Daniel I Bolnick

Daniel I Bolnick
University of Texas at Austin | UT · Department of Integrative Biology

PhD

About

236
Publications
65,903
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
25,001
Citations
Introduction
Additional affiliations
September 2009 - present
Howard Hughes Medical Institute
Position
  • Early Career Scientist
September 2004 - present
University of Texas at Austin
Position
  • Professor (Full)
September 1998 - August 2003
University of California, Davis
Position
  • PhD Student

Publications

Publications (236)
Preprint
Background Parasites secrete and excrete a variety of molecules evolve to help establish and sustain infections within hosts. Parasite adaptation to their host may lead to between-population divergence in these excretory and secretory products (ESPs), but few studies have tested for intraspecific variation in helminth proteomes. Methods Schistocep...
Article
Full-text available
Host populations often vary in the magnitude of coinfection they experience across environmental gradients. Furthermore, coinfection often occurs sequentially, with a second parasite infecting the host after the first has established a primary infection. Because the local environment and interactions between coinfecting parasites can both drive pat...
Article
Full-text available
To promote sustainable aquaculture, the formulation of Atlantic salmon (Salmo salar) feeds has changed in recent decades, focusing on replacing standard marine-based ingredients with plant-based alternatives, increasingly demonstrating successful outcomes in terms of fish performance. However, little is known about how these plant-based diets may i...
Preprint
Full-text available
When species disperse into previously unoccupied habitats, new populations encounter unfamiliar species interactions such as altered parasite loads. Theory predicts that newly founded populations should exhibit destabilized eco-evolutionary fluctuations in infection rates and immune traits. However, to understand founder effects biologists typicall...
Article
Full-text available
Eco‐evolutionary experiments are typically conducted in semi‐unnatural controlled settings, such as mesocosms; yet inferences about how evolution and ecology interact in the real world would surely benefit from experiments in natural uncontrolled settings. Opportunities for such experiments are rare but do arise in the context of restoration ecolog...
Article
What drives the emergence of new species has fascinated biologists since Darwin. Reproductive barriers to gene flow are a key step in the formation of species, and recent advances have shed new light on how these are established. Genetic, genomic, and comparative techniques, together with improved theoretical frameworks, are increasing our understa...
Preprint
Full-text available
Studying the mechanisms underlying the genotype-phenotype association is crucial in genetics. Gene expression studies have deepened our understanding of the genotype → expression → phenotype mechanisms. However, traditional expression quantitative trait loci (eQTL) methods often overlook the critical role of gene co-expression networks in translati...
Article
Adaptation to replicated environmental conditions can be remarkably predictable, suggesting that parallel evolution may be a common feature of adaptive radiation. An open question, however, is how phenotypic variation itself evolves during repeated adaptation. Here, we use a dataset of morphological measurements from 35 populations of threespine st...
Preprint
Full-text available
To promote sustainable aquaculture, the formulation of Atlantic salmon ( Salmo salar ) feeds has changed in recent decades, focusing on replacing standard marine-based ingredients with plant-based alternatives, increasingly demonstrating successful outcomes in terms of fish performance. However, little is known about how these plant-based diets may...
Article
The vertebrate immune system provides an impressively effective defense against parasites and pathogens. However, these benefits must be balanced against a range of costly side-effects including energy loss and risks of auto-immunity. These costs might include biomechanical impairment of movement, but little is known about the intersection between...
Article
Full-text available
Most studies assessing rates of phenotypic change focus on population mean trait values, whereas a largely overlooked additional component is changes in population trait variation. Theoretically, eco‐evolutionary dynamics mediated by such changes in trait variation could be as important as those mediated by changes in trait means. To date, however,...
Article
In many animal species, alternative reproductive tactics can result in alloparenting: adult individuals providing care for juveniles that are not genetically their own progeny. In species with parental care, males may exhibit “sneaking” behavior and fertilize eggs in the nest of another male, or nesting males may commit egg theft from a more succes...
