195 results on '"J Homola"'
Search Results
2. High‐density genomic data reveal fine‐scale population structure and pronounced islands of adaptive divergence in lake whitefish (Coregonus clupeaformis) from Lake Michigan
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Yue Shi, Jared J. Homola, Peter T. Euclide, Daniel A. Isermann, David C. Caroffino, Megan V. McPhee, and Wesley A. Larson
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adaptive divergence ,genome scan ,Lake Michigan ,lake whitefish ,population structure ,rapture ,Evolution ,QH359-425 - Abstract
Abstract Understanding patterns of genetic structure and adaptive variation in natural populations is crucial for informing conservation and management. Past genetic research using 11 microsatellite loci identified six genetic stocks of lake whitefish (Coregonus clupeaformis) within Lake Michigan, USA. However, ambiguity in genetic stock assignments suggested those neutral microsatellite markers did not provide adequate power for delineating lake whitefish stocks in this system, prompting calls for a genomics approach to investigate stock structure. Here, we generated a dense genomic dataset to characterize population structure and investigate patterns of neutral and adaptive genetic diversity among lake whitefish populations in Lake Michigan. Using Rapture sequencing, we genotyped 829 individuals collected from 17 baseline populations at 197,588 SNP markers after quality filtering. Although the overall pattern of genetic structure was similar to the previous microsatellite study, our genomic data provided several novel insights. Our results indicated a large genetic break between the northwestern and eastern sides of Lake Michigan, and we found a much greater level of population structure on the eastern side compared to the northwestern side. Collectively, we observed five genomic islands of adaptive divergence on five different chromosomes. Each island displayed a different pattern of population structure, suggesting that combinations of genotypes at these adaptive regions are facilitating local adaptation to spatially heterogenous selection pressures. Additionally, we identified a large linkage disequilibrium block of ~8.5 Mb on chromosome 20 that is suggestive of a putative inversion but with a low frequency of the minor haplotype. Our study provides a comprehensive assessment of population structure and adaptive variation that can help inform the management of Lake Michigan's lake whitefish fishery and highlights the utility of incorporating adaptive loci into fisheries management.
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- 2022
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3. An In-time Aviation Safety Management System (IASMS) Concept of Operations for Vertiport Design and Operations
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K Ellis, L Prinzel, M Davies, J Homola, L Glaab, P Krois, N Oza, R Mah, C Stephens, M Vincent, J Ackerson, and S Infeld
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Air Transportation And Safety - Abstract
The National Airspace System is foreseen to undergo revolutionary change with Urban Air Mobility (UAM) and its use of vertiports to transport passengers and cargo. To assure safety with UAM and more broadly with Advanced Air Mobility (AAM), the National Academies recommended an In-time Aviation Safety Management System (IASMS) that is extensible to the design and operation of vertiports. Vertiport designs will scale in several dimensions including physical size and infrastructure depending upon location and in the Services, Functions, and Capabilities required for assuring safety with increasingly complex vertiport designs and operations. These operations will be enabled by evolving technologies including electric vertical takeoff and landing (eVTOL) aircraft for passenger-and cargo-carrying commercial transportation. Within this construct, safety hazards and risk mitigations involving predictive data analytics and modeling will be used. Use cases and future challenges are examined to guide maturation of the IASMS ConOps for vertiports.
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- 2023
4. Meta‐analysis: Congruence of genomic and phenotypic differentiation across diverse natural study systems
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Zachary T. Wood, Andrew K. Wiegardt, Kayla L. Barton, Jonathan D. Clark, Jared J. Homola, Brian J. Olsen, Benjamin L. King, Adrienne I. Kovach, and Michael T. Kinnison
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candidate gene approaches ,F ST ,GWAS ,natural selection ,outlier analysis ,P ST ,Evolution ,QH359-425 - Abstract
Abstract Linking genotype to phenotype is a primary goal for understanding the genomic underpinnings of evolution. However, little work has explored whether patterns of linked genomic and phenotypic differentiation are congruent across natural study systems and traits. Here, we investigate such patterns with a meta‐analysis of studies examining population‐level differentiation at subsets of loci and traits putatively responding to divergent selection. We show that across the 31 studies (88 natural population‐level comparisons) we examined, there was a moderate (R2 = 0.39) relationship between genomic differentiation (FST) and phenotypic differentiation (PST) for loci and traits putatively under selection. This quantitative relationship between PST and FST for loci under selection in diverse taxa provides broad context and cross‐system predictions for genomic and phenotypic adaptation by natural selection in natural populations. This context may eventually allow for more precise ideas of what constitutes “strong” differentiation, predictions about the effect size of loci, comparisons of taxa evolving in nonparallel ways, and more. On the other hand, links between PST and FST within studies were very weak, suggesting that much work remains in linking genomic differentiation to phenotypic differentiation at specific phenotypes. We suggest that linking genotypes to specific phenotypes can be improved by correlating genomic and phenotypic differentiation across a spectrum of diverging populations within a taxon and including wide coverage of both genomes and phenomes.
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- 2021
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5. RAPTURE (RAD capture) panel facilitates analyses characterizing sea lamprey reproductive ecology and movement dynamics
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Nicholas M. Sard, Seth R. Smith, Jared J. Homola, Jeannette Kanefsky, Gale Bravener, Jean V. Adams, Christopher M. Holbrook, Peter J. Hrodey, Kevin Tallon, and Kim T. Scribner
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Great Lakes ,pedigree reconstruction ,population structure ,RAD capture ,Sea lamprey ,Ecology ,QH540-549.5 - Abstract
Abstract Genomic tools are lacking for invasive and native populations of sea lamprey (Petromyzon marinus). Our objective was to discover single nucleotide polymorphism (SNP) loci to conduct pedigree analyses to quantify reproductive contributions of adult sea lampreys and dispersion of sibling larval sea lampreys of different ages in Great Lakes tributaries. Additional applications of data were explored using additional geographically expansive samples. We used restriction site‐associated DNA sequencing (RAD‐Seq) to discover genetic variation in Duffins Creek (DC), Ontario, Canada, and the St. Clair River (SCR), Michigan, USA. We subsequently developed RAD capture baits to genotype 3,446 RAD loci that contained 11,970 SNPs. Based on RAD capture assays, estimates of variance in SNP allele frequency among five Great Lakes tributary populations (mean FST 0.008; range 0.00–0.018) were concordant with previous microsatellite‐based studies; however, outlier loci were identified that contributed substantially to spatial population genetic structure. At finer scales within streams, simulations indicated that accuracy in genetic pedigree reconstruction was high when 200 or 500 independent loci were used, even in situations of high spawner abundance (e.g., 1,000 adults). Based on empirical collections of larval sea lamprey genotypes, we found that age‐1 and age‐2 families of full and half‐siblings were widely but nonrandomly distributed within stream reaches sampled. Using the genomic scale set of SNP loci developed in this study, biologists can rapidly genotype sea lamprey in non‐native and native ranges to investigate questions pertaining to population structuring and reproductive ecology at previously unattainable scales.
