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  1. Book: The evolutionary consequences of vaccination

    Day, Troy

    (Vaccine ; 26, Suppl. 3)

    2008  

    Author's details guest ed.: Troy Day
    Series title Vaccine ; 26, Suppl. 3
    Collection
    Language English
    Size C52 S. : graph. Darst.
    Publisher Elsevier
    Publishing place Oxford
    Publishing country Great Britain
    Document type Book
    HBZ-ID HT015634344
    Database Catalogue ZB MED Medicine, Health

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    In stock of ZB MED Cologne/Königswinter

    Shelf markLoan statusLocation
    Zs A 1930 -26,Suppl.3- not available for loan Zeitschriften-Lesesaal

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  2. Article ; Online: A null model for the distribution of fitness effects of mutations.

    Cotto, Olivier / Day, Troy

    Proceedings of the National Academy of Sciences of the United States of America

    2023  Volume 120, Issue 23, Page(s) e2218200120

    Abstract: The distribution of fitness effects (DFE) of new mutations is key to our understanding of many evolutionary processes. Theoreticians have developed several models to help understand the patterns seen in empirical DFEs. Many such models reproduce the ... ...

    Abstract The distribution of fitness effects (DFE) of new mutations is key to our understanding of many evolutionary processes. Theoreticians have developed several models to help understand the patterns seen in empirical DFEs. Many such models reproduce the broad patterns seen in empirical DFEs but these models often rely on structural assumptions that cannot be tested empirically. Here, we investigate how much of the underlying "microscopic" biological processes involved in the mapping of new mutations to fitness can be inferred from "macroscopic" observations of the DFE. We develop a null model by generating random genotype-to-fitness maps and show that the null DFE is that with the largest possible information entropy. We further show that, subject to one simple constraint, this null DFE is a Gompertz distribution. Finally, we illustrate how the predictions of this null DFE match empirically measured DFEs from several datasets, as well as DFEs simulated from Fisher's geometric model. This suggests that a match between models and empirical data is often not a very strong indication of the mechanisms underlying the mapping of mutation to fitness.
    MeSH term(s) Genetic Fitness ; Models, Genetic ; Mutation ; Biological Evolution ; Genotype ; Selection, Genetic ; Evolution, Molecular
    Language English
    Publishing date 2023-05-30
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 209104-5
    ISSN 1091-6490 ; 0027-8424
    ISSN (online) 1091-6490
    ISSN 0027-8424
    DOI 10.1073/pnas.2218200120
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1148: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

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  3. Article ; Online: A stochastic analysis of the interplay between antibiotic dose, mode of action, and bacterial competition in the evolution of antibiotic resistance.

    Czuppon, Peter / Day, Troy / Débarre, Florence / Blanquart, François

    PLoS computational biology

    2023  Volume 19, Issue 8, Page(s) e1011364

    Abstract: The use of an antibiotic may lead to the emergence and spread of bacterial strains resistant to this antibiotic. Experimental and theoretical studies have investigated the drug dose that minimizes the risk of resistance evolution over the course of ... ...

    Abstract The use of an antibiotic may lead to the emergence and spread of bacterial strains resistant to this antibiotic. Experimental and theoretical studies have investigated the drug dose that minimizes the risk of resistance evolution over the course of treatment of an individual, showing that the optimal dose will either be the highest or the lowest drug concentration possible to administer; however, no analytical results exist that help decide between these two extremes. To address this gap, we develop a stochastic mathematical model of bacterial dynamics under antibiotic treatment. We explore various scenarios of density regulation (bacterial density affects cell birth or death rates), and antibiotic modes of action (biostatic or biocidal). We derive analytical results for the survival probability of the resistant subpopulation until the end of treatment, the size of the resistant subpopulation at the end of treatment, the carriage time of the resistant subpopulation until it is replaced by a sensitive one after treatment, and we verify these results with stochastic simulations. We find that the scenario of density regulation and the drug mode of action are important determinants of the survival of a resistant subpopulation. Resistant cells survive best when bacterial competition reduces cell birth and under biocidal antibiotics. Compared to an analogous deterministic model, the population size reached by the resistant type is larger and carriage time is slightly reduced by stochastic loss of resistant cells. Moreover, we obtain an analytical prediction of the antibiotic concentration that maximizes the survival of resistant cells, which may help to decide which drug dosage (not) to administer. Our results are amenable to experimental tests and help link the within and between host scales in epidemiological models.
    MeSH term(s) Anti-Bacterial Agents ; Bacteria ; Drug Resistance, Microbial ; Models, Theoretical ; Epidemiological Models ; Drug Resistance, Bacterial
    Chemical Substances Anti-Bacterial Agents
    Language English
    Publishing date 2023-08-14
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2193340-6
    ISSN 1553-7358 ; 1553-734X
    ISSN (online) 1553-7358
    ISSN 1553-734X
    DOI 10.1371/journal.pcbi.1011364
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: The impact of threshold decision mechanisms of collective behavior on disease spread.

