid base calls at variant sites) at 3,601 anonymous sites of the Arizona Toad (Anaxyrus microscaphus) nuclear genome. The genotyped samples are representative of the range of the species and its major population units, and the genotyped loci have a high degree of completeness. This data release consists of several files: 1. sample.metadata.txt...
By
Fort Collins Science Center

Sample collection information and microsatellite data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho Sample collection information and microsatellite data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho

This dataset contains sample collection information and microsatellite genotype data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho. This data was collected to examine levels of genetic diversity and connectivity among Black Swift colonies and also to assess parentage at a subset of those sites. This study helps clarify the breeding system of the Black...
By
Fort Collins Science Center

Voucher and metagenetic sequencing of DNA barcodes of wild-collected bees (Apoidea) from Iowa, USA Voucher and metagenetic sequencing of DNA barcodes of wild-collected bees (Apoidea) from Iowa, USA

High-throughput methods for identification of pollinator taxa are desirable to improve our understanding of pollinator distributions, population trends, and ecology. Genetic sequencing of taxonomically informative 'barcode' loci is one high-throughput strategy, which can be applied to individual specimens using Sanger technology and to complex mixtures using metabarcoding technology...
By
Fort Collins Science Center

Genotypes and cluster definitions for a range-wide greater sage-grouse dataset collected 2005-2017 (ver 1.1, January 2023) Genotypes and cluster definitions for a range-wide greater sage-grouse dataset collected 2005-2017 (ver 1.1, January 2023)

Monitoring change in genetic diversity in wildlife populations across multiple scales could facilitate prioritization of conservation efforts. We used microsatellite genotypes from 7,080 previously collected genetic samples from across the greater sage-grouse (Centrocercus urophasianus) range to develop a modelling framework for estimating genetic diversity within a recently developed
By
Fort Collins Science Center

Greater sage-grouse genetic warning system, western United States (ver 1.1, January 2023) Greater sage-grouse genetic warning system, western United States (ver 1.1, January 2023)

Genetic variation is a well-known indicator of population fitness yet is not typically included in monitoring programs for sensitive species. Additionally, most programs monitor populations at one scale, which can lead to potential mismatches with ecological processes critical to species’ conservation. Recently developed methods generating hierarchically nested population units (i.e...
By
Fort Collins Science Center

Metabarcode sequencing of aquatic environmental DNA from the Potomac River Watershed, 2015-2020 Metabarcode sequencing of aquatic environmental DNA from the Potomac River Watershed, 2015-2020

Biological indicator taxa have long been used for integrative assessments of water quality, particularly benthic invertebrate groups such as arthropods. While standardized protocols have been developed to calculate 'biological index' scores based on the abundances of these taxa, such systems are challenging to implement at large scales due to the sampling effort required, taxonomic...
By
Fort Collins Science Center

Microsatellite data, boundaries of subpopulation centers, and estimated effective migration for greater sage-grouse collected in western North America between 1992 and 2015 (ver. 2.0, December 2022) Microsatellite data, boundaries of subpopulation centers, and estimated effective migration for greater sage-grouse collected in western North America between 1992 and 2015 (ver. 2.0, December 2022)

Greater Sage-grouse were sampled for genetic analysis with the goal of quantifying genetic structure and gene flow across the entire species range in the U.S. and Canada. Data presented here consist of two data sets both including genetic data from 15 microsatellite markers. Most samples were collected between 2005 and 2015 (feathers collected non-invasively off the ground) yet some...
By
Fort Collins Science Center

Genetic variation in hoary bats (Lasiurus cinereus) assessed from archived samples Genetic variation in hoary bats (Lasiurus cinereus) assessed from archived samples

Hoary bats are among the bat species most commonly killed by turbine strikes in the midwestern United States. The impact of this mortality on species census size is not understood, due in part to the difficulty of estimating population size for this highly migratory and elusive species. Genetic effective population size (Ne) could provide an index of census population size if other...
By
Fort Collins Science Center

Taxonomic composition of environmental DNA acquired by filtration from the St. Regis River, New York Taxonomic composition of environmental DNA acquired by filtration from the St. Regis River, New York

Environmental DNA (eDNA) surveys have become important tools for monitoring aquatic biodiversity. Barcode sequencing of eDNA generates community profiles that, while potentially biased in both capture and amplification, can nonetheless yield high information content per unit cost. While factors affecting eDNA capture and amplification have been heavily studied, watershed-scale...
By
Fort Collins Science Center

Sample collection information, single nucleotide polymorphism, and microsatellite data for white-tailed ptarmigan across the species range generated in the Molecular Ecology Lab during 2016 Sample collection information, single nucleotide polymorphism, and microsatellite data for white-tailed ptarmigan across the species range generated in the Molecular Ecology Lab during 2016

This data release comprises a dataset that contains sample collection information and microsatellite genotypes, and another dataset that contains single nucleotide polymorphism (SNP) genotypes with sample collection information for populations of white-tailed ptarmigan across the species' range. There is also an additional file (accession numbers.xlsx) linking samples to accession...
By
Fort Collins Science Center
two people in lab coats look at a the screen of a large machine
Researchers look at genetic data in the Molecular Ecology Lab
Researchers look at genetic data in the Molecular Ecology Lab
two people in lab coats look at a the screen of a large machine

Researchers look at genetic data in the Molecular Ecology Lab

Researchers look at genetic data in the Molecular Ecology Lab

FORT researchers Sara Oyler-McCance and Jenny Fike discuss genetic data in the Molecular Ecology Lab.

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Fort Collins Science Center
two people in lab coats look at a the screen of a large machine

Researchers look at genetic data in the Molecular Ecology Lab

Researchers look at genetic data in the Molecular Ecology Lab

FORT researchers Sara Oyler-McCance and Jenny Fike discuss genetic data in the Molecular Ecology Lab.

By
Fort Collins Science Center
The Molecular Ecology Lab at the Fort Collins Science Center.
Molecular Ecology Lab
Molecular Ecology Lab
The Molecular Ecology Lab at the Fort Collins Science Center.

Molecular Ecology Lab

Molecular Ecology Lab

The Molecular Ecology Lab at the Fort Collins Science Center. 

By
Fort Collins Science Center
The Molecular Ecology Lab at the Fort Collins Science Center.

Molecular Ecology Lab

Molecular Ecology Lab

The Molecular Ecology Lab at the Fort Collins Science Center. 