Preprint
Full-text available
Adaptation to replicated environmental conditions can be remarkably predictable, suggesting parallel evolution may be a common feature of adaptive radiation. An open question, however, is how phenotypic variation itself evolves during repeated adaptation. Here, we use a dataset of morphological measurements from 35 populations of threespine stickle...
Article
Full-text available
Parasitic infections are a global occurrence and impact the health of many species. Coinfections, where two or more species of parasite are present in a host, are a common phenomenon across species. Coinfecting parasites can interact directly or indirectly via their manipulation of (and susceptibility to) the immune system of their shared host. Hel...
Preprint
Full-text available
The vertebrate immune system provides an impressively effective defense against parasites and pathogens. However, these benefits must be balanced against a range of costly side-effects including energy loss and risks of auto-immunity. These costs might include biomechanical impairment of movement, but little is known about the intersection between...
Article
Full-text available
Host-parasite coevolution may lead to patterns of local adaptation in either the host or parasite. For parasites with complex multi-host life cycles, this coevolution may be more challenging as they must adapt to multiple geographically varying hosts. The tapeworm Schistocephalus solidus exhibits some local adaptation to its second intermediate hos...
Article
Full-text available
Driven by co-evolution with pathogens, host immunity continuously adapts to optimize defence against pathogens within a given environment. Recent advances in genetics, genomics and transcriptomics have enabled a more detailed investigation into how immunogenetic variation shapes the diversity of immune responses seen across domestic and wild animal...
Preprint
Parasitic infections are a global occurrence and impact the health of many species. Coinfections, where two or more species of parasite are present in a host, are a common phenomenon across species. Coinfecting parasites can interact directly, or indirectly via their manipulation of (and susceptibility to) the immune system of their shared host. He...
Article
Full-text available
The risk and severity of pathogen infections in humans, livestock, or wild organisms depends on host immune function, which can vary between closely related host populations or even among individuals. This immune variation can entail between-population differences in immune gene coding sequences, copy number, or expression. In recent years many stu...
Preprint
Full-text available
Indirect genetic effects (IGEs) exist when there is heritable variation in one species ability to alter a second species traits. For example, parasites can evolve disparate strategies to manipulate host immune response, whether by evading detection or suppressing immunity. A complication arises during coinfection, when two or more parasite genotype...
Article
Full-text available
Recent studies have shown that the repeated evolution of similar phenotypes in response to similar ecological conditions (here “parallel evolution”) often occurs through mutations in the same genes. However, many previous studies have focused on known candidate genes in a limited number of systems. Thus, the question of how often parallel phenotypi...
Article
Full-text available
Species competing for resources also commonly share predators. While competition often drives divergence between species, the effects of shared predation are less understood. Theoretically, competing prey species could either diverge or evolve in the same direction under shared predation depending on the strength and symmetry of their interactions....
Article
Parasites impose fitness costs on their hosts. Biologists often assume that natural selection favors infection-resistant hosts. Yet, when the immune response itself is costly, theory suggests that selection may sometimes favor loss of resistance, which may result in alternative stable states where some populations are resistant and others are toler...
Preprint
Full-text available
Measuring gene expression simultaneously in both hosts and symbionts offers a powerful approach to explore the biology underlying species interactions. Such dual or simultaneous RNAseq approaches have primarily been used to gain insight into gene function in model systems, but there is opportunity to expand and apply these tools in new ways to unde...
Article
Threespine stickleback (Gasterosteus aculeatus) fish are naturally infected with the Diphyllobothriidae family tapeworm, Schistocephalus solidus. The anti-parasite response to this body cavity infection varies greatly among wild stickleback populations. Some populations generate extensive peritoneal fibrosis which suppresses cestode grown, thereby...
Article
Full-text available
Sexual dimorphism is a ubiquitous source of within‐species variation, yet the community‐level consequences of sex differences remain poorly understood. Here, we analyse a bitrophic model of two competing resource species and a sexually reproducing consumer species. We show that consumer sex differences in resource acquisition can have striking cons...