    Morsky, Bryce / Magpantay, Felicia / Day, Troy / Akçay, Erol

    Proceedings of the National Academy of Sciences of the United States of America

    2023  Volume 120, Issue 19, Page(s) e2221479120

    Abstract: Humans are a hyper-social species, which greatly impacts the spread of infectious diseases. How do social dynamics impact epidemiology and what are the implications for public health policy? Here, we develop a model of disease transmission that ... ...

    Abstract Humans are a hyper-social species, which greatly impacts the spread of infectious diseases. How do social dynamics impact epidemiology and what are the implications for public health policy? Here, we develop a model of disease transmission that incorporates social dynamics and a behavior that reduces the spread of disease, a voluntary nonpharmaceutical intervention (NPI). We use a "tipping-point" dynamic, previously used in the sociological literature, where individuals adopt a behavior given a sufficient prevalence of the behavior in the population. The thresholds at which individuals adopt the NPI behavior are modulated by the perceived risk of infection, i.e., the disease prevalence and transmission rate, costs to adopt the NPI behavior, and the behavior of others. Social conformity creates a type of "stickiness" whereby individuals are resistant to changing their behavior due to the population's inertia. In this model, we observe a nonmonotonicity in the attack rate as a function of various biological and social parameters such as the transmission rate, efficacy of the NPI, costs of the NPI, weight of social consequences of shirking the social norm, and the degree of heterogeneity in the population. We also observe that the attack rate can be highly sensitive to these parameters due to abrupt shifts in the collective behavior of the population. These results highlight the complex interplay between the dynamics of epidemics and norm-driven collective behaviors.
    MeSH term(s) Humans ; Mass Behavior ; Epidemics ; Social Conformity
    Language English
    Publishing date 2023-05-01
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 209104-5
    ISSN 1091-6490 ; 0027-8424
    ISSN (online) 1091-6490
    ISSN 0027-8424
    DOI 10.1073/pnas.2221479120
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1148: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

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  5. Article ; Online: Density Dependence, Senescence, and Williams' Hypothesis.

    Day, Troy / Abrams, Peter A

    Trends in ecology & evolution

    2020  Volume 35, Issue 4, Page(s) 300–302

    MeSH term(s) Biological Evolution ; Ecology
    Language English
    Publishing date 2020-01-20
    Publishing country England
    Document type Letter ; Comment
    ZDB-ID 284965-3
    ISSN 1872-8383 ; 0169-5347
    ISSN (online) 1872-8383
    ISSN 0169-5347
    DOI 10.1016/j.tree.2019.11.005
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Bonn / Germany

    Zs Bio TEE: Show issues
    Z 2005/711: Show issues

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  6. Book: A biologist's guide to mathematical modeling in ecology and evolution

    Otto, Sarah P. / Day, Troy

    2007  

    Author's details Sarah P. Otto and Troy Day
    Keywords Ecology/Mathematical models ; Evolution (Biology)/Mathematical models ; Mathematisches Modell ; Ökologie ; Evolution
    Subject Abstammung ; Umweltbiologie ; Ecology
    Subject code 577.015118
    Language English
    Size X, 732 S. : Ill., graph. Darst., Kt.
    Publisher Princeton Univ. Press
    Publishing place Princeton, NJ u.a.
    Publishing country United States
    Document type Book
    HBZ-ID HT015286807
    ISBN 0-691-12344-6 ; 978-0-691-12344-8
    Database Catalogue ZB MED Nutrition, Environment, Agriculture

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    In stock of ZB MED Bonn / Germany

    Shelf markLoan statusLocation
    074/790 available for loan (reading room) Freihandmagazin (U1)

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  7. Article ; Online: The evolution of age-specific choosiness when mating.

    Cotto, Olivier / Day, Troy

    Journal of evolutionary biology

    2021  Volume 34, Issue 3, Page(s) 477–485

    Abstract: Mate choice is a crucial element of many processes in evolutionary biology. Empirical research has shown that mating preference and choosiness often change with age. Understanding the evolutionary causes of patterns of age-specific choosiness is ... ...