By
Fort Collins Science Center
Filter Total Items: 39

High genetic diversity, low population genetic structure, strong natal philopatry, and longevity revealed in the Black Swift (Cypseloides niger borealis) High genetic diversity, low population genetic structure, strong natal philopatry, and longevity revealed in the Black Swift (Cypseloides niger borealis)

Genetic diversity is a critical cornerstone of biodiversity and is a central goal in management and conservation biology. Such diversity has implications for survivability, adaptability, and resiliency of a species. This study aimed to determine levels of genetic diversity and population genetic structure in the Northern Black Swift (Cypseloides niger borealis). This species nests across...
Authors
Carolyn Gunn, Kim Potter, Jennifer A. Fike, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

A genetic assessment of natural barriers for isolating a habitat network proposed for Greenback Cutthroat Trout reintroduction A genetic assessment of natural barriers for isolating a habitat network proposed for Greenback Cutthroat Trout reintroduction

Objective: Native inland trout conservation efforts rely on physical barriers to exclude nonnative salmonids from target habitats. We used genetic techniques to evaluate a series of natural waterfalls for their potential to serve as barriers to prevent nonnative salmonids from entering a proposed reintroduction area for federally threatened Greenback Cutthroat Trout Oncorhynchus...
Authors
Taylor Stack, Matthew Fairchild, Rachel Geiger, Sara Oyler-McCance, Jennifer A. Fike, Christopher Kennedy, Dana Winkelman, Yoichiro Kanno
By
Ecosystems Mission Area, Fort Collins Science Center

The potential influence of genome-wide adaptive divergence on conservation translocation outcome in an isolated greater sage-grouse population The potential influence of genome-wide adaptive divergence on conservation translocation outcome in an isolated greater sage-grouse population

Conservation translocations are an important conservation tool commonly employed to augment declining or reestablish extirpated populations. One goal of augmentation is to increase genetic diversity and reduce the risk of inbreeding depression (i.e., genetic rescue). However, introducing individuals from significantly diverged populations risks disrupting coadapted traits and reducing...
Authors
Shawna Zimmerman, Cameron Aldridge, Michael Schroeder, Jennifer A. Fike, Robert Cornman, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

Comparing modern identification methods for wild bees: Metabarcoding and image-based morphological taxonomic assignment Comparing modern identification methods for wild bees: Metabarcoding and image-based morphological taxonomic assignment

With the decline of bee populations worldwide, studies determining current wild bee distributions and diversity are increasingly important. Wild bee identification is often completed by experienced taxonomists or by genetic analysis. The current study was designed to compare two methods of identification including: (1) morphological identification by experienced taxonomists using images...
Authors
Cassandra Smith, Robert Cornman, Jennifer A. Fike, Johanna Kraus, Sara Oyler-McCance, Carrie Givens, Michelle Hladik, Mark Vandever, Dana W. Kolpin, Kelly Smalling
By
Ecosystems Mission Area, Water Resources Mission Area, California Water Science Center, Central Midwest Water Science Center, Fort Collins Science Center, New Jersey Water Science Center, Oregon Water Science Center, Upper Midwest Water Science Center

Genetic Connectivity in the Arizona toad (Anaxyrus microscaphus): implications for conservation of a stream dwelling amphibian in the arid Southwestern U.S. Genetic Connectivity in the Arizona toad (Anaxyrus microscaphus): implications for conservation of a stream dwelling amphibian in the arid Southwestern U.S.

The Arizona Toad (Anaxyrus microscaphus) is restricted to riverine corridors and adjacent uplands in the arid southwestern United States. As with numerous amphibians worldwide, populations are declining and face various known or suspected threats, from disease to habitat modification resulting from climate change. The Arizona Toad has been petitioned to be listed under the U.S...
Authors
Sara Oyler-McCance, Mason Ryan, Brian Sullivan, Jennifer A. Fike, Robert Cornman, J. Giermakowski, Shawna Zimmerman, R. Harrow, S.J. Hedwell, Blake R. Hossack, I. M. Latella, R. Lovish, S. Siefken, Brent H. Sigafus, Erin L. Muths
By
Ecosystems Mission Area, Fort Collins Science Center, Northern Rocky Mountain Science Center

Genetic mark–recapture analysis reveals large annual variation in pre-breeding sex ratio of greater sage-grouse Genetic mark–recapture analysis reveals large annual variation in pre-breeding sex ratio of greater sage-grouse

Sex ratio, and the extent to which it varies over time, is an important factor in the demography, management, and conservation of wildlife populations. Greater sage-grouse Centrocercus urophasianus populations in western North America are monitored using counts of males at leks in spring. Population estimates derived from lek-count data typically assume a constant, female-biased sex...
Authors
Jessica Shyvers, Brett Walker, Sara Oyler-McCance, Jennifer A. Fike, Barry Noon
By
Ecosystems Mission Area, Fort Collins Science Center

Assessing arthropod diversity metrics derived from stream environmental DNA: Spatiotemporal variation and paired comparisons with manual sampling Assessing arthropod diversity metrics derived from stream environmental DNA: Spatiotemporal variation and paired comparisons with manual sampling

Background Benthic invertebrate (BI) surveys have been widely used to characterize freshwater environmental quality but can be challenging to implement at desired spatial scales and frequency. Environmental DNA (eDNA) allows an alternative BI survey approach, one that can potentially be implemented more rapidly and cheaply than traditional methods.Methods We evaluated eDNA analogs of BI...
Authors
Aaron Aunins, Sara Mueller, Jennifer A. Fike, Robert Cornman
By
Ecosystems Mission Area, Fort Collins Science Center, Eastern Ecological Science Center

Simulation of genetic change under four removal strategies for a wild horse population Simulation of genetic change under four removal strategies for a wild horse population

Small and/or artificially reduced populations can suffer genetic erosion with long-term consequences to population fitness and persistence. However, managers must periodically remove free-roaming horses from the landscape to reduce the risk of habitat degradation. We developed an individual-based population simulation model to evaluate the expected change in genetic diversity after 100...
Authors
Shawna Zimmerman, Jennifer A. Fike, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

A genetic warning system for a hierarchically structured wildlife monitoring framework A genetic warning system for a hierarchically structured wildlife monitoring framework

Genetic variation is a well-known indicator of population fitness yet is not typically included in monitoring programs for sensitive species. Additionally, most programs monitor populations at one scale, which can lead to potential mismatches with ecological processes critical to species' conservation. Recently developed methods generating hierarchically nested population units (i.e...
Authors
Shawna Zimmerman, Cameron Aldridge, Michael O’Donnell, David Edmunds, Peter Coates, Brian Prochazka, Jennifer A. Fike, Todd Cross, Bradley Fedy, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center, Western Ecological Research Center (WERC)