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- 2020
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6. Landscape genetics reveals unique and shared effects of urbanization for two sympatric pool‐breeding amphibians
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Jared J. Homola, Cynthia S. Loftin, and Michael T. Kinnison
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circuit theory ,landscape genetics ,microsatellites ,urbanization ,vernal pool ,Ecology ,QH540-549.5 - Abstract
Abstract Metapopulation‐structured species can be negatively affected when landscape fragmentation impairs connectivity. We investigated the effects of urbanization on genetic diversity and gene flow for two sympatric amphibian species, spotted salamanders (Ambystoma maculatum) and wood frogs (Lithobates sylvaticus), across a large (>35,000 km2) landscape in Maine, USA, containing numerous natural and anthropogenic gradients. Isolation‐by‐distance (IBD) patterns differed between the species. Spotted salamanders showed a linear and relatively high variance relationship between genetic and geographic distances (r = .057, p
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- 2019
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7. De novo transcriptome assembly and data for the blue-winged teal (Spatula discors)
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Amanda C. Dolinski, Jared J. Homola, Mark D. Jankowski, and Jennifer C. Owen
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Avian ,Transcriptome ,Influenza ,Trinity ,RNAseq ,Computer applications to medicine. Medical informatics ,R858-859.7 ,Science (General) ,Q1-390 - Abstract
The blue-winged teal (Spatula discors) is a recreationally and ecologically important dabbling duck species in North America. Transcriptomic data of this species can be used in public and animal health studies given its role as a natural reservoir host for avian influenza, which can be a zoonotic disease of high concern. Ileum and bursa of Fabricius tissues were sampled from six captive raised blue-winged teals, four of the six who were experimentally infected with low-pathogenic avian influenza virus H5N9. RNAseq data were generated from extracted total mRNA from each tissue and pooled to create a de novo assembly of the transcriptome using Trinity. A total of 571,105 transcripts were identified at 449,956 unique unigenes that have been functionally annotated. This transcriptome will be useful for future blue-winged teal gene expression research, especially in hypothesis driven differential expression studies to determine the driving forces of avian influenza host-pathogen interactions, spatial distribution, and transmission.
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- 2020
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8. Resist‐accept‐direct (RAD) considerations for climate change adaptation in fisheries: The Wisconsin experience
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Zachary S. Feiner, Aaron D. Shultz, Greg G. Sass, Ashley Trudeau, Matthew G. Mitro, Colin J. Dassow, Alexander W. Latzka, Daniel A. Isermann, Bryan M. Maitland, Jared J. Homola, Holly S. Embke, and Michael Preul
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Ecology ,Aquatic Science - Published
- 2022
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9. Mixed stock analysis of genetic compositions of lake sturgeon (Acipenser fulvescens) mixtures in Lake Michigan: hierarchical spatial heterogeneity and evidence of improving recruitment in Wisconsin spawning populations
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Kim T. Scribner, Edward A. Baker, Michael C. Donofrio, Kristin Bott, James R. Bence, Iyob Tsehaye, Jared J. Homola, Jeannette Kanefsky, Nancy A. Auer, Rob Elliot, and Travis O. Brenden
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Fishery ,biology ,Site occupancy ,%22">Fish ,Acipenser ,Aquatic Science ,biology.organism_classification ,Lake sturgeon ,Ecology, Evolution, Behavior and Systematics ,Stock (geology) ,Spatial heterogeneity - Abstract
Information regarding site occupancy of fish that migrate long distances during nonspawning periods together with estimates of recruitment trends for individual populations can be informative for management, especially when individuals from different spawning populations intermix and are sampled or harvested together. Tendencies for individuals from different populations to preferentially occupy specific regions increases vulnerability to anthropogenic and natural disturbances. Using mixed stock analysis (MSA), we estimated population-specific occupancy of lake sturgeon (Acipenser fulvescens) in open-water and nearshore regions of Lake Michigan across a hierarchy of spatial scales. Open-water mixture composition differed between Lake Michigan’s eastern and western basins. Significant heterogeneity in habitat occupancy was also observed at microgeographic scales throughout open-water regions of Green Bay, indicating nonrandom occupancy to regions proximal to natal streams. Estimates of relative recruitment levels determined from MSA extensions indicated increasing recruitment trends for spawning populations associated with Wisconsin tributaries (Oconto–Peshtigo, Fox, and Menominee rivers). Our lake sturgeon results demonstrate the utility of genetic data for informing management efforts for spatially structured, highly migratory species. Similar analyses could prove beneficial for species with similar characteristics.
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- 2022
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10. Coalescent methods reconstruct contributions of natural colonization and stocking to origins of Michigan inland Cisco (Coregonus artedi)
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Gary Whelan, Kim T. Scribner, Wendylee Stott, Jeannette Kanefsky, Jared J. Homola, and John D. Robinson
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Coregonus clupeaformis ,education.field_of_study ,Ecology ,Population ,Aquatic Science ,Biology ,biology.organism_classification ,Coalescent theory ,Genetic divergence ,Stocking ,Fish stocking ,parasitic diseases ,Coregonus ,education ,Population dynamics of fisheries ,Ecology, Evolution, Behavior and Systematics - Abstract
Fish population structure in previously glaciated regions is often influenced by natural colonization processes and human-mediated dispersal, including fish stocking. Endemic populations are of conservation interest because they may contain rare and unique genetic variation. While coregonines are native to certain Michigan inland lakes, some were stocked with fish from Great Lakes sources, calling into question the origin of extant populations. While most stocking targeted lake whitefish (Coregonus clupeaformis), cisco (C. artedi) were also stocked from the Great Lakes to inland waterbodies. We used population genetic data (microsatellite genotypes and mitochondrial (mt)DNA sequences), coalescent modeling, and approximate Bayesian computation to investigate the origins of 12 inland Michigan cisco populations. The spatial distribution of mtDNA haplotypes suggests Michigan is an introgression zone for two ancestral cisco lineages associated with separate glacial refugia. Low levels of genetic diversity and high levels of genetic divergence were observed for populations located well inland of the Great Lakes relative to populations occupying waterbodies near the Great Lakes. Estimates of recent Great Lakes gene flow ranged from 27 to 48% for populations near the Great Lakes shoreline but were substantially lower (under 8%) for populations further inland. Inland lakes with elevated recent gene flow estimates may have been recipients of stocked coregonine fry, including cisco. Low levels of genetic diversity paired with a high likelihood of endemism as indicated by strong genetic divergence and low Great Lakes population inputs suggest the analyzed cisco populations occupying southern Michigan kettle lakes are of elevated conservation interest.
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- 2021
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11. P09.19 Complex primary organoid cultures to dissect immunogenic effects of therapy on macrophages in a precision medicine-like approach
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J Kabiljo, J Homola, A Theophil, J Karall, N Hartman, L Tran, J Laengle, M Fabits, VS Atanasova, G Egger, H Dolznig, and M Bergamnn
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- 2022
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12. P09.18 TNF induction in essential for oncolytic influenza A virus induced cancer regression and tumor associated macrophage repolarization
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J Homola, J Kabiljo, A Theophil, N Hartman, I Kovacs, J Karall, KE Lechner, C Klicka, J Laengle, M Fabits, VS Atanasova, B Dome, H Dolznig, G Egger, H Walczak, and M Bergamnn
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- 2022
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13. Watershed-scale landuse is associated with temporal and spatial compositional variation in Lake Michigan tributary bacterial communities
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Kim T. Scribner, Terence L. Marsh, Gabrielle E. Sanfilippo, Jared J. Homola, Jared Ross, Jeannette Kanefsky, and Jacob Kimmel
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0106 biological sciences ,geography ,Ecosystem health ,geography.geographical_feature_category ,Watershed ,Ecology ,010604 marine biology & hydrobiology ,010501 environmental sciences ,Aquatic Science ,01 natural sciences ,Current (stream) ,Tributary ,Environmental science ,Biological dispersal ,Ecosystem ,Relative species abundance ,Ecology, Evolution, Behavior and Systematics ,0105 earth and related environmental sciences ,Trophic level - Abstract
Populations of stream organisms across trophic levels, including microbial taxa, are adapted to physical and biotic stream features, and are sentinels of geological and hydrological landscape processes and anthropogenic disturbance. Stream bacterial diversity and composition can have profound effects on resident and migratory species in Great Lakes tributaries. Study objectives were to characterize and compare the taxonomic composition and diversity of bacterial communities in 18 rivers of the Lake Michigan basin during April and June 2019 and to quantify associations with stream and watershed physical features and dominant landuse practices. River water was filtered, and genomic DNA was extracted from filtrate using antiseptic techniques. We performed high-throughput amplicon sequencing using the highly variable V4 region of the 16S rRNA gene to characterize microbial community composition and diversity. Effects of landscape-scale landuse, environmental variables and dispersal predictors (e.g., inter-stream distance) on community compositional differences were quantified. Greater than 90% of variation in bacterial relative abundance between rivers and time were attributed to 11 phyla representing 10,800 operational taxonomic units. Inter-stream geographic distance, stream hydrology, and variation in stream properties that were tied to patterns of watershed landuse were significantly associated with differences in bacterial community composition among streams at both sampling time periods. based on Bray-Curtis distances. Understanding how environmental characteristics and watershed-scale landuse influence lower trophic level stream communities such as bacteria will inform managers as biological indicators of ecosystem health, sources of disturbance, and current and future bottom-up trophic changes in coupled tributary-Great Lakes ecosystems.