    Abstract Mate choice is a crucial element of many processes in evolutionary biology. Empirical research has shown that mating preference and choosiness often change with age. Understanding the evolutionary causes of patterns of age-specific choosiness is challenging because different mechanisms can give rise to the same pattern. Instead of focusing on the optimal age-specific choosiness strategy given fitness trade-offs, we approach this question from a more general standpoint and ask how the strength of selection on choosiness changes with the age at which it is expressed. We show that the strength of selection on a modifier of choosiness at a given age depends on the relative contribution of this age class to the pool of offspring but does not depend directly on the strength of selection on fitness components at the age affected by the modifier. We illustrate our results by contrasting two life histories from the literature. We further show how mutation-selection balance at the choosiness locus can shape age-specific choosiness. Our results provide new insights for understanding the evolution of choosiness throughout life, with implications for understanding the evolution of mate choice and reproductive isolation.
    MeSH term(s) Aging/psychology ; Animals ; Biological Evolution ; Female ; Male ; Mating Preference, Animal ; Models, Genetic ; Mutation ; Selection, Genetic
    Language English
    Publishing date 2021-02-05
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1465318-7
    ISSN 1420-9101 ; 1010-061X
    ISSN (online) 1420-9101
    ISSN 1010-061X
    DOI 10.1111/jeb.13750
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Interpreting phenotypic antibiotic tolerance and persister cells as evolution via epigenetic inheritance.

    Day, Troy

    Molecular ecology

    2016  Volume 25, Issue 8, Page(s) 1869–1882

    Abstract: Epigenetic inheritance is the transmission of nongenetic material such as gene expression levels, RNA and other biomolecules from parents to offspring. There is a growing realization that such forms of inheritance can play an important role in evolution. ...

    Abstract Epigenetic inheritance is the transmission of nongenetic material such as gene expression levels, RNA and other biomolecules from parents to offspring. There is a growing realization that such forms of inheritance can play an important role in evolution. Bacteria represent a prime example of epigenetic inheritance because a large array of cellular components is transmitted to offspring, in addition to genetic material. Interestingly, there is an extensive and growing empirical literature showing that many bacteria can form 'persister' cells that are phenotypically resistant or tolerant to antibiotics, but most of these results are not interpreted within the context of epigenetic inheritance. Instead, persister cells are usually viewed as a genetically encoded bet-hedging strategy that has evolved in response to a fluctuating environment. Here I show, using a relatively simple model, that many of these empirical findings can be more simply understood as arising from a combination of epigenetic inheritance and cellular noise. I therefore suggest that phenotypic drug tolerance in bacteria might represent one of the best-studied examples of evolution under epigenetic inheritance.
    MeSH term(s) Anti-Bacterial Agents/pharmacology ; Bacteria/drug effects ; Bacteria/genetics ; Drug Resistance, Bacterial/genetics ; Epigenesis, Genetic ; Evolution, Molecular ; Models, Genetic ; Phenotype
    Chemical Substances Anti-Bacterial Agents
    Language English
    Publishing date 2016-04
    Publishing country England
    Document type Journal Article
    ZDB-ID 1126687-9
    ISSN 1365-294X ; 0962-1083
    ISSN (online) 1365-294X
    ISSN 0962-1083
    DOI 10.1111/mec.13603
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Bonn / Germany

    Z 2005/723: Show issues

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  9. Article ; Online: Poisson integral type quarantine in a stochastic SIR system.

    Vlasic, Andrew / Day, Troy

    Mathematical biosciences and engineering : MBE

    2020  Volume 17, Issue 5, Page(s) 5534–5544

    Abstract: We propose a SIR system that includes a Poisson measure term to model the quarantine of infected individuals. An inequality concerning the term representing the transmission rate is given to establish the stochastic stability of the disease free ... ...

    Abstract We propose a SIR system that includes a Poisson measure term to model the quarantine of infected individuals. An inequality concerning the term representing the transmission rate is given to establish the stochastic stability of the disease free equilibrium. It is further shown that if R
    MeSH term(s) Computer Simulation ; Humans ; Models, Biological ; Quarantine ; Stochastic Processes
    Language English
    Publishing date 2020-10-22
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2265126-3
    ISSN 1551-0018 ; 1551-0018
    ISSN (online) 1551-0018
    ISSN 1551-0018
    DOI 10.3934/mbe.2020297
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Nongenetic inheritance and multigenerational plasticity in the nematode

    Baugh, L Ryan / Day, Troy

    eLife

    2020  Volume 9

    Abstract: A rapidly growing body of literature in several organisms suggests that environmentally-induced adaptive changes in phenotype can be transmitted across multiple generations. Although within-generation plasticity has been well documented, ... ...

    Abstract A rapidly growing body of literature in several organisms suggests that environmentally-induced adaptive changes in phenotype can be transmitted across multiple generations. Although within-generation plasticity has been well documented, multigenerational plasticity represents a significant departure from conventional evolutionary thought. Studies of
    MeSH term(s) Adaptation, Physiological/genetics ; Animals ; Caenorhabditis elegans/genetics ; Caenorhabditis elegans/physiology ; Epigenesis, Genetic/physiology
    Language English
    Publishing date 2020-08-25
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2687154-3
    ISSN 2050-084X ; 2050-084X
    ISSN (online) 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.58498
    Database MEDical Literature Analysis and Retrieval System OnLINE

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