Gene flow and spatial population structure of Brook Trout in a large headwater stream network in Colorado Gene flow and spatial population structure of Brook Trout in a large headwater stream network in Colorado

We studied gene flow of non-native Brook Trout Salvelinus fontinalis in a 60-km section of continuous stream network in the upper Cache la Poudre River basin, where a large-scale reclamation effort to restore federally threatened Greenback Cutthroat Trout Oncorhynchus clarkii stomias (GBCT) is taking place. This effort—the Poudre Headwaters Project—represents the most important recovery...
Authors
Audrey Harris, Matthew Fairchild, Sara Oyler-McCance, Jennifer A. Fike, Christopher Kennedy, Dana Winkleman, Yoichiro Kanno
By
Ecosystems Mission Area, Fort Collins Science Center

Genetic analyses provide new insight on the mating strategies of the American Black Swift (Cypseloides niger) Genetic analyses provide new insight on the mating strategies of the American Black Swift (Cypseloides niger)

Avian mating strategies play a vital role in the demographic and genetic dynamics of a species and understanding avian reproductive tactics is important to conservation, population management and restoration. Classifications of avian mating strategies have historically been based on direct physical observations and tend to be rigid population-level generalizations that overlook the...
Authors
Carolyn Gunn, Kim Potter, Jennifer A. Fike, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

New strategies for characterizing genetic structure in wide-ranging, continuously distributed species: a Greater Sage-grouse case study New strategies for characterizing genetic structure in wide-ranging, continuously distributed species: a Greater Sage-grouse case study

Characterizing genetic structure across a species’ range is relevant for management and conservation as it can be used to define population boundaries and quantify connectivity. Wide-ranging species residing in continuously distributed habitat pose substantial challenges for the characterization of genetic structure as many analytical methods used are less effective when isolation by...
Authors
Sara Oyler-McCance, Todd Cross, Jeffery Row, Michael Schwartz, Dave Naugle, Jennifer A. Fike, Kristopher Winiarski, Brad Fedy
By
Ecosystems Mission Area, Fort Collins Science Center

Non-USGS Publications**

Dharmarajan, G., J.C.Beasley, W.S. Beatty, Z.H.Olson, J. A. Fike and Olin E. Rhodes, Jr. 2016. Genetic co-structuring in host parasite systems: Empirical data from raccoons and raccoon ticks. Ecosphere 7(3):e01269
Dharmarajan, G., J.C.Beasley, J. A. Fike and Olin E. Rhodes, Jr. 2014. Effects of landscape, demographic and behavioral factors on kin structure: testing ecological predictions in a mesopredator with high dispersal capability. Animal Conservation. 17(3): 225-234. http://onlinelibrary.wiley.com/doi/10.1111/acv.12086/full
Fike, J.A., C.A. Hennessy, M.L. Kennedy, and O.E. Rhodes, Jr. 2013. Eleven microsatellite markers for the eastern gray squirrel (Sciurus carolinensis) and their utility in fox squirrels (Sciurus niger) and red squirrels (Tamiasciurus hudsonicus). Conservation Genetics Resources. 5: 679-681.
Dharmarajan, G., J.C.Beasley, J. A. Fike, E. A. Raizman, C. C. Wu, R. M. Pogranichniy and Olin E. Rhodes, Jr. 2012. Effects of kin-structure on disease dynamics in raccoons (Procyon lotor) inhabiting a fragmented landscape. Basic and Applied Ecology. 13:560-567.
Atwood, T.C., J.K. Young, J.P. Beckmann, S.W. Breck, J. Fike, O.E. Rhodes Jr, and K.D. Bristow. 2011. Modeling connectivity of black bears in a desert sky island archipelago. Biological Conservation 144: 2851-2862.
Kimble, S.J, J.A. Fike, O.E. Rhodes, Jr., and R.N. Williams. 2011. Identification of 12 polymorphic microsatellite loci for the eastern box turtle (Terrapene carolina carolina). Conservation Genetics Resources 3:65-67.
Hapeman,P., E.K. Latch, J.A. Fike, O.E. Rhodes, and C.W. Kilpatrick. 2011. Landscape Genetics of Fishers (Martes pennanti) in the Northeast: Dispersal Barriers and Historical Influences. Journal of Heredity 102: 251-259.
Unger, S.D., J.A. Fike, T. Sutton, O.E. Rhodes, Jr., and R.N. Williams. 2010. Isolation and development of 12 polymorphic tetranucleotide microsatellite markers for the eastern hellbender (Cryptobranchus alleganiensis alleganiensis) Conservation GeneticsResources 2:89-91.
Fike, J.A., T.L. DeVault, and O.E. Rhodes, Jr. 2009. Identification of twenty-four polymorphic microsatellite markers for the double-crested cormorant (Phalacrocorax auritus). Molecular Ecology Resources 9:1183-1185.
Fike, J.A., J.C. Beasley, and O.E. Rhodes, Jr. 2009. Isolation of twenty-one polymorphic microsatellite markers for Virginia opossum (Didelphis virginiana). Molecular Ecology Resources 9:1200-1202.
Fike, J.A., G. Athrey, R. Bowman, P.L. Leberg, and O.E. Rhodes, Jr. 2009. Development of twenty-five polymorphic microsatellite markers for the endangered red-cockaded woodpecker (Picoides borealis). Conservation Genetics 10:1021-1023.
Fike, J.A. and O.E. Rhodes, Jr. 2009. Characterization of twenty-six polymorphic microsatellite markers for the fox squirrel (Sciurus niger) and their utility in other squirrel species. Conservation Genetics 10:1545-1548.
Dharmarajan, G., J.A. Fike, J.C. Beasley and O.E. Rhodes, Jr. 2009. Development and characterization of 12 polymorphic microsatellite loci in the American dog tick (Dermacentor variabilis). Molecular Ecology Resources 9:131-133.
Dharmarajan, G., J.A. Fike, J.C. Beasley and O.E. Rhodes, Jr. 2009. Development and characterization of 14 polymorphic microsatellite loci in the raccoon tick (Ixodes texanus). Molecular Ecology Resources 9:296-298.
Latch, E.K., J.A. Heffelfinger, J.A. Fike, and O.E. Rhodes, Jr. 2009. Species-wide phylogeography of North American mule deer (Odocoileus hemionus): cryptic glacial refugia and postglacial recolonization. Molecular Ecology 18:1730-1745.
Dharmarajan, G., J.C. Beasley, J.A. Fike, and O.E. Rhodes, Jr. 2009. Population genetic structure of raccoons (Procyon lotor) in a fragmented landscape. Canadian J. Zoology 87:814-824.
Drauch, A. M., B.E. Fisher, E.K. Latch, J. A. Fike and O. E. Rhodes, Jr. 2008. Evaluation of a remnant lake sturgeon population’s utility as a source for reintroductions in the Ohio River system. Conservation Genetics 9:1195-1209.
Latch, E.K, D.G. Scognamillo, J.A Fike, M.J. Chamberlain and O.E. Rhodes, Jr. 2008.Landscape genetics of coastal and inland river otters (Lontra canadensis) in Louisiana. Journal of Heredity 99:265-274.
Victory, E.R., J.C. Glaubitz, J.A. Fike, O.E. Rhodes, Jr. and K.E. Woeste. 2008. Different histories but similar genetic diversity and structure for black walnut in Indiana and Missouri. Pages 436-445, In Jacobs, D.F. and Michler C.H. (eds) Proceedings, 16th Central Hardwood Forest Conference; 2008 April 8-10: Lafayette, USDA Forest Service Northern Research Station Technical Report NRS-P-24.
Fike, J.A., G. Dharmarajan, A. M. Drauch and O.E. Rhodes, Jr. 2007. Development of polymorphic microsatellite loci for raccoons (Procyon lotor). Molecular Ecology Notes 7:525-527.
Anderson, S.J., J.A. Fike, G. Dharmarajan, and O.E. Rhodes, Jr. 2007. Characterization of 12 polymorphic microsatellite loci for eastern chipmunks (Tamias striatus). Molecular Ecology Notes 7:513-515.
Beheler, A.S., J.A. Fike and O.E. Rhodes, Jr. 2007. Eight new polymorphic microsatellite loci from the eastern phoebe (Sayornis phoebe). Conservation Genetics 8:1259-1261.
Beheler, A. S., J. A. Fike, G. Dharmarajan, O. E. Rhodes, Jr., and T. L. Serfass. 2005. Ten new polymorphic microsatellite loci for North American river otters (Lontracanadensis) and their utility in related mustelids. Molecular Ecology Notes 5:602-604.
Beheler, A. S., J. A. Fike, L. M. Murfitt, O. E. Rhodes, Jr., and T. L. Serfass. 2004.Development of polymorphic microsatellite loci for North American river otters (Lontra canadensis) and amplification in related Mustelids. Molecular Ecology Notes 4:56-58.
Fike, J.A., T.L. Serfass, A.S. Beheler and O.E. Rhodes, Jr. 2004. Evaluation of preservation methods for DNA analyses of river otter scat: Probability of amplification and genotyping accuracy. Proceedings of the XI International Otter Colloquium Volume 21A.