Article
Full-text available
Closely related populations often differ in resistance to a given parasite, as measured by infection success or failure. Yet, the immunological mechanisms of these evolved differences are rarely specified. Does resistance evolve via changes to the host's ability to recognize that an infection exists, actuate an effective immune response, or attenua...
Article
Full-text available
Coevolution occurs when species interact to influence one another's fitness, resulting in reciprocal evolutionary change. In many coevolving lineages, trait expression in one species is modified by the genotypes and phenotypes of the other, forming feedback loops reminiscent of models of intraspecific social evolution. Here, we adapt the theory of...
Preprint
Full-text available
Pathogenic infection is an important driver of many ecological processes. Furthermore, variability in immune function is an important driver of differential infection outcomes. New evidence would suggest that immune variation extends to broad cellular structure of immune systems. However, variability at such broad levels is traditionally difficult...
Article
Full-text available
When predators consume prey, they risk becoming infected with their prey's parasites, which can then establish the predator as a secondary host. A predator population's diet therefore influences what parasites it is exposed to, as has been repeatedly shown in many species such as threespine stickleback (Gasterosteus aculeatus) (more benthic-feeding...
Article
Full-text available
Vertebrate immunity is a complex system consisting of a mix of constitutive and inducible defenses. Furthermore, host immunity is subject to selective pressure from a range of parasites and pathogens which can produce variation in these defenses across populations. As populations evolve immune responses to parasites, they may adapt via a combinatio...
Article
Full-text available
Fitness of aquatic animals can be limited by the scarcity of nutrients such as long-chain polyunsaturated fatty acids, especially docosahexaenoic acid (DHA). DHA availability from diet varies among aquatic habitats, imposing different selective pressures on resident animals to optimize DHA acquisition and synthesis. For example, DHA is generally po...
Preprint
Parasites impose fitness costs on their hosts. Biologists therefore tend to assume that natural selection favors infection-resistant hosts. Yet, when the immune response itself is costly, theory suggests selection may instead favor loss of resistance. Immune costs are rarely documented in nature, and there are few examples of adaptive loss of resis...
Article
Full-text available
Parasites can mediate host fitness both directly, via effects on survival and reproduction, or indirectly by inducing host immune defense with costly side‐effects. The evolution of immune defense is determined by a complex interplay of costs and benefits of parasite infection and immune response, all of which may differ for male and female hosts in...
Article
Full-text available
Commensal microbial communities have immense effects on their vertebrate hosts, contributing to a number of physiological functions, as well as host fitness. In particular, host immunity is strongly linked to microbiota composition through poorly understood bi-directional links. Gene expression may be a potential mediator of these links between mic...
Preprint
Full-text available
Coevolution occurs when species interact to influence one another's fitness, resulting in reciprocal evolutionary change. In many coevolving lineages, trait expression in one species is modified by the genotypes and phenotypes of the other, forming feedback loops reminiscent of models of intraspecific social evolution. Here, we adapt the theory of...
Article
Full-text available
Major Histocompatibility Complex (MHC) genes encode for proteins that recognize foreign protein antigens to initiate T‐cell mediated adaptive immune responses. They are often the most polymorphic genes in vertebrate genomes. How evolution maintains this diversity is still an unsettled issue. Three main hypotheses seek to explain the maintenance of...
Article
Full-text available
Recent methodological advances have led to a rapid expansion of evolutionary stud-ies employing three-dimensional landmark-based geometric morphometrics (GM). GM methods generally enable researchers to capture and compare complex shape phenotypes, and to quantify their relationship to environmental gradients. However, some recent studies have shown...
Article
The repeated occurrence of similar phenotypes in independent lineages (i.e., parallel evolution) in response to similar ecological conditions can provide compelling insights into the process of adaptive evolution. An intriguing question is to what extent repeated phenotypic changes are underlain by repeated changes at the genomic level and whether...