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- 2021
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14. A statistical model for monitoring shell disease in inshore lobster fisheries: A case study in Long Island Sound.
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Kisei R Tanaka, Samuel L Belknap, Jared J Homola, and Yong Chen
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Medicine ,Science - Abstract
The expansion of shell disease is an emerging threat to the inshore lobster fisheries in the northeastern United States. The development of models to improve the efficiency and precision of existing monitoring programs is advocated as an important step in mitigating its harmful effects. The objective of this study is to construct a statistical model that could enhance the existing monitoring effort through (1) identification of potential disease-associated abiotic and biotic factors, and (2) estimation of spatial variation in disease prevalence in the lobster fishery. A delta-generalized additive modeling (GAM) approach was applied using bottom trawl survey data collected from 2001-2013 in Long Island Sound, a tidal estuary between New York and Connecticut states. Spatial distribution of shell disease prevalence was found to be strongly influenced by the interactive effects of latitude and longitude, possibly indicative of a geographic origin of shell disease. Bottom temperature, bottom salinity, and depth were also important factors affecting the spatial variability in shell disease prevalence. The delta-GAM projected high disease prevalence in non-surveyed locations. Additionally, a potential spatial discrepancy was found between modeled disease hotspots and survey-based gravity centers of disease prevalence. This study provides a modeling framework to enhance research, monitoring and management of emerging and continuing marine disease threats.
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- 2017
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15. Differential gene expression reveals host factors for viral shedding variation in mallards (
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Amanda C, Dolinski, Jared J, Homola, Mark D, Jankowski, John D, Robinson, and Jennifer C, Owen
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Ducks ,Influenza A virus ,Influenza in Birds ,Animals ,Gene Expression ,Virus Shedding - Abstract
Intraspecific variation in pathogen shedding impacts disease transmission dynamics; therefore, understanding the host factors associated with individual variation in pathogen shedding is key to controlling and preventing outbreaks. In this study, ileum and bursa of Fabricius tissues of wild-bred mallards (
- Published
- 2022
16. Additive manufactured foam targets for experiments on high-power laser–matter interaction
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T. Wiste, O. Maliuk, V. Tikhonchuk, T. Lastovicka, J. Homola, K. Chadt, and S. Weber
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General Physics and Astronomy - Abstract
Additive manufactured (AM) foams in the context of high-power laser–matter interaction have emerged as a topic of significant interest. Printed foam targets provide a highly controlled environment for laser interaction and permit a high degree of versatility in terms of average density, spatial structure, and materials. These features are of great value to a variety of applications, including inertial confinement fusion and generation of intense x-rays and gamma rays. This paper describes an approach to the design and fabrication of AM foams for laser–plasma interaction experiments, including the selection of cellular structure, optimization of mechanical properties using a finite element approach, and foam printing on dielectric and conducting substrates.
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- 2023
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17. Analyzing the production of limited harmful substances from mobile sources of energy in agriculture
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J. Homola and B. Groda
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diesel oil ,biodiesel oil ,emission factor ,standard weight of fuel oil ,area size under crops ,limited harmful substance ,pollutant ,emission ,Agriculture (General) ,S1-972 - Abstract
An expert estimate of the weight of emissions produced in agriculture has been up to now made only through a final counting to the total REZZO 4 emission balance in the category of "other mobile sources" The existing situation is however unbearable since a proper methodology to determine the production of emissions in agriculture, i.e. in the department with a considerable consumption of fossil fuels, is still missing. The solution consists in a more precise specification of the weight of generated limited pollutants (CO, NOx, SO2, PM and VOC including CO2) in the department of agriculture on the basis of the measured annual consumption of fuels in agriculture and with using the emission factors of fuels. Calculated results are compared with the original values finally counted for the REZZO 4 category of "other mobile sources" in 2000 and 2001 (Adamec 2002; Adamec et el. 2003). The calculation revealed that the weight production of individual pollutants in 2000 and 2001 reached only 28% and 27% for CO, 52% and 50% for NOx, 69% and 66% for SO2, 87% and 83% for PM, and 26% and 24% for VOC of the original estimates with final counts and was therefore much lower. The share of agriculture in the weight production of emissions from mobile sources in 2000 and 2001 was 3.1% and 3.1% for CO, 11.5% and 11.5% for NOx, 19.8% and 18.8% for SO2, 38.3% and 34.6% for PM, and 3.5% and 3.6% for VOC. The development of weight production for individual pollutants in the period from 1995-2005 is expressed by means of regression equations. Coefficients of reliability indicate that the measure of reliability of the interval determined by calculation is much higher than that of the reliability interval determined by values estimated through final counting that appear incidental. There are increasing efforts today focused on the replacement of diesel oil as a traditional fossil fuel in agriculture with biodiesel oil as a more environment-friendly fuel. The second part of results includes a monitoring of the impact of biodiesel oil emissions in cases where diesel oil was replaced by this ecological fuel in agriculture in the period from 2000-2005. It follows from the analysis that the weight production of pollutants in 2000-2005 would have been reduced by 4% in CO, by 28% in SO2, by 52% in PM and by 4% in VOC while an increase by 20% and 32% would have been recorded in CO2 and NOx, respectively. Regression equations are used to express the development of the weight production of individual diesel oil and biodiesel oil pollutants in the period from 2000-2005. Reliability coefficients that are of constant character indicate that the development of the weight of pollutants from diesel oil replicates the development of biodiesel oil pollutants. The significance of achieved results consists in the provision of a more accurate general balance of emissions from one of so called other mobile sources in Czech Republic (apart from the department of transport), thus contributing among other things to a more accurate expression of the total weight of emission production within REZZO 4.
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- 2006
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18. Quantifying nonlinear temporal effects of ethanol preservation on round goby (Neogobius melanostomus) anatomical traits
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Bailey M. Lorencen, Kim T. Scribner, Jared J. Homola, and John D. Robinson
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Morphometrics ,Dorsum ,education.field_of_study ,Neogobius ,biology ,Ethanol ,Population ,Fishes ,Zoology ,Phenotypic trait ,biology.organism_classification ,Regression ,Perciformes ,Round goby ,Principal component analysis ,Animals ,Animal Science and Zoology ,education ,Introduced Species ,Ecosystem ,Developmental Biology - Abstract
Geometric morphometrics provides a powerful means of evaluating differences in phenotypic traits among specimens. However, inferences of trait variability can be confounded when measurements are based on preserved samples. We evaluated effects of ethanol preservation on morphology over a 22-week time period for a Laurentian Great Lakes invasive fish, round goby (Neogobius melanostomus, Pallas 1814), using sets of 17 lateral and six dorsal landmarks. We tested whether ethanol preservation affected the magnitude of inter-population variation between individuals collected from lake and river habitats. Generalized least square regression determined that length did not significantly vary through the preservation time series for fish from either population, while mass decreased significantly. Body shape variation was summarized using principal component analysis, which revealed that most preservation-associated changes occurred in the first 14 days. The lateral shape experienced a large magnitude change during the first 24 h in ethanol then only minor changes for the remainder of the study. The dorsal shape began to revert to pre-preservation measurements about 14 days following preservation. Additionally, differences in shape were apparent between the two populations throughout the experiment; however, the magnitude of differences between populations varied depending on whether dorsal or lateral landmarks were considered. Our study demonstrates that tissue responses to ethanol preservation can be more complex than a simple loss of mass, resulting in difficult to predict consequences for geometric morphometric analyses, including variable responses depending on the anatomical region being analyzed.
- Published
- 2021
19. Author response for 'Quantifying Nonlinear Temporal Effects of Ethanol Preservation on Round Goby ( Neogobius melanostomus ) Anatomical Traits'
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Bailey M. Lorencen, Jared J. Homola, John D. Robinson, and Kim T. Scribner
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Neogobius ,Round goby ,Zoology ,Biology ,biology.organism_classification - Published
- 2021
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20. Genetic estimates of jurisdictional and strain contributions to the northeastern Lake Michigan brown trout sportfishing harvest
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Kim T. Scribner, Alexander Samborski, Jeannette Kanefsky, and Jared J. Homola
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0106 biological sciences ,Ecology ,010604 marine biology & hydrobiology ,education ,010501 environmental sciences ,Aquatic Science ,Biology ,Genetic stock ,biology.organism_classification ,01 natural sciences ,Hatchery ,Fishery ,Brown trout ,Stocking ,Salmo ,Ecology, Evolution, Behavior and Systematics ,0105 earth and related environmental sciences - Abstract
The Lake Michigan brown trout (Salmo trutta) fishery is sustained by the stocking of five hatchery strains by four state natural resource agencies. In the absence of exhaustive marking programs, strain-specific measures of stocking success are lacking for brown trout in Lake Michigan. We used microsatellite-based genetic assignment testing and genetic stock identification (GSI) to determine the strain of 122 angler-caught brown trout from four northeastern Lake Michigan ports. We compared strain composition estimates for sportfishing harvest to expected proportions of each brown trout strain in Lake Michigan at the time of harvest using stocking records corrected for age-specific mortality rates. Reassignment rates of individuals from baseline strains averaged 92.1% (range: 84.1–98.0%). Assignment testing and GSI analyses consistently found Wild Rose strain brown trout represented approximately 89% of the northeastern Lake Michigan sportfishing harvest, while only comprising 43.8% of the expected stock. Of the Michigan angler harvest of Wild Rose strain brown trout, approximately half were estimated to have originated from Wisconsin hatcheries, demonstrating a propensity for lake-wide movements. Continued assessments will improve understanding of strain relative contributions to angler harvests that can direct future stocking efforts.
- Published
- 2019
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21. Replicated Landscape Genomics Identifies Evidence of Local Adaptation to Urbanization in Wood Frogs
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Caren C. Helbing, Inanc Birol, Thomas F. Schultz, Cynthia S. Loftin, Kristina M. Cammen, Michael T. Kinnison, and Jared J. Homola
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Molecular adaptation and selection ,0106 biological sciences ,0301 basic medicine ,Ranidae ,Quantitative Trait Loci ,Genomics ,010603 evolutionary biology ,01 natural sciences ,RAD-seq ,03 medical and health sciences ,Genetics ,Animals ,anthropogenic evolution ,Maine ,Selection, Genetic ,rapid evolution ,Molecular Biology ,Genetics (clinical) ,Selection (genetic algorithm) ,Local adaptation ,Genetic diversity ,Genome ,biology ,Directional selection ,Lithobates ,Urbanization ,Genetic Variation ,vernal pool ,Original Articles ,biology.organism_classification ,Adaptation, Physiological ,Biological Evolution ,Genetics, Population ,urban ecology ,030104 developmental biology ,Urban ecology ,Evolutionary biology ,Outlier ,amphibian ,human activities ,Biotechnology - Abstract
Native species that persist in urban environments may benefit from local adaptation to novel selection factors. We used double-digest restriction-side associated DNA (RAD) sequencing to evaluate shifts in genome-wide genetic diversity and investigate the presence of parallel evolution associated with urban-specific selection factors in wood frogs (Lithobates sylvaticus). Our replicated paired study design involved 12 individuals from each of 4 rural and urban populations to improve our confidence that detected signals of selection are indeed associated with urbanization. Genetic diversity measures were less for urban populations; however, the effect size was small, suggesting little biological consequence. Using an FST outlier approach, we identified 37 of 8344 genotyped single nucleotide polymorphisms with consistent evidence of directional selection across replicates. A genome-wide association study analysis detected modest support for an association between environment type and 12 of the 37 FST outlier loci. Discriminant analysis of principal components using the 37 FST outlier loci produced correct reassignment for 87.5% of rural samples and 93.8% of urban samples. Eighteen of the 37 FST outlier loci mapped to the American bullfrog (Rana [Lithobates] catesbeiana) genome, although none were in coding regions. This evidence of parallel evolution to urban environments provides a powerful example of the ability of urban landscapes to direct evolutionary processes.
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- 2019
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22. Host gene expression is associated with viral shedding magnitude in blue-winged teals (Spatula discors) infected with low-path avian influenza virus
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Amanda C, Dolinski, Jared J, Homola, Mark D, Jankowski, John D, Robinson, and Jennifer C, Owen
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Ducks ,Infectious Diseases ,General Veterinary ,Influenza A virus ,Influenza in Birds ,Immunology ,Animals ,Humans ,Gene Expression ,Immunology and Allergy ,General Medicine ,Microbiology ,Virus Shedding - Abstract
Intraspecific variation in host infectiousness affects disease transmission dynamics in human, domestic animal, and many wildlife host-pathogen systems including avian influenza virus (AIV); therefore, identifying host factors related to host infectiousness is important for understanding, controlling, and preventing future outbreaks. Toward this goal, we used RNA-seq data collected from low pathogenicity avian influenza virus (LPAIV)-infected blue-winged teal (Spatula discors) to determine the association between host gene expression and intraspecific variation in cloacal viral shedding magnitude, the transmissible fraction of virus. We found that host genes were differentially expressed between LPAIV-infected and uninfected birds early in the infection, host genes were differentially expressed between shed level groups at one-, three-, and five-days post-infection, host gene expression was associated with LPAIV infection patterns over time, and genes of the innate immune system had a positive linear relationship with cloacal viral shedding. This study provides important insights into host gene expression patterns associated with intraspecific LPAIV shedding variation and can serve as a foundation for future studies focused on the identification of host factors that drive or permit the emergence of high viral shedding individuals.
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- 2022
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23. Differential gene expression reveals host factors for viral shedding variation in mallards (Anas platyrhynchos) infected with low-pathogenic avian influenza virus
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Jared J. Homola, John D. Robinson, Jennifer C. Owen, Mark D. Jankowski, and Amanda C. Dolinski
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Viral replication ,Host (biology) ,Gene expression ,medicine ,Bursa of Fabricius ,Viral shedding ,Biology ,medicine.disease_cause ,Gene ,Pathogen ,Virology ,Influenza A virus subtype H5N1 - Abstract
Intraspecific variation in pathogen shedding impacts disease transmission dynamics; therefore, understanding the host factors associated with individual variation in pathogen shedding is key to controlling and preventing outbreaks. In this study, ileum and bursa of Fabricius tissues of mallards (Anas platyrhynchos) infected with low-pathogenic avian influenza (LPAIV) were evaluated at various post-infection time points to determine genetic host factors associated with intraspecific variation in viral shedding. By analyzing transcriptome sequencing data (RNA-seq), we found that LPAIV-infected mallards do not exhibit differential gene expression compared to uninfected birds, but that gene expression was associated with viral shedding quantity early in the infection. In both tissues, immune genes were mostly up-regulated in higher shedding birds and had significant positive relationships with viral shedding. In the ileum, host genes involved in viral cell entry were down-regulated in low shedders one day post-infection (DPI), and host genes promoting viral replication were up-regulated in high shedders on two DPI. Our findings indicate that viral shedding is a key factor for gene expression differences in LPAIV-infected mallards, and the genes identified in this study could be important for understanding the molecular mechanisms driving intraspecific variation in pathogen shedding.