**Disclaimer: The views expressed in Non-USGS publications are those of the author and do not represent the views of the USGS, Department of the Interior, or the U.S. Government.

Scientists from the FORT Molecular Ecology Lab teach local 6th grade students all about DNA!

Scientists from the FORT Molecular Ecology Lab teach local 6th grade students all about DNA!

On February 14, 2024, Sara Oyler-McCance (FORT Supervisory Research Geneticist) and Jenny Fike (FORT Geneticist) hosted 6th graders from the Compass...

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Science and Products

The Molecular Ecology Lab at the Fort Collins Science Center

Molecular Ecology Lab (MEL)

The Molecular Ecology Laboratory applies innovative genetic and genomic technologies to address a variety of complex questions and issues facing the Nation's natural resources. While we continually update the scale and efficiency of laboratory procedures to meet stakeholder needs, we must also be innovative and flexible in addressing those needs that have no off-the-shelf solution. We help...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Species Management Research Program, Fort Collins Science Center
Molecular Ecology Lab (MEL)

Molecular Ecology Lab (MEL)

The Molecular Ecology Laboratory applies innovative genetic and genomic technologies to address a variety of complex questions and issues facing the Nation's natural resources. While we continually update the scale and efficiency of laboratory procedures to meet stakeholder needs, we must also be innovative and flexible in addressing those needs that have no off-the-shelf solution. We help...
Learn More
two hands hold up a large black and white spotted lizard, with tables and lab equipment in the background

Early detection and rapid response tools for invasive tegu lizards

Scientists at USGS have shown that much of the US is suitable for invasion by tegu lizards, and suitability will likely increase in the future. While tegus can be removed via trapping, it is difficult to monitor every geographic area where tegus could invade. Thus, methods for quickly detecting and removing tegus in new areas are the best way to prevent spread and minimize damage from these...
By
Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center, Wetland and Aquatic Research Center
Early detection and rapid response tools for invasive tegu lizards

Early detection and rapid response tools for invasive tegu lizards

Scientists at USGS have shown that much of the US is suitable for invasion by tegu lizards, and suitability will likely increase in the future. While tegus can be removed via trapping, it is difficult to monitor every geographic area where tegus could invade. Thus, methods for quickly detecting and removing tegus in new areas are the best way to prevent spread and minimize damage from these...
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A small brown snake with tongue out looks into camera, slithers along a leaf

Developing and evaluating a point-of-use environmental DNA test for rapid field detection of highly invasive brown treesnakes

New terrestrial environmental DNA (eDNA) sampling techniques are sensitive tools for early detection of the highly invasive brown treesnakes (BTS). In a new collaborative research effort involving four USGS science centers, scientists have initiated the development of an innovative point-of-use (POU) assay for BTS. POU assays are tests that can be run in the field with minimal equipment and no...
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Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center, Pacific Island Ecosystems Research Center, Upper Midwest Environmental Sciences Center, Wetland and Aquatic Research Center
Developing and evaluating a point-of-use environmental DNA test for rapid field detection of highly invasive brown treesnakes

Developing and evaluating a point-of-use environmental DNA test for rapid field detection of highly invasive brown treesnakes

New terrestrial environmental DNA (eDNA) sampling techniques are sensitive tools for early detection of the highly invasive brown treesnakes (BTS). In a new collaborative research effort involving four USGS science centers, scientists have initiated the development of an innovative point-of-use (POU) assay for BTS. POU assays are tests that can be run in the field with minimal equipment and no...
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Fort Collins Science Center

Fort Collins Science Center Labs and Facilities

The Fort Collins Science Center has scientists working in several diverse locations as well as three in house highly specialized laboratories, studying subjects from molecular ecology to brown treesnakes, dendroecology to streamflows, and macroinvertebrate species to Burmese pythons. Our extraordinary scientists work in each of these locations advancing studies in their particular areas of study...
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Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center
Fort Collins Science Center Labs and Facilities

Fort Collins Science Center Labs and Facilities

The Fort Collins Science Center has scientists working in several diverse locations as well as three in house highly specialized laboratories, studying subjects from molecular ecology to brown treesnakes, dendroecology to streamflows, and macroinvertebrate species to Burmese pythons. Our extraordinary scientists work in each of these locations advancing studies in their particular areas of study...
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A Burmese python slithering in the grass in the Everglades.