Article
Full-text available
Recent methodological advances have led to a rapid expansion of evolutionary studies employing three‐dimensional landmark‐based geometric morphometrics (GM). GM methods generally enable researchers to capture and compare complex shape phenotypes, and to quantify their relationship to environmental gradients. However, some recent studies have shown...
Article
Full-text available
A core goal of ecology is to understand the abiotic and biotic variables that regulate species distributions and community composition. A major obstacle is that the rules governing species distributions can change with spatial scale. Here, we illustrate this point using data from a spatially nested metacommunity of parasites infecting a metapopulat...
Preprint
Full-text available
Major Histocompatibility Complex (MHC) genes encode for proteins that recognize foreign protein antigens to initiate T-cell mediated adaptive immune responses. They are often the most polymorphic genes in vertebrate genomes. How evolution maintains this diversity is still an unsettled issue. Three main hypotheses seek to explain the maintenance of...
Preprint
Commensal microbial communities have immense effects on their vertebrate hosts, contributing to a number of physiological functions as well as host fitness. In particular, host immunity is strongly linked to microbiota composition through poorly understood bi-directional links. Gene expression may be a potential mediator of these links between micr...
Preprint
Despite the significant effect of host-parasite interactions on both ecological systems and organism health, there is still limited understanding of the mechanisms driving evolution of host resistance to parasites. One model of rapid evolution, the Baldwin Effect, describes the role of plasticity in adaptation to novel conditions, and subsequent ca...
Preprint
Full-text available
Parasites can mediate host fitness both directly, via effects on survival and reproduction, or indirectly by inducing host immune defense with costly side-effects. The evolution of immune defense is determined by a complex interplay of costs and benefits of parasite infection and immune response, all of which may differ for male and female hosts in...
Preprint
Full-text available
Closely related populations often differ in resistance to a given parasite, as measured by infection success or failure. Yet, the immunological mechanisms of these evolved differences are rarely specified. Does resistance evolve via changes to the host’s ability to recognize that an infection exists, actuate an effective immune response, or attenua...
Preprint
Full-text available
When predators consume prey, they risk becoming infected with their prey's parasites, which can then establish the predator as a secondary host. For example, stickleback in northern temperate lakes consume benthic or limnetic prey, which are intermediate hosts for distinct species of parasites (e.g. Eustrongylides nematodes in benthic oligocheates...
Article
Associations between eukaryotic organisms and microbial symbionts contribute to a diversity of host functions, including growth and immune system development. Despite these broad effects of the microbiome on host function, the mechanisms linking host processes and microbiome composition are still being elucidated. Using a model teleost species, Gas...
Article
Full-text available
Many metacommunities are distributed across habitat patches that are themselves aggregated into groups. Perhaps the clearest example of this nested metacommunity structure comes from multi‐species parasite assemblages, which occupy individual hosts that are aggregated into host populations. At both spatial scales, we expect parasite community diver...
Article
Since the New Synthesis, most migration‐selection balance theory predicted that there should be negligible differentiation over small spatial scales (relative to dispersal), because gene flow should erode any effect of divergent selection. Nevertheless, there are classic examples of microgeographic divergence, which theory suggests can arise under...
Article
Full-text available
Many generalist species consist of specialised individuals that use different resources. This within‐population niche variation can stabilise population and community dynamics. Consequently, ecologists wish to identify environmental settings that promote such variation. Theory predicts that environments with greater resource diversity favour ecolog...
Article
Full-text available
Explanations of how organisms might adapt to urban environments have mostly focused on divergent natural selection and adaptive plasticity. However, differential habitat choice has been suggested as an alternative. Here, we test for habitat choice in enhancing crypsis in ground-perching grasshoppers colonizing an urbanized environment, composed of...
Article
Full-text available
The repeatability of adaptive radiation is expected to be scale-dependent, with determinism decreasing as greater spatial separation among "replicates" leads to their increased genetic and ecological independence. Threespine stickleback (Gasterosteus aculeatus) provide an opportunity to test whether this expectation holds for the early stages of ad...
Article
Full-text available
Evolutionary biologist tend to approach the study of the natural world within a framework of adaptation, inspired perhaps by the power of natural selection to produce fitness advantages that drive population persistence and biological diversity. In contrast, evolution has rarely been studied through the lens of adaptation’s complement, maladaptatio...
Preprint
Full-text available
Many metacommunities are distributed across habitat patches that are themselves aggregated into groups. Perhaps the clearest example of this nested metacommunity structure comes from multi-species parasite assemblages, which occupy individual hosts that are aggregated into host populations. At both spatial scales, we expect parasite community diver...
Preprint
Full-text available
Many generalist species consist of disparate specialized individuals, a phenomenon known as individual specialization. This within-population niche variation can stabilize population dynamics, reduce extinction risk, and alter community composition. But, we still only vaguely understand the ecological contexts that promote niche variation and its s...
Article
Evolutionary biologists have long trained their sights on adaptation, focusing on the power of natural selection to produce relative fitness advantages while often ignoring changes in absolute fitness. Ecologists generally have taken a different tack, focusing on changes in abundance and ranges that reflect absolute fitness while often ignoring rel...
Preprint
Full-text available
A core goal of ecology is to understand the abiotic and biotic variables that regulate species distributions and community composition. A major obstacle is that the rules governing species distribution can change with spatial scale. Here, we illustrate this point using data from a spatially nested metacommunity of parasites infecting a metapopulati...
Article
Full-text available
The repeated evolution of similar phenotypes in independent populations (i.e. parallel or convergent evolution) provides an opportunity to identify genetic and ecological factors that influence the process of adaptation. Threespine stickleback fish ( Gasterosteus aculeatus ) are an excellent model for such studies, as they have repeatedly adapted t...
Preprint
Full-text available
The repeatability of adaptive radiation is expected to be scale dependent, with determinism decreasing as greater spatial separation among ″replicates″ leads to their increased genetic and ecological independence. Threespine stickleback ( Gasterosteus aculeatus ) provide an opportunity to test whether this expectation holds for the early stages of...
Article
Parallel evolution across replicate populations has provided evolutionary biologists with iconic examples of adaptation. When multiple populations colonize seemingly similar habitats, they may evolve similar genes, traits, or functions. Yet, replicated evolution in nature or in the laboratory often yields inconsistent outcomes: Some replicate popul...
Article
Full-text available
Theoretical models of sexual selection suggest that male courtship signals can evolve through the build‐up of genetic correlations between the male signal and female preference. When preference is mediated via increased sensitivity of the signal characteristics, correlations between male signal and perception/sensitivity are expected. When signal e...
Article
Full-text available
The ecological multifunctionality of colour often results in multiple selective pressures operating on a single trait. Most research on colour evolution focuses on males because they are the most conspicuous sex in most species. This bias can limit inferences about the ecological drivers of colour evolution. For example, little is known about popul...
Data
Dataset of colour measurements, geographic information, time, and reproductive state. This is the total dataset, including field number, lake designation, raw RGB brightness levels, lake surface area in hectares, watershed designation, date (in month/day format), and gravidity designation, where 1 is gravid, and 0 is not gravid.
Preprint
Adaptive phenotypic divergence is typically studied across relatively broad spatial scales (continents, archipelagos, river basins) because at these scales we expect environmental differences to be strong, and the homogenizing effect of gene flow to be weak. However, phenotypic plasticity and phenotype-dependent habitat choice are additional mechan...
Article
Full-text available
Heritable population differences in immune gene expression following infection can reveal mechanisms of host immune evolution. We compared gene expression in infected and uninfected threespine stickleback (Gasterosteus aculeatus) from two natural populations that differ in resistance to a native cestode parasite, Schistocephalus solidus. Genes in b...