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School of Biological Sciences: Faculty Publications

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Articles 271 - 300 of 649

Full-Text Articles in Biology

Energy Demand And The Context-Dependent Effects Of Genetic Interactions Underlying Metabolism, Luke A. Hoekstra, Cole R. Julick, Katelyn M. Mika, Kristi L. Montooth Jan 2018

Energy Demand And The Context-Dependent Effects Of Genetic Interactions Underlying Metabolism, Luke A. Hoekstra, Cole R. Julick, Katelyn M. Mika, Kristi L. Montooth

School of Biological Sciences: Faculty Publications

Genetic effects are often context dependent, with the same genotype differentially affecting phenotypes across environments, life stages, and sexes.We used an environmental manipulation designed to increase energy demand during development to investigate energy demand as a general physiological explanation for context-dependent effects of mutations, particularly for those mutations that affect metabolism. We found that increasing the photoperiod during which Drosophila larvae are active during development phenocopies a temperature-dependent developmental delay in a mitochondrial-nuclear genotype with disrupted metabolism. This result indicates that the context-dependent fitness effects of this genotype are not specific to the effects of temperature and may generally result …


Evolutionary Origins Of Vocal Mimicry In Songbirds, Maria Goller, Daizaburo Shizuka Jan 2018

Evolutionary Origins Of Vocal Mimicry In Songbirds, Maria Goller, Daizaburo Shizuka

School of Biological Sciences: Faculty Publications

Vocal learning is an important behavior in oscines (songbirds). Some songbird species learn heterospecific sounds as well as conspecific vocalizations. The emergence of vocal mimicry is necessarily tied to the evolution of vocal learning, as mimicry requires the ability to acquire sounds through learning. As such, tracking the evolutionary origins of vocal mimicry may provide insights into the causes of variation in song learning programs among songbirds. We compiled a database of known vocal mimics that comprised 339 species from 43 families. We then traced the evolutionary history of vocal mimicry across the avian phylogeny using ancestral trait reconstruction on …


Cd32 Is Expressed On Cells With Transcriptionally Active Hiv But Does Not Enrich For Hiv Dna In Resting T Cells, Mohamed Abdel-Mohsen, Leticia Kuri-Cervantes, Judith Grau-Exposito, Adam M. Spivak, Racheal A. Nell, Costin Tomescu, Surya Kumari Vadrevu, Leila B. Giron, Carla Serra-Peinado, Meritxell Genesca, Josep Castellvi, Guoxin Wu, Perla M. Del Rio Estrada, Mauricio Gonzalez-Navarro, Kenneth Lynn, Collin T. King, Sai Vemula, Kara Cox, Yanmin Wan, Qingsheng Li, Karam Mounzer, Jay Kostman, Ian Frank, Mirko Paiardini, Daria Hazuda, Gustavo Reyes-Teran, Douglas Richman, Bonnie Howell, Pablo Tebas, Javier Martinez-Picado, Vicente Planelles, Maria J. Buzon, Michael R. Betts, Luis J. Montaner Jan 2018

Cd32 Is Expressed On Cells With Transcriptionally Active Hiv But Does Not Enrich For Hiv Dna In Resting T Cells, Mohamed Abdel-Mohsen, Leticia Kuri-Cervantes, Judith Grau-Exposito, Adam M. Spivak, Racheal A. Nell, Costin Tomescu, Surya Kumari Vadrevu, Leila B. Giron, Carla Serra-Peinado, Meritxell Genesca, Josep Castellvi, Guoxin Wu, Perla M. Del Rio Estrada, Mauricio Gonzalez-Navarro, Kenneth Lynn, Collin T. King, Sai Vemula, Kara Cox, Yanmin Wan, Qingsheng Li, Karam Mounzer, Jay Kostman, Ian Frank, Mirko Paiardini, Daria Hazuda, Gustavo Reyes-Teran, Douglas Richman, Bonnie Howell, Pablo Tebas, Javier Martinez-Picado, Vicente Planelles, Maria J. Buzon, Michael R. Betts, Luis J. Montaner

School of Biological Sciences: Faculty Publications

The persistence of HIV reservoirs, including latently infected, resting CD4+ T cells, is the major obstacle to cure HIV infection. CD32a expression was recently reported to mark CD4+ T cells harboring a replication-competent HIV reservoir during antiretroviral therapy (ART) suppression. We aimed to determine whether CD32 expression marks HIV latently or transcriptionally active infected CD4+ T cells. Using peripheral blood and lymphoid tissue of ART-treated HIV+ or SIV+ subjects, we found that most of the circulating memory CD32+ CD4+ T cells expressed markers of activation, including CD69, HLA-DR, CD25, CD38, and Ki67, and …


Temporal Variation In Predation Risk May Explain Daily Rhythms Of Foraging Behavior In An Orb-Weaving Spider, J. Colton Watts, Thomas C. Jones, Ashley Herrig, Madeleine Miller, Brigitte Tenhumberg Jan 2018

Temporal Variation In Predation Risk May Explain Daily Rhythms Of Foraging Behavior In An Orb-Weaving Spider, J. Colton Watts, Thomas C. Jones, Ashley Herrig, Madeleine Miller, Brigitte Tenhumberg

School of Biological Sciences: Faculty Publications

Daily rhythms occur in numerous physiological and behavioral processes across an immense diversity of taxa, but there remain few cases in which mechanistic links between rhythms of trait expression and organismal fitness have been established. We construct a dynamic optimization model to determine whether risk allocation provides an adaptive explanation for the daily foraging rhythm observed in many species using the orb-weaving spider Cyclosa turbinata as a case study. Our model predicts that female C. turbinata should generally start foraging at lower levels of energy reserves (i.e., should be less bold) during midday when predators are most abundant. We also …


Presence Of Fruits Decreases Probability Of Retaining Flowers In A Sequentially Flowering Plant, Shivani Jadeja, Brigitte Tenhumberg Jan 2018

Presence Of Fruits Decreases Probability Of Retaining Flowers In A Sequentially Flowering Plant, Shivani Jadeja, Brigitte Tenhumberg

School of Biological Sciences: Faculty Publications

Both intrinsic and extrinsic plant processes affect the fate of flowers along an inflorescence in sequentially flowering plants. We investigated whether the intrinsic process of competition for limited resource between fruits and flowers owing to resource preemption or sink strength of basal fruits, or architectural effects due to posi- tional differences in the probability of retaining flowers, explains a lower probability of retaining distal flowers inYucca glauca. Further, we investigated how the extrinsic process of seed herbivory interacts with the plant’s intrinsic processes of flower retention. We carried out a field experiment to compare flower retention among nine combi- nations …


A Rapid And Efficient Method For Enriching Mitochondrial Dna From Plants, Mackenzie M. Strehle, Emma Purfeerst, Alan C. Christensen Jan 2018

A Rapid And Efficient Method For Enriching Mitochondrial Dna From Plants, Mackenzie M. Strehle, Emma Purfeerst, Alan C. Christensen

School of Biological Sciences: Faculty Publications

Current mitochondrial purification techniques are tedious and protracted due to their emphasis on recovering physiologically active mitochondria. However, for studies that are exclusively interested in isolating mitochondrial DNA (mtDNA) for applications such as PCR and sequencing, respiring mitochondria - and the complex procedures that stem from the need to retain their function - are unnecessary. Still, global DNA extraction methods have proven insufficient for mitochondrial DNA isolation because nuclear mitochondrial DNA segments (NUMTs) pose unique challenges to accurate mtDNA quantification and characterization. We present a rapid and simple extraction technique that maximizes recovery of mitochondrial DNA from plant cells, while …


Rna-Seq Of Kaposi's Sarcoma Reveals Alterations In Glucose And Lipid Metabolism, For Yue Tso, Andrew V. Kossenkov, Salum J. Lidenge, Owen Ngalamika, John R. Ngowi, Julius Mwaiselage, Jayamanna Wickramasinghe, Eun Hee Kwon, John T. West, Paul M. Lieberman, Charles Wood Jan 2018

Rna-Seq Of Kaposi's Sarcoma Reveals Alterations In Glucose And Lipid Metabolism, For Yue Tso, Andrew V. Kossenkov, Salum J. Lidenge, Owen Ngalamika, John R. Ngowi, Julius Mwaiselage, Jayamanna Wickramasinghe, Eun Hee Kwon, John T. West, Paul M. Lieberman, Charles Wood

School of Biological Sciences: Faculty Publications

Kaposi's sarcoma-associated herpesvirus (KSHV) is the etiologic agent of Kaposi's sarcoma (KS). It is endemic in a number of sub-Saharan African countries with infection rate of >50%. The high prevalence of HIV-1 coupled with late presentation of advanced cancer staging make KS the leading cancer in the region with poor prognosis and high mortality. Disease markers and cellular functions associated with KS tumorigenesis remain ill-defined. Several studies have attempted to investigate changes of the gene profile with in vitro infection of monoculture models, which are not likely to reflect the cellular complexity of the in vivo lesion environment. Our approach …


Ecoevo-Maps: An Ecology And Evolution Assessment For Introductory Through Advanced Undergraduates, Mindi M. Summers, Brian A. Couch, Jennifer K. Knight, Sara E. Brownell, Alison J. Crowe, Katharine Semsar, Christian D. Wright, Michelle K. Smith Jan 2018

Ecoevo-Maps: An Ecology And Evolution Assessment For Introductory Through Advanced Undergraduates, Mindi M. Summers, Brian A. Couch, Jennifer K. Knight, Sara E. Brownell, Alison J. Crowe, Katharine Semsar, Christian D. Wright, Michelle K. Smith

School of Biological Sciences: Faculty Publications

A new assessment tool, Ecology and Evolution–Measuring Achievement and Progression in Science or EcoEvo-MAPS, measures student thinking in ecology and evolution during an undergraduate course of study. EcoEvo-MAPS targets foundational concepts in ecology and evolution and uses a novel approach that asks students to evaluate a series of predictions, conclusions, or interpretations as likely or unlikely to be true given a specific scenario. We collected evidence of validity and reliability for EcoEvo-MAPS through an iterative process of faculty review, student interviews, and analyses of assessment data from more than 3000 students at 34 associate’s-, bachelor’s-, master’s-, and doctoral-granting institutions. The …


Mitochondrial Dysfunction And Infection Generate Immunity–Fecundity Tradeoffs In Drosophila, Justin L. Buchanan, Colin D. Meiklejohn, Kristi L. Montooth Jan 2018

Mitochondrial Dysfunction And Infection Generate Immunity–Fecundity Tradeoffs In Drosophila, Justin L. Buchanan, Colin D. Meiklejohn, Kristi L. Montooth

School of Biological Sciences: Faculty Publications

Physiological responses to short-term environmental stressors, such as infection, can have long-term consequences for fitness, particularly if the responses are inappropriate or nutrient resources are limited. Genetic variation affecting energy acquisition, storage, and usage can limit cellular energy availability and may influence resourceallocation tradeoffs even when environmental nutrients are plentiful. Here, we utilized Drosophila mitochondrial– nuclear genotypes to test whether disrupted mitochondrial function interferes with nutrient-sensing pathways, and whether this disruption has consequences for tradeoffs between immunity and fecundity. We found that an energetically-compromised genotype was relatively resistant to rapamycin—a drug that targets nutrient-sensing pathways and mimics resource limitation. Dietary …


Time-Lagged Effects Of Weather On Plant Demography: Drought And Astragalus Scaphoides, Brigitte Tenhumberg, Elizabeth E. Crone, Satu Ramula, Andrew J. Tyre Jan 2018

Time-Lagged Effects Of Weather On Plant Demography: Drought And Astragalus Scaphoides, Brigitte Tenhumberg, Elizabeth E. Crone, Satu Ramula, Andrew J. Tyre

School of Biological Sciences: Faculty Publications

Temperature and precipitation determine the conditions where plant species can occur. Despite their significance, to date, surprisingly few demographic field studies have considered the effects of abiotic drivers. This is problematic because anticipating the effect of global climate change on plant population viability requires understanding how weather variables affect population dynamics. One possible reason for omitting the effect of weather variables in demographic studies is the difficulty in detecting tight associations between vital rates and environmental drivers. In this paper, we applied Functional Linear Models (FLMs) to long-term demographic data of the perennial wildflower, Astragalus scaphoides, and explored sensitivity of …


Synbiotics For Improved Human Health: Recent Developments, Challenges, And Opportunities, Janina A. Krumbeck, Jens Walter, Robert W. Hutkins Jan 2018

Synbiotics For Improved Human Health: Recent Developments, Challenges, And Opportunities, Janina A. Krumbeck, Jens Walter, Robert W. Hutkins

School of Biological Sciences: Faculty Publications

Research on combining pro- and prebiotics as synbiotics to enhance human and animal health has accelerated in the past 10 years, including many clinical trials that have assessed a diverse range of synbiotic formulations. In this review, we summarize these studies as well as the commercial applications of synbiotics that are available. In particular, we critically assess the claimed health benefits of synbiotic applications and the ecological and therapeutic factors to consider when designing synbiotics and discuss the implications of these concepts for future research in this field.


Molecular Basis Of Hemoglobin Adaptation In The High-Flying Bar-Headed Goose, Chandrasekhar Natarajan, Agnieszka Jendroszek, Amit Kumar, Roy E. Weber, Jeremy R. H. Tame, Angela Fago, Jay F. Storz Jan 2018

Molecular Basis Of Hemoglobin Adaptation In The High-Flying Bar-Headed Goose, Chandrasekhar Natarajan, Agnieszka Jendroszek, Amit Kumar, Roy E