Environmental DNA (eDNA) Sampling Improves Occurrence and Detection Estimates of Invasive Burmese Pythons and Other Constrictor Snakes in Florida

Environmental DNA (eDNA) is organismal DNA that can be found in the environment. Environmental DNA originates from cellular material shed by organisms (via skin, excrement, etc.) into aquatic or terrestrial environments that can be sampled and monitored using new molecular methods. Such methodology is important for the early detection of invasive species as well as the detection of rare and...
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Ecosystems Mission Area, Biological Threats and Invasive Species Research Program, Fort Collins Science Center
Environmental DNA (eDNA) Sampling Improves Occurrence and Detection Estimates of Invasive Burmese Pythons and Other Constrictor Snakes in Florida

Environmental DNA (eDNA) Sampling Improves Occurrence and Detection Estimates of Invasive Burmese Pythons and Other Constrictor Snakes in Florida

Environmental DNA (eDNA) is organismal DNA that can be found in the environment. Environmental DNA originates from cellular material shed by organisms (via skin, excrement, etc.) into aquatic or terrestrial environments that can be sampled and monitored using new molecular methods. Such methodology is important for the early detection of invasive species as well as the detection of rare and...
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Filter Total Items: 14

Greater sage-grouse genetic data and R code for evaluating conservation translocations in the northwestern United States, 1992–2021 (ver. 1.1, December 2024) Greater sage-grouse genetic data and R code for evaluating conservation translocations in the northwestern United States, 1992–2021 (ver. 1.1, December 2024)

Conservation translocations are a common wildlife management tool that can be difficult to implement and evaluate for effectiveness. Genetic information can provide unique insight regarding local impact of translocations (e.g., presence and retention of introduced genetic variation) and identifying suitable source and recipient populations (e.g., adaptive similarity). We developed two...
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Fort Collins Science Center

Whole genome sequencing of three North American large-bodied birds Whole genome sequencing of three North American large-bodied birds

The data release details the samples, methods, and raw data used to generate high-quality genome assemblies for greater sage-grouse (Centrocercus urophasianus), white-tailed ptarmigan (Lagopus leucura), and trumpeter swan (Cygnus buccinator). The raw data have been deposited in the Sequence Read Archive (SRA) of the National Center for Biotechnology Information (NCBI), the authoritative...
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Fort Collins Science Center

Reduced representation sequencing and genotyping of Arizona Toads (Anaxyrus microscaphus) from the southwestern United States Reduced representation sequencing and genotyping of Arizona Toads (Anaxyrus microscaphus) from the southwestern United States

The dataset consists of genotypes (diploid base calls at variant sites) at 3,601 anonymous sites of the Arizona Toad (Anaxyrus microscaphus) nuclear genome. The genotyped samples are representative of the range of the species and its major population units, and the genotyped loci have a high degree of completeness. This data release consists of several files: 1. sample.metadata.txt...
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Fort Collins Science Center

Sample collection information and microsatellite data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho Sample collection information and microsatellite data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho

This dataset contains sample collection information and microsatellite genotype data for Northern Black Swifts in 6 colonies across Colorado, New Mexico and Idaho. This data was collected to examine levels of genetic diversity and connectivity among Black Swift colonies and also to assess parentage at a subset of those sites. This study helps clarify the breeding system of the Black...
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Fort Collins Science Center

Voucher and metagenetic sequencing of DNA barcodes of wild-collected bees (Apoidea) from Iowa, USA Voucher and metagenetic sequencing of DNA barcodes of wild-collected bees (Apoidea) from Iowa, USA

High-throughput methods for identification of pollinator taxa are desirable to improve our understanding of pollinator distributions, population trends, and ecology. Genetic sequencing of taxonomically informative 'barcode' loci is one high-throughput strategy, which can be applied to individual specimens using Sanger technology and to complex mixtures using metabarcoding technology...
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Fort Collins Science Center

Genotypes and cluster definitions for a range-wide greater sage-grouse dataset collected 2005-2017 (ver 1.1, January 2023) Genotypes and cluster definitions for a range-wide greater sage-grouse dataset collected 2005-2017 (ver 1.1, January 2023)

Monitoring change in genetic diversity in wildlife populations across multiple scales could facilitate prioritization of conservation efforts. We used microsatellite genotypes from 7,080 previously collected genetic samples from across the greater sage-grouse (Centrocercus urophasianus) range to develop a modelling framework for estimating genetic diversity within a recently developed
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Fort Collins Science Center

Greater sage-grouse genetic warning system, western United States (ver 1.1, January 2023) Greater sage-grouse genetic warning system, western United States (ver 1.1, January 2023)

Genetic variation is a well-known indicator of population fitness yet is not typically included in monitoring programs for sensitive species. Additionally, most programs monitor populations at one scale, which can lead to potential mismatches with ecological processes critical to species’ conservation. Recently developed methods generating hierarchically nested population units (i.e...
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Fort Collins Science Center

Metabarcode sequencing of aquatic environmental DNA from the Potomac River Watershed, 2015-2020 Metabarcode sequencing of aquatic environmental DNA from the Potomac River Watershed, 2015-2020

Biological indicator taxa have long been used for integrative assessments of water quality, particularly benthic invertebrate groups such as arthropods. While standardized protocols have been developed to calculate 'biological index' scores based on the abundances of these taxa, such systems are challenging to implement at large scales due to the sampling effort required, taxonomic...
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Fort Collins Science Center

Microsatellite data, boundaries of subpopulation centers, and estimated effective migration for greater sage-grouse collected in western North America between 1992 and 2015 (ver. 2.0, December 2022) Microsatellite data, boundaries of subpopulation centers, and estimated effective migration for greater sage-grouse collected in western North America between 1992 and 2015 (ver. 2.0, December 2022)

Greater Sage-grouse were sampled for genetic analysis with the goal of quantifying genetic structure and gene flow across the entire species range in the U.S. and Canada. Data presented here consist of two data sets both including genetic data from 15 microsatellite markers. Most samples were collected between 2005 and 2015 (feathers collected non-invasively off the ground) yet some...
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Fort Collins Science Center