- Published
- 2021
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24. P09.04 Oncolytic H5N1 influenza strain displays superior therapeutic properties independent of immuno-stimulatory interleukin-2 transgene expression
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Michael Bergmann, Julijan Kabiljo, Irina Kuznetsova, S Prodinger, Monika Sachet, Andrej Egorov, Johannes Laengle, and J. Homola
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Interleukin 2 ,viruses ,Hemagglutinin (influenza) ,Biology ,medicine.disease_cause ,Virology ,Influenza A virus subtype H5N1 ,Immune checkpoint ,Virus ,Oncolytic virus ,Viral entry ,Cell culture ,medicine ,biology.protein ,medicine.drug - Abstract
Background Oncolytic viruses are becoming an integral part of immunological approaches to cancer treatment. Interleukin-2 (IL-2) is known to stimulate cytotoxic T-cells, and might therefore be a reasonable cargo to enhance the therapeutic effect of such viruses. However, IL-2 is also known to promote immunosuppressive regulatory T-cells (T-reg). We investigated the impact of virally expressed IL-2 on induction of regulatory T-cells. We further investigated the effect of virally expressed IL-2 on the therapeutic efficacy of influenza A H1 and H5 subtypes. Materials and Methods Survival of B16 melanoma xenograft bearing mice upon treatment with various oncolytic influenza viruses was examined. Effect of these viruses on PBMC gathered from 4 young healthy volunteers and murine and human melanoma cell lines was examined utilizing multiple flow cytometry protocols. Results Viral IL-2 expression did not alter viral growth and was stable up to multiple passages in cell cultures. In human PBMC viral expression of IL-2 did not enhance differentiation of T-cells into a regulatory phenotype. In a murine B16 xenograft model IL-2 expression significantly enhanced therapeutic effects of an H1 oncolytic influenza virus. Expressed within the background of H5 hemagglutinin, IL-2 did not lead to a significant enhancement of therapeutic efficacy. Interestingly, the empty influenza H5 subtype was significantly more potent in treating B16 xenograft tumors than the H1 subtype, regardless of IL-2 expression. In primary human PBMC models, the virus based on H1 hemagglutinin led to enhanced CD8 T-cell activation compared to H5. This effect was further enhanced by IL-2 expression, although all viruses led to significant activation. Surprisingly, viruses based on H1 hemagglutinin led to increased expression of the immune checkpoint PD-1. The virus based on H5 hemagglutinin did not lead to upregulation of PD-1, indicating a favorable balance between activation and exhaustion. Infection with the H5 based virus led to both enhanced apoptosis and immunogenic calreticulin exposure in human and murine melanoma cell lines compared to H1. Conclusions IL-2 does not promote T-regs, when expressed in a viral background. H1 viruses induced PD-1 more potently than H5 viruses. The choice of viral entry protein is more relevant for the therapeutic effect of the virus, than the expression of a T-cell stimulating cytokine such as IL-2. Efficacy of oncolytic viral treatment appears to depend more on viral growth than on virally expressed T-cell promoting cargo. Disclosure Information J. Kabiljo: None. I. Kuznetsova: None. J. Homola: None. S. Prodinger: None. J. Laengle: None. M. Sachet: None. A. Egorov: A. Employment (full or part-time); Modest; Vacthera Bio Tech GmbH. M. Bergmann: A. Employment (full or part-time); Modest; Vacthera Bio Tech GmbH.
- Published
- 2020
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25. De novo transcriptome assembly and data for the blue-winged teal (Spatula discors)
- Author
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Jennifer C. Owen, Mark D. Jankowski, Jared J. Homola, and Amanda C. Dolinski
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Avian ,animal structures ,Trinity ,De novo transcriptome assembly ,Zoology ,Sequence assembly ,Biology ,medicine.disease_cause ,lcsh:Computer applications to medicine. Medical informatics ,Transcriptome ,03 medical and health sciences ,0302 clinical medicine ,medicine ,Bursa of Fabricius ,Natural reservoir ,lcsh:Science (General) ,030304 developmental biology ,0303 health sciences ,Genetics, Genomics and Molecular Biology ,Multidisciplinary ,Host (biology) ,RNAseq ,Influenza A virus subtype H5N1 ,Influenza ,3. Good health ,lcsh:R858-859.7 ,Spatula discors ,030217 neurology & neurosurgery ,lcsh:Q1-390 - Abstract
The blue-winged teal (Spatula discors) is a recreationally and ecologically important dabbling duck species in North America. Transcriptomic data of this species can be used in public and animal health studies given its role as a natural reservoir host for avian influenza, which can be a zoonotic disease of high concern. Ileum and bursa of Fabricius tissues were sampled from six captive raised blue-winged teals, four of the six who were experimentally infected with low-pathogenic avian influenza virus H5N9. RNAseq data were generated from extracted total mRNA from each tissue and pooled to create a de novo assembly of the transcriptome using Trinity. A total of 571,105 transcripts were identified at 449,956 unique unigenes that have been functionally annotated. This transcriptome will be useful for future blue-winged teal gene expression research, especially in hypothesis driven differential expression studies to determine the driving forces of avian influenza host-pathogen interactions, spatial distribution, and transmission.
- Published
- 2020
26. Complex postglacial recolonization inferred from population genetic structure of mottled sculpinCottus bairdiiin tributaries of eastern Lake Michigan, U.S.A
- Author
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Jared J. Homola, Carl R. Ruetz, Ryan A. Thum, and S. L. Kohler
- Subjects
0106 biological sciences ,0301 basic medicine ,geography ,education.field_of_study ,geography.geographical_feature_category ,Ecology ,Population ,Drainage basin ,Aquatic Science ,Biology ,biology.organism_classification ,010603 evolutionary biology ,01 natural sciences ,Mottled sculpin ,03 medical and health sciences ,Phylogeography ,030104 developmental biology ,Refugium (population biology) ,Tributary ,Genetic structure ,education ,Ecology, Evolution, Behavior and Systematics ,Cottus - Abstract
This study used analyses of the genetic structure of a non-game fish species, the mottled sculpin Cottus bairdii to hypothesize probable recolonization routes used by cottids and possibly other Laurentian Great Lakes fishes following glacial recession. Based on samples from 16 small streams in five major Lake Michigan, U.S.A., tributary basins, significant interpopulation differentiation was documented (overall FST = 0·235). Differentiation was complex, however, with unexpectedly high genetic similarity among basins as well as occasionally strong differentiation within basins, despite relatively close geographic proximity of populations. Genetic dissimilarities were identified between eastern and western populations within river basins, with similarities existing between eastern and western populations across basins. Given such patterns, recolonization is hypothesized to have occurred on three occasions from more than one glacial refugium, with a secondary vicariant event resulting from reduction in the water level of ancestral Lake Michigan. By studying the phylogeography of a small, non-game fish species, this study provides insight into recolonization dynamics of the region that could be difficult to infer from game species that are often broadly dispersed by humans.
- Published
- 2016
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27. Removal and Mark–Recapture Methods for Estimating Abundance: Empirical and Simulation Results for Mottled Sculpin in Streams
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Brandon S. Harris, Jared J. Homola, James N. McNair, and Carl R. Ruetz
- Subjects
education.field_of_study ,Ecology ,biology ,Population ,Sampling (statistics) ,STREAMS ,Management, Monitoring, Policy and Law ,Aquatic Science ,biology.organism_classification ,Fishery ,Mottled sculpin ,Mark and recapture ,Electrofishing ,Abundance (ecology) ,Statistics ,education ,Ecology, Evolution, Behavior and Systematics ,Cottus - Abstract
Most studies that investigate biases in stream fish abundance estimators focus on salmonines, yet nongame species comprise a major portion of fish assemblages. We evaluated mark–recapture (the Lincoln–Petersen estimator with Chapman correction) and removal (constant capture probability and generalized removal estimators) methods for estimating abundance of Mottled Sculpin Cottus bairdii, and we tested whether assumptions of the abundance estimators (i.e., the population is closed during sampling; and marks are detected) were reasonable. Over 2-d periods, fish in eight streams were sampled by using backpack electrofishing in 90-m reaches (each divided into three 30-m subreaches) to assess movement. Removal abundance estimates were significantly lower than mark–recapture estimates. Moreover, removal estimates were 52% lower than the known number of marked individuals, likely because capture probability (q) was low and declined with subsequent sampling passes. Survival of fish held in cages was 100%;...
- Published
- 2015
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28. A statistical model for monitoring shell disease in inshore lobster fisheries: A case study in Long Island Sound
- Author
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Jared J. Homola, Kisei R. Tanaka, Yong Chen, and Samuel L. Belknap
- Subjects
0106 biological sciences ,Salinity ,Epidemiology ,lcsh:Medicine ,Marine and Aquatic Sciences ,01 natural sciences ,Physical Chemistry ,Medicine and Health Sciences ,lcsh:Science ,Multidisciplinary ,Biotic component ,geography.geographical_feature_category ,Latitude ,Geography ,Statistical Models ,Agriculture ,Bacterial Infections ,Crustaceans ,Chemistry ,Longitude ,Physical Sciences ,Estuaries ,Statistics (Mathematics) ,Research Article ,Cartography ,Arthropoda ,Fisheries ,New York ,Marine Biology ,Disease Surveillance ,Spatial distribution ,Lobsters ,010603 evolutionary biology ,Models, Biological ,Marine Monitoring ,Animals ,14. Life underwater ,Estimation ,geography ,010604 marine biology & hydrobiology ,lcsh:R ,Organisms ,Biology and Life Sciences ,Estuary ,Invertebrates ,Nephropidae ,Fishery ,Chemical Properties ,Earth Sciences ,Environmental science ,Survey data collection ,lcsh:Q ,Spatial variability ,Mathematics - Abstract
The expansion of shell disease is an emerging threat to the inshore lobster fisheries in the northeastern United States. The development of models to improve the efficiency and precision of existing monitoring programs is advocated as an important step in mitigating its harmful effects. The objective of this study is to construct a statistical model that could enhance the existing monitoring effort through (1) identification of potential disease-associated abiotic and biotic factors, and (2) estimation of spatial variation in disease prevalence in the lobster fishery. A delta-generalized additive modeling (GAM) approach was applied using bottom trawl survey data collected from 2001-2013 in Long Island Sound, a tidal estuary between New York and Connecticut states. Spatial distribution of shell disease prevalence was found to be strongly influenced by the interactive effects of latitude and longitude, possibly indicative of a geographic origin of shell disease. Bottom temperature, bottom salinity, and depth were also important factors affecting the spatial variability in shell disease prevalence. The delta-GAM projected high disease prevalence in non-surveyed locations. Additionally, a potential spatial discrepancy was found between modeled disease hotspots and survey-based gravity centers of disease prevalence. This study provides a modeling framework to enhance research, monitoring and management of emerging and continuing marine disease threats.
- Published
- 2016
29. Genetically Derived Estimates of Contemporary Natural Straying Rates and Historical Gene Flow among Lake Michigan Lake Sturgeon Populations
- Author
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Michael C. Donofrio, Kim T. Scribner, Kregg M. Smith, Jared J. Homola, Robert F. Elliott, Jeannette Kanefsky, and James N. McNair
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geography ,geography.geographical_feature_category ,biology ,Ecology ,STREAMS ,Aquatic Science ,biology.organism_classification ,Linear distance ,Gene flow ,Fishery ,parasitic diseases ,Tributary ,Acipenser ,Sexual maturity ,Bathymetry ,Lake sturgeon ,Ecology, Evolution, Behavior and Systematics - Abstract
Natural rates of straying are difficult to quantify over large spatial scales using direct observations, particularly for long-lived fish species characterized by delayed sexual maturity and long interspawning intervals. Using multilocus microsatellite genotypes and likelihood-based statistical methods, we quantified rates of immigration and emigration for six genetically differentiated (mean F ST = 0.041) lake sturgeon Acipenser fulvescens populations in Lake Michigan based on adults (n = 437) captured in tributaries during the spawning season. Estimated rates of straying were high (mean = 0.105), asymmetrical, and highly variable across populations. We found no significant association between the total length (a surrogate measure of age) of individuals that strayed and those that did not. Linear distance between streams was more predictive of straying rates and F ST than least-cost distances estimated based on lakescape features (bathymetry and lake current patterns). Historical rates of gene f...
- Published
- 2012
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30. Genetic identification of two putative world record Michigan salmonids resolves stakeholder and manager questions
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Todd G. Kalish, Mark A. Tonello, Kim T. Scribner, Jared J. Homola, and Jeannette Kanefsky
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Ecology ,biology ,Strain (biology) ,Stakeholder ,Aquatic Science ,biology.organism_classification ,DNA barcoding ,Hatchery ,Fishery ,Brown trout ,Microsatellite ,Identification (biology) ,Salmo ,Ecology, Evolution, Behavior and Systematics - Abstract
The ability of fishery managers to quickly and effectively answer stakeholder questions using the best available science is crucial for successful management. The 2009 capture of a potential world record brown trout ( Salmo trutta ) and the 2010 capture of a potential world record land-locked Atlantic salmon ( S. salar ) in Michigan required managers to acquire genetic verification of the species identity. Given the variety of hatchery strains used to maintain Great Lakes fisheries for brown trout and in the absence of physical markings, managers also were interested to determine the strain of origin for information on assessing performance. DNA barcoding techniques using sequences from the mitochondrial (mt) DNA cytochrome c oxidase I (COI) gene and frequency-based analysis of species-specific microsatellite genotypes provided data to establish the species of both fish. The putative brown trout was confirmed to be a new world record specimen. Using individual assignment tests based on maximum likelihood estimators informed by multi-locus microsatellite genotypes, we determined the fish to be from the Seeforellen hatchery strain (p
- Published
- 2012
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31. Relative larval loss among females during dispersal of Lake Sturgeon (Acipenser fulvescens)
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James A. Crossman, Kim T. Scribner, Patrick S. Forsythe, Christin A. Davis, Jeannette Kanefsky, Jared J. Homola, Edward A. Baker, and Thuy Yen Duong
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Larva ,biology ,Ecology ,fungi ,Maternal effect ,Aquatic Science ,biology.organism_classification ,Upstream and downstream (DNA) ,Sturgeon ,Acipenser ,Biological dispersal ,Lake sturgeon ,Population dynamics of fisheries ,Ecology, Evolution, Behavior and Systematics - Abstract
Mortality that occurs during larval dispersal as a consequence of environmental, maternal, and genetic effects and their interactions can affect annual recruitment in fish populations. We studied larval lake sturgeon (Acipenser fulvescens) drift for two consecutive nights to examine whether larvae from different females exposed to the same environmental conditions during dispersal differed in relative levels of mortality. We estimated proportional contributions of females to larval collections and relative larval loss among females as larvae dispersed downstream between two sampling sites based on genetically determined parentage. Larval collections were composed of unequal proportions of offspring from different females that spawned at upstream and downstream locations (~0.8 km apart). Hourly dispersal patterns of larvae produced from females spawning at both locations were similar, with the largest number of larvae observed during 22:00–23:00 h. Estimated relative larval loss did not differ significantly among females as larvae were sampled at two sites approximately 0.15 and 1.5 km from the last section downstream of spawning locations. High inter- and intra-female variation in larval contributions and relative larval loss between nights may be a common feature of lake sturgeon and other migratory fish species, and likely is a source of inter-annual and intra-annual variation in fish recruitment.
- Published
- 2011
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32. Genetic assessment of straying rates of wild and hatchery reared lake sturgeon (Acipenser fulvescens) in Lake Superior tributaries
- Author
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Nancy A. Auer, Jared J. Homola, Kim T. Scribner, and Edward A. Baker
- Subjects
education.field_of_study ,geography ,geography.geographical_feature_category ,Ecology ,biology ,Population ,Estuary ,Aquatic Science ,biology.organism_classification ,Hatchery ,Fishery ,Sturgeon ,Natal homing ,parasitic diseases ,Tributary ,Acipenser ,education ,Lake sturgeon ,Ecology, Evolution, Behavior and Systematics - Abstract
Natal philopatry in lake sturgeon (Acipenser fulvescens) has been hypothesized to be an important factor that has lead to genetically distinct Great Lakes populations. Due to declining abundance, population extirpation, and restricted distribution, hatchery supplementation is being used to augment natural recruitment and to reestablish populations. If hatchery-reared lake sturgeon are more likely to stray than naturally produced individuals, as documented in other well-studied species, outbreeding could potentially jeopardize beneficial site-specific phenotypic and genotypic adaptations. From 1983 to 1994, lake sturgeon propagated using eggs taken from Lake Winnebago adults (Lake Michigan basin) were released in the St. Louis River estuary in western Lake Superior. Our objective was to determine whether these introduced individuals have strayed into annual spawning runs in the Sturgeon River, Michigan. Additionally, we estimated a natural migration rate between the Sturgeon River and Bad River, W...
- Published
- 2010
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33. Modelling and characterisation of surface plasmon based sensors for the detection ofE. coli
- Author
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Christos Themistos, J. Homola, Kenneth T. V. Grattan, Muttukrishnan Rajarajan, Joseph Irudayaraj, B. M. A. Rahman, and T. Dar
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Optical fiber ,Materials science ,business.industry ,Wave propagation ,Surface plasmon ,Physics::Optics ,Perturbation (astronomy) ,Atomic and Molecular Physics, and Optics ,Finite element method ,law.invention ,Optics ,law ,Surface plasmon resonance ,business ,Biosensor ,Refractive index - Abstract
The finite element method based on the full-vectorial H-field formulation incorporating the perturbation techniques has been employed to calculate the complex propagation characteristics, the formation of the coupled supermodes, and power fraction in the different regions, modal loss, differential loss and coupling length. The influence of the outer medium refractive index on the inner and outer surface plasmon modes (SPR) is investigated to achieve the best coupling and sensitivity. Finally the SRP fibre optic sensor design is numerically optimised for the maximum field penetration in the outer medium
- Published
- 2009
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34. Complex postglacial recolonization inferred from population genetic structure of mottled sculpin Cottus bairdii in tributaries of eastern Lake Michigan, U.S.A
- Author
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J J, Homola, C R, Ruetz, S L, Kohler, and R A, Thum
- Subjects
Gene Flow ,Lakes ,Michigan ,Phylogeography ,Genetics, Population ,Rivers ,Fishes ,Animals ,Genetic Variation ,DNA, Mitochondrial ,Microsatellite Repeats ,Perciformes - Abstract
This study used analyses of the genetic structure of a non-game fish species, the mottled sculpin Cottus bairdii to hypothesize probable recolonization routes used by cottids and possibly other Laurentian Great Lakes fishes following glacial recession. Based on samples from 16 small streams in five major Lake Michigan, U.S.A., tributary basins, significant interpopulation differentiation was documented (overall F
- Published
- 2015
35. Photochromic Plastic Stabilization and Matrix Interactions
- Author
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Timothy J. Homola
- Subjects
Matrix (mathematics) ,Photochromism ,Materials science ,Chemical engineering ,Short lifetime ,Stereochemistry ,Limiting ,Condensed Matter Physics - Abstract
There are two primary factors limiting the commercial success of photochromic (PC) plastics, the relatively short lifetime of the finished products and their high cost. We attempted to produce a PC...
- Published
- 2000
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36. Optimization of power diode characteristics by means of ion irradiation
- Author
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Jan Vobecky, J. Homola, and Pavel Hazdra
- Subjects
Materials science ,business.industry ,chemistry.chemical_element ,Crystallographic defect ,Electronic, Optical and Magnetic Materials ,Ion ,Anode ,chemistry ,Power diode ,Position (vector) ,Optoelectronics ,Irradiation ,Electrical and Electronic Engineering ,business ,Helium ,Voltage drop - Abstract
The static and dynamic parameters of a bipolar power diode are optimized by the use of helium irradiation. The optimal position for the defect peak caused by the irradiation was found in the n-base very close to the anode junction. This was verified by both the simulation and the experiment.
- Published
- 1996
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37. Transforming the Joint Force Air Component Commander's Command and Control of Close Air Support
- Author
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Michael J. Homola
- Subjects
Engineering ,Mission Command ,Situation awareness ,Operations research ,business.industry ,media_common.quotation_subject ,Legacy system ,Doctrine ,Aeronautics ,Component (UML) ,Command and control ,Joint (building) ,business ,media_common ,Military doctrine - Abstract
Transformation initiatives in the Department of Defense have major implications on the development of command and control structures in the joint environment. Alternative methodology will be required to rupture outdated tactics, techniques, and procedures established under legacy systems and organizational architectures. Taking into account newly developed concepts, such as the Air Component Coordination Element (ACCE), future command and control systems must build on lessons learned and continue to seek improvements for critical mission taskings. Lessons learned in Operations ENDURING FREEDOM and IRAQI FREEDOM indicate close air support remains a controversial topic due to the availability of air assets and fratricide. Since command and control of close air support is tied to the authority of the Joint Air Operations Center (JAOC) in joint doctrine, the responsibility lies with the JAOC to ensure senior ground elements are supported according to the Joint Force Commander s priorities. Establishing a modular Joint Air Component Coordination Element (JACCE) in the command and control architecture with expanded authorities will in due course eliminate deficiencies and enhance the interconnectivity of the functional land component commander with the functional air component commander.
- Published
- 2005
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38. Hemostyptic effect of oxidized cellulose on blood platelets
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L, Másová, J, Rysavá, P, Krízová, J, Suttnar, P, Salaj, J E, Dyr, J, Homola, J, Dostálek, K, Myska, and M, Pecka
- Subjects
Blood Platelets ,Serotonin ,Factor XII ,Humans ,Cellulose, Oxidized ,Platelet Activation ,Blood Coagulation ,Hemostatics - Abstract
Cellulose is one of the hemostyptic biomaterials, which are able to initiate or accelerate blood coagulation at the site of their application. It belongs to surgical sealants. The mechanism of its action is not clearly understood. We studied the participation of blood platelets in this mechanism. As a marker of platelet activation we used serotonin release reaction. Serotonin release in platelet rich plasma incubated with various concentrations of oxidized cellulose (0.5%-2.0%) started in about 20 min. Washed platelets were not directly activated by oxidized cellulose within one hour. Washed platelets reconstituted in plasma obtained from two patients with coagulation factor XII deficiency were activated by oxidized cellulose with a prolonged lag phase. Our results demonstrate the significant influence of factor XII on blood platelets activation by oxidized cellulose.
- Published
- 2003
39. [Transvaginal echocardiography--successful imaging and quantitative analysis of fetal cardiac structures in the 13th to 17th week of pregnancy]
- Author
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J, Homola
- Subjects
Pregnancy Trimester, First ,Fetal Heart ,Echocardiography ,Pregnancy ,Pregnancy Trimester, Second ,Humans ,Female ,Ultrasonography, Prenatal - Published
- 1998
40. [Are echogenic foci in fetal heart ventricles insignificant findings?]
- Author
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J, Homola
- Subjects
Fetal Heart ,Echocardiography ,Pregnancy ,Risk Factors ,Heart Ventricles ,Humans ,Female ,Ultrasonography, Prenatal - Abstract
In a group of 7,721 foetuses with a high or low risk of cardiovascular pathology of the foetus, examined by complete foetal echocardiography, the authors found hyperechogenic ventricular structures in 211 foetuses (2.73% of the group) with a dominating localization in the left ventricle (97%). These structures are in the great majority a benign development variant which involves no risk for the development of the foetus. Rare localization beyond the left ventricle were not risk for the development of the foetus. Rare localization beyond the left ventricle were not associated with cardiac or other foetal pathologies. Echogenic ventricular focuses were not visualized by transvaginal echocardiography in the 13th week of pregnancy, although they were revealed in the same patient during the 21st week. Their presence does not affect left ventricular function and the function of the mitral valve pre-or postnatally. In the differential diagnosis these structures must be always differentiated from thrombi or cardiac tumours.
- Published
- 1998
41. Commercialization of photochromic dyes and products
- Author
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Timothy J. Homola
- Subjects
Engineering ,business.industry ,Critical success factor ,Advertising ,Profitability index ,Marketing ,Clothing ,business ,Commercialization - Abstract
While most people, including this author, hold quite optimistic views of the photochromic industry, very little commercial success has been realized. In Professor Giacomo Ciamician's famous paper on photochemistry of the future, he predicted that photochromic clothing would be popular. It turns out that he was right. His paper was written in 1912 and photochromic clothing was not commercially successful under the early 1990's. These optimistic projections are commonplace. Unfortunately, the commercial successes have not been rapid or frequent. This paper is intended to address some of the critical success factors in achieving photochromic related profitability. The major ingredients of commercial success are an attractive industry and mastery of the specific critical business elements that lead to profitability in that industry.© (1998) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.
- Published
- 1998
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42. [Normal values of one-dimensional echocardiography of the heart ventricles in the fetus during the 18th to 38th week of pregnancy]
- Author
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J, Homola and V, Satrapa
- Subjects
Echocardiography ,Pregnancy ,Reference Values ,Heart Ventricles ,Humans ,Female ,Gestational Age ,Ultrasonography, Prenatal - Abstract
The authors report normal values of one-dimensional echocardiography of the ventricles of foetuses obtained by analysis of high-standard 105 M-mode records of physiological foetuses aged 18-38 weeks. They assume their practical application by gynaecologists and child cardiologists during ultrasonographic screening of foetal pathology of the cardiovascular system.
- Published
- 1992
43. [Regional differences in the prevalence of congenital heart defects]
- Author
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M, Samánek, Z, Slavík, J, Balatka, H, Bartáková, J, Goetzová, J, Homola, I, Rusavá, J, Smrcka, and M, Krejcír
- Subjects
Czechoslovakia ,Heart Defects, Congenital ,Infant, Newborn ,Prevalence ,Humans - Abstract
Prevalence of congenital heart diseases was studied prospectively in all 664,218 infants live born in Bohemia from 1977 to 1984. All children who died were autopsied and those suspected of having a heart disease were examined at the specialized center. In total, 664/100,000 infants were born with a heart defect, most of them in Prague (957,9/100,000) and in Central Bohemia (739.4) and in Northern Bohemia (619.3). The lowest prevalence was found in West Bohemia (515.1/100000 live births). The relative frequency of congenital heart defect categories differed significantly among regions. Evidence of regional differences in prevalence of congenital heart diseases and their forms suggests that environmental factors can play an important role in the etiology of congenital heart defects.
- Published
- 1991
44. Optical Chemical Sensors
- Author
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F. Baldini, A.N. Chester, J. Homola, S. Martellucci, F. Baldini, A.N. Chester, J. Homola, and S. Martellucci
- Subjects
- Detectors--Congresses, Chemical detectors--Congresses
- Abstract
Chemical sensing using optics is under extensive research all over the world and many optical chemical sensors are finding increasing application in industry, environmental monitoring, medicine, biomedicine and chemical analysis. This is evidenced by an annual growth in the number of international scientific conferences in which advances in the field of optical chemical sensors are reported. These conferences, are, however, focused on disseminating the latest scientific results rather than providing in-depth education in the field of optical chemical sensors. In addition, the topic of optical chemical sensors is only just beginning to find its way into the curricula of universities and colleges in Europe and in the US. Due to the prominence that optical sensors are assuming, it has become more and more important to establish a framework for discussion and interchange, in addition to traditional conferences, to aid research and education in this important field. In the summer of 2004, the NATO A. S. I. on the subject “Optical Chemical Sensors” was organised in Erice, Sicily. This NATO A. S. I. was th the 40 Course of the International School of Quantum Electronics, under the auspices of the “Ettore Majorana Foundation and Center for Scientific Culture” and was directed by Dr. J. Homola of the Institute of Radio Engineering and Electronic (IREE) of the Academy of Sciences in Prague and by Dr. F. Baldini of the “Nello Carrara Institute of Applied Physics” (IFAC-CNR).
- Published
- 2006
45. 13. Real-time sensing of surface-bound fibrinogen and fibrin interactions using spectroscopy of guided modes in optical waveguide structures, surface plasmon resonance, and specific monoclonal antibodies
- Author
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J. E. Dyr, I. Tich??, M. Jirou??kov??, P. Tobi??ka, R. Slav??k, J. Homola, and J. Suttnar
- Subjects
Surface (mathematics) ,Materials science ,biology ,business.industry ,medicine.drug_class ,Analytical chemistry ,Hematology ,General Medicine ,Monoclonal antibody ,Fibrinogen ,Fibrin ,biology.protein ,medicine ,Optoelectronics ,Surface plasmon resonance ,Spectroscopy ,business ,Localized surface plasmon ,medicine.drug - Published
- 1998
- Full Text
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46. Turn-off-type field-controlled thyristor
- Author
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A. G. Milnes and J. Homola
- Subjects
Gate turn-off thyristor ,Engineering ,Emitter turn off thyristor ,business.industry ,Electrical engineering ,Thyristor ,JFET ,MOS-controlled thyristor ,Condensed Matter Physics ,Electronic, Optical and Magnetic Materials ,Power (physics) ,law.invention ,Integrated gate-commutated thyristor ,Static induction thyristor ,law ,Materials Chemistry ,Electronic engineering ,Electrical and Electronic Engineering ,business - Abstract
The blocking state of a field-controlled thyristor (FCT) and the turn-off processes are discussed in relation to the design parameters of the structure. This leads to suggestions for a modified inner structure and a gate structure that should allow improved high power capability. Also considered is the integration of an FCT and a JFET to provide a device that is normally in the OFF state and that can be turned on and off by short low-power gate pulses.
- Published
- 1980
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47. On dislocations etched in deformed cadmium single crystals
- Author
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J Homola and P Kratochvíl
- Subjects
Dislocation creep ,Cadmium ,Frank-Read Source ,Materials science ,Condensed matter physics ,General Engineering ,chemistry.chemical_element ,Slip (materials science) ,Condensed Matter::Materials Science ,Crystallography ,chemistry ,Transmission electron microscopy ,Shear stress ,Partial dislocations ,Single slip - Abstract
The density and arrangement of dislocations is observed in deformed Cd single crystals by etch pitting. The density versus shear strain curves are given. These curves for crystals oriented for single slip differ from those oriented for double slip. Primary basal screw dislocations seem to prevail in crystals being deformed. For interpretation of the possible interaction of basal dislocations with different 〈1120〉 Burgers vectors is taken in account. The plastic behaviour of other h.c.p. metals as revealed by transmission electron microscopy is compared on the basis of the elastic interaction between dislocations with Burger's vector in the (0001) slip plane.
- Published
- 1966
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48. [Romano-Ward syndrome in a 10-year-old girl]
- Author
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J, Homola
- Subjects
Adult ,Electrocardiography ,Seizures ,Humans ,Female ,Syndrome ,Child ,Syncope - Published
- 1983
49. [Physiologic values of thyroid hormones and the thyrotropic hormone in neonates]
- Author
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H, Svarcová, K, Bakos, J, Ondrej, J, Skvor, and J, Homola
- Subjects
Thyroid Hormones ,Thyroxine ,Reference Values ,Infant, Newborn ,Humans ,Thyrotropin ,Triiodothyronine - Published
- 1987
50. [Rhabdomyoma in a 2-day-old neonate]
- Author
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J, Homola, J, Skovránek, B, Spelina, and L, Koumarová
- Subjects
Heart Neoplasms ,Radiography ,Echocardiography ,Infant, Newborn ,Humans ,Female ,Rhabdomyoma - Published
- 1988
Catalog
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