Genetic variation in hoary bats (Lasiurus cinereus) assessed from archived samples Genetic variation in hoary bats (Lasiurus cinereus) assessed from archived samples

Hoary bats are among the bat species most commonly killed by turbine strikes in the midwestern United States. The impact of this mortality on species census size is not understood, due in part to the difficulty of estimating population size for this highly migratory and elusive species. Genetic effective population size (Ne) could provide an index of census population size if other...
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Fort Collins Science Center

Taxonomic composition of environmental DNA acquired by filtration from the St. Regis River, New York Taxonomic composition of environmental DNA acquired by filtration from the St. Regis River, New York

Environmental DNA (eDNA) surveys have become important tools for monitoring aquatic biodiversity. Barcode sequencing of eDNA generates community profiles that, while potentially biased in both capture and amplification, can nonetheless yield high information content per unit cost. While factors affecting eDNA capture and amplification have been heavily studied, watershed-scale...
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Fort Collins Science Center

Sample collection information, single nucleotide polymorphism, and microsatellite data for white-tailed ptarmigan across the species range generated in the Molecular Ecology Lab during 2016 Sample collection information, single nucleotide polymorphism, and microsatellite data for white-tailed ptarmigan across the species range generated in the Molecular Ecology Lab during 2016

This data release comprises a dataset that contains sample collection information and microsatellite genotypes, and another dataset that contains single nucleotide polymorphism (SNP) genotypes with sample collection information for populations of white-tailed ptarmigan across the species' range. There is also an additional file (accession numbers.xlsx) linking samples to accession...
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Fort Collins Science Center
two people in lab coats look at a the screen of a large machine
Researchers look at genetic data in the Molecular Ecology Lab
Researchers look at genetic data in the Molecular Ecology Lab
two people in lab coats look at a the screen of a large machine

Researchers look at genetic data in the Molecular Ecology Lab

Researchers look at genetic data in the Molecular Ecology Lab

FORT researchers Sara Oyler-McCance and Jenny Fike discuss genetic data in the Molecular Ecology Lab.

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Fort Collins Science Center
two people in lab coats look at a the screen of a large machine

Researchers look at genetic data in the Molecular Ecology Lab

Researchers look at genetic data in the Molecular Ecology Lab

FORT researchers Sara Oyler-McCance and Jenny Fike discuss genetic data in the Molecular Ecology Lab.

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Fort Collins Science Center
The Molecular Ecology Lab at the Fort Collins Science Center.
Molecular Ecology Lab
Molecular Ecology Lab
The Molecular Ecology Lab at the Fort Collins Science Center.

Molecular Ecology Lab

Molecular Ecology Lab

The Molecular Ecology Lab at the Fort Collins Science Center. 

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Fort Collins Science Center
The Molecular Ecology Lab at the Fort Collins Science Center.

Molecular Ecology Lab

Molecular Ecology Lab

The Molecular Ecology Lab at the Fort Collins Science Center. 

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Fort Collins Science Center
Filter Total Items: 39

High genetic diversity, low population genetic structure, strong natal philopatry, and longevity revealed in the Black Swift (Cypseloides niger borealis) High genetic diversity, low population genetic structure, strong natal philopatry, and longevity revealed in the Black Swift (Cypseloides niger borealis)

Genetic diversity is a critical cornerstone of biodiversity and is a central goal in management and conservation biology. Such diversity has implications for survivability, adaptability, and resiliency of a species. This study aimed to determine levels of genetic diversity and population genetic structure in the Northern Black Swift (Cypseloides niger borealis). This species nests across...
Authors
Carolyn Gunn, Kim Potter, Jennifer A. Fike, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

A genetic assessment of natural barriers for isolating a habitat network proposed for Greenback Cutthroat Trout reintroduction A genetic assessment of natural barriers for isolating a habitat network proposed for Greenback Cutthroat Trout reintroduction

Objective: Native inland trout conservation efforts rely on physical barriers to exclude nonnative salmonids from target habitats. We used genetic techniques to evaluate a series of natural waterfalls for their potential to serve as barriers to prevent nonnative salmonids from entering a proposed reintroduction area for federally threatened Greenback Cutthroat Trout Oncorhynchus...
Authors
Taylor Stack, Matthew Fairchild, Rachel Geiger, Sara Oyler-McCance, Jennifer A. Fike, Christopher Kennedy, Dana Winkelman, Yoichiro Kanno
By
Ecosystems Mission Area, Fort Collins Science Center

The potential influence of genome-wide adaptive divergence on conservation translocation outcome in an isolated greater sage-grouse population The potential influence of genome-wide adaptive divergence on conservation translocation outcome in an isolated greater sage-grouse population

Conservation translocations are an important conservation tool commonly employed to augment declining or reestablish extirpated populations. One goal of augmentation is to increase genetic diversity and reduce the risk of inbreeding depression (i.e., genetic rescue). However, introducing individuals from significantly diverged populations risks disrupting coadapted traits and reducing...
Authors
Shawna Zimmerman, Cameron Aldridge, Michael Schroeder, Jennifer A. Fike, Robert Cornman, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

Comparing modern identification methods for wild bees: Metabarcoding and image-based morphological taxonomic assignment Comparing modern identification methods for wild bees: Metabarcoding and image-based morphological taxonomic assignment

With the decline of bee populations worldwide, studies determining current wild bee distributions and diversity are increasingly important. Wild bee identification is often completed by experienced taxonomists or by genetic analysis. The current study was designed to compare two methods of identification including: (1) morphological identification by experienced taxonomists using images...
Authors
Cassandra Smith, Robert Cornman, Jennifer A. Fike, Johanna Kraus, Sara Oyler-McCance, Carrie Givens, Michelle Hladik, Mark Vandever, Dana W. Kolpin, Kelly Smalling
By
Ecosystems Mission Area, Water Resources Mission Area, California Water Science Center, Central Midwest Water Science Center, Fort Collins Science Center, New Jersey Water Science Center, Oregon Water Science Center, Upper Midwest Water Science Center

Genetic Connectivity in the Arizona toad (Anaxyrus microscaphus): implications for conservation of a stream dwelling amphibian in the arid Southwestern U.S. Genetic Connectivity in the Arizona toad (Anaxyrus microscaphus): implications for conservation of a stream dwelling amphibian in the arid Southwestern U.S.

The Arizona Toad (Anaxyrus microscaphus) is restricted to riverine corridors and adjacent uplands in the arid southwestern United States. As with numerous amphibians worldwide, populations are declining and face various known or suspected threats, from disease to habitat modification resulting from climate change. The Arizona Toad has been petitioned to be listed under the U.S...
Authors
Sara Oyler-McCance, Mason Ryan, Brian Sullivan, Jennifer A. Fike, Robert Cornman, J. Giermakowski, Shawna Zimmerman, R. Harrow, S.J. Hedwell, Blake R. Hossack, I. M. Latella, R. Lovish, S. Siefken, Brent H. Sigafus, Erin L. Muths
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Ecosystems Mission Area, Fort Collins Science Center, Northern Rocky Mountain Science Center

Genetic mark–recapture analysis reveals large annual variation in pre-breeding sex ratio of greater sage-grouse Genetic mark–recapture analysis reveals large annual variation in pre-breeding sex ratio of greater sage-grouse

Sex ratio, and the extent to which it varies over time, is an important factor in the demography, management, and conservation of wildlife populations. Greater sage-grouse Centrocercus urophasianus populations in western North America are monitored using counts of males at leks in spring. Population estimates derived from lek-count data typically assume a constant, female-biased sex...
Authors
Jessica Shyvers, Brett Walker, Sara Oyler-McCance, Jennifer A. Fike, Barry Noon
By
Ecosystems Mission Area, Fort Collins Science Center

Assessing arthropod diversity metrics derived from stream environmental DNA: Spatiotemporal variation and paired comparisons with manual sampling Assessing arthropod diversity metrics derived from stream environmental DNA: Spatiotemporal variation and paired comparisons with manual sampling

Background Benthic invertebrate (BI) surveys have been widely used to characterize freshwater environmental quality but can be challenging to implement at desired spatial scales and frequency. Environmental DNA (eDNA) allows an alternative BI survey approach, one that can potentially be implemented more rapidly and cheaply than traditional methods.Methods We evaluated eDNA analogs of BI...
Authors
Aaron Aunins, Sara Mueller, Jennifer A. Fike, Robert Cornman
By
Ecosystems Mission Area, Fort Collins Science Center, Eastern Ecological Science Center

Simulation of genetic change under four removal strategies for a wild horse population Simulation of genetic change under four removal strategies for a wild horse population

Small and/or artificially reduced populations can suffer genetic erosion with long-term consequences to population fitness and persistence. However, managers must periodically remove free-roaming horses from the landscape to reduce the risk of habitat degradation. We developed an individual-based population simulation model to evaluate the expected change in genetic diversity after 100...
Authors
Shawna Zimmerman, Jennifer A. Fike, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

A genetic warning system for a hierarchically structured wildlife monitoring framework A genetic warning system for a hierarchically structured wildlife monitoring framework

Genetic variation is a well-known indicator of population fitness yet is not typically included in monitoring programs for sensitive species. Additionally, most programs monitor populations at one scale, which can lead to potential mismatches with ecological processes critical to species' conservation. Recently developed methods generating hierarchically nested population units (i.e...
Authors
Shawna Zimmerman, Cameron Aldridge, Michael O’Donnell, David Edmunds, Peter Coates, Brian Prochazka, Jennifer A. Fike, Todd Cross, Bradley Fedy, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center, Western Ecological Research Center (WERC)

Gene flow and spatial population structure of Brook Trout in a large headwater stream network in Colorado Gene flow and spatial population structure of Brook Trout in a large headwater stream network in Colorado

We studied gene flow of non-native Brook Trout Salvelinus fontinalis in a 60-km section of continuous stream network in the upper Cache la Poudre River basin, where a large-scale reclamation effort to restore federally threatened Greenback Cutthroat Trout Oncorhynchus clarkii stomias (GBCT) is taking place. This effort—the Poudre Headwaters Project—represents the most important recovery...
Authors
Audrey Harris, Matthew Fairchild, Sara Oyler-McCance, Jennifer A. Fike, Christopher Kennedy, Dana Winkleman, Yoichiro Kanno
By
Ecosystems Mission Area, Fort Collins Science Center

Genetic analyses provide new insight on the mating strategies of the American Black Swift (Cypseloides niger) Genetic analyses provide new insight on the mating strategies of the American Black Swift (Cypseloides niger)

Avian mating strategies play a vital role in the demographic and genetic dynamics of a species and understanding avian reproductive tactics is important to conservation, population management and restoration. Classifications of avian mating strategies have historically been based on direct physical observations and tend to be rigid population-level generalizations that overlook the...
Authors
Carolyn Gunn, Kim Potter, Jennifer A. Fike, Sara Oyler-McCance
By
Ecosystems Mission Area, Fort Collins Science Center

New strategies for characterizing genetic structure in wide-ranging, continuously distributed species: a Greater Sage-grouse case study New strategies for characterizing genetic structure in wide-ranging, continuously distributed species: a Greater Sage-grouse case study

Characterizing genetic structure across a species’ range is relevant for management and conservation as it can be used to define population boundaries and quantify connectivity. Wide-ranging species residing in continuously distributed habitat pose substantial challenges for the characterization of genetic structure as many analytical methods used are less effective when isolation by...
Authors
Sara Oyler-McCance, Todd Cross, Jeffery Row, Michael Schwartz, Dave Naugle, Jennifer A. Fike, Kristopher Winiarski, Brad Fedy
By
Ecosystems Mission Area, Fort Collins Science Center

Non-USGS Publications**

Dharmarajan, G., J.C.Beasley, W.S. Beatty, Z.H.Olson, J. A. Fike and Olin E. Rhodes, Jr. 2016. Genetic co-structuring in host parasite systems: Empirical data from raccoons and raccoon ticks. Ecosphere 7(3):e01269
Dharmarajan, G., J.C.Beasley, J. A. Fike and Olin E. Rhodes, Jr. 2014. Effects of landscape, demographic and behavioral factors on kin structure: testing ecological predictions in a mesopredator with high dispersal capability. Animal Conservation. 17(3): 225-234. http://onlinelibrary.wiley.com/doi/10.1111/acv.12086/full
Fike, J.A., C.A. Hennessy, M.L. Kennedy, and O.E. Rhodes, Jr. 2013. Eleven microsatellite markers for the eastern gray squirrel (Sciurus carolinensis) and their utility in fox squirrels (Sciurus niger) and red squirrels (Tamiasciurus hudsonicus). Conservation Genetics Resources. 5: 679-681.
Dharmarajan, G., J.C.Beasley, J. A. Fike, E. A. Raizman, C. C. Wu, R. M. Pogranichniy and Olin E. Rhodes, Jr. 2012. Effects of kin-structure on disease dynamics in raccoons (Procyon lotor) inhabiting a fragmented landscape. Basic and Applied Ecology. 13:560-567.
Atwood, T.C., J.K. Young, J.P. Beckmann, S.W. Breck, J. Fike, O.E. Rhodes Jr, and K.D. Bristow. 2011. Modeling connectivity of black bears in a desert sky island archipelago. Biological Conservation 144: 2851-2862.
Kimble, S.J, J.A. Fike, O.E. Rhodes, Jr., and R.N. Williams. 2011. Identification of 12 polymorphic microsatellite loci for the eastern box turtle (Terrapene carolina carolina). Conservation Genetics Resources 3:65-67.
Hapeman,P., E.K. Latch, J.A. Fike, O.E. Rhodes, and C.W. Kilpatrick. 2011. Landscape Genetics of Fishers (Martes pennanti) in the Northeast: Dispersal Barriers and Historical Influences. Journal of Heredity 102: 251-259.
Unger, S.D., J.A. Fike, T. Sutton, O.E. Rhodes, Jr., and R.N. Williams. 2010. Isolation and development of 12 polymorphic tetranucleotide microsatellite markers for the eastern hellbender (Cryptobranchus alleganiensis alleganiensis) Conservation GeneticsResources 2:89-91.
Fike, J.A., T.L. DeVault, and O.E. Rhodes, Jr. 2009. Identification of twenty-four polymorphic microsatellite markers for the double-crested cormorant (Phalacrocorax auritus). Molecular Ecology Resources 9:1183-1185.
Fike, J.A., J.C. Beasley, and O.E. Rhodes, Jr. 2009. Isolation of twenty-one polymorphic microsatellite markers for Virginia opossum (Didelphis virginiana). Molecular Ecology Resources 9:1200-1202.
Fike, J.A., G. Athrey, R. Bowman, P.L. Leberg, and O.E. Rhodes, Jr. 2009. Development of twenty-five polymorphic microsatellite markers for the endangered red-cockaded woodpecker (Picoides borealis). Conservation Genetics 10:1021-1023.
Fike, J.A. and O.E. Rhodes, Jr. 2009. Characterization of twenty-six polymorphic microsatellite markers for the fox squirrel (Sciurus niger) and their utility in other squirrel species. Conservation Genetics 10:1545-1548.
Dharmarajan, G., J.A. Fike, J.C. Beasley and O.E. Rhodes, Jr. 2009. Development and characterization of 12 polymorphic microsatellite loci in the American dog tick (Dermacentor variabilis). Molecular Ecology Resources 9:131-133.
Dharmarajan, G., J.A. Fike, J.C. Beasley and O.E. Rhodes, Jr. 2009. Development and characterization of 14 polymorphic microsatellite loci in the raccoon tick (Ixodes texanus). Molecular Ecology Resources 9:296-298.
Latch, E.K., J.A. Heffelfinger, J.A. Fike, and O.E. Rhodes, Jr. 2009. Species-wide phylogeography of North American mule deer (Odocoileus hemionus): cryptic glacial refugia and postglacial recolonization. Molecular Ecology 18:1730-1745.
Dharmarajan, G., J.C. Beasley, J.A. Fike, and O.E. Rhodes, Jr. 2009. Population genetic structure of raccoons (Procyon lotor) in a fragmented landscape. Canadian J. Zoology 87:814-824.
Drauch, A. M., B.E. Fisher, E.K. Latch, J. A. Fike and O. E. Rhodes, Jr. 2008. Evaluation of a remnant lake sturgeon population’s utility as a source for reintroductions in the Ohio River system. Conservation Genetics 9:1195-1209.
Latch, E.K, D.G. Scognamillo, J.A Fike, M.J. Chamberlain and O.E. Rhodes, Jr. 2008.Landscape genetics of coastal and inland river otters (Lontra canadensis) in Louisiana. Journal of Heredity 99:265-274.
Victory, E.R., J.C. Glaubitz, J.A. Fike, O.E. Rhodes, Jr. and K.E. Woeste. 2008. Different histories but similar genetic diversity and structure for black walnut in Indiana and Missouri. Pages 436-445, In Jacobs, D.F. and Michler C.H. (eds) Proceedings, 16th Central Hardwood Forest Conference; 2008 April 8-10: Lafayette, USDA Forest Service Northern Research Station Technical Report NRS-P-24.
Fike, J.A., G. Dharmarajan, A. M. Drauch and O.E. Rhodes, Jr. 2007. Development of polymorphic microsatellite loci for raccoons (Procyon lotor). Molecular Ecology Notes 7:525-527.
Anderson, S.J., J.A. Fike, G. Dharmarajan, and O.E. Rhodes, Jr. 2007. Characterization of 12 polymorphic microsatellite loci for eastern chipmunks (Tamias striatus). Molecular Ecology Notes 7:513-515.
Beheler, A.S., J.A. Fike and O.E. Rhodes, Jr. 2007. Eight new polymorphic microsatellite loci from the eastern phoebe (Sayornis phoebe). Conservation Genetics 8:1259-1261.
Beheler, A. S., J. A. Fike, G. Dharmarajan, O. E. Rhodes, Jr., and T. L. Serfass. 2005. Ten new polymorphic microsatellite loci for North American river otters (Lontracanadensis) and their utility in related mustelids. Molecular Ecology Notes 5:602-604.
Beheler, A. S., J. A. Fike, L. M. Murfitt, O. E. Rhodes, Jr., and T. L. Serfass. 2004.Development of polymorphic microsatellite loci for North American river otters (Lontra canadensis) and amplification in related Mustelids. Molecular Ecology Notes 4:56-58.
Fike, J.A., T.L. Serfass, A.S. Beheler and O.E. Rhodes, Jr. 2004. Evaluation of preservation methods for DNA analyses of river otter scat: Probability of amplification and genotyping accuracy. Proceedings of the XI International Otter Colloquium Volume 21A.

**Disclaimer: The views expressed in Non-USGS publications are those of the author and do not represent the views of the USGS, Department of the Interior, or the U.S. Government.

Scientists from the FORT Molecular Ecology Lab teach local 6th grade students all about DNA!

Scientists from the FORT Molecular Ecology Lab teach local 6th grade students all about DNA!

On February 14, 2024, Sara Oyler-McCance (FORT Supervisory Research Geneticist) and Jenny Fike (FORT Geneticist) hosted 6th graders from the Compass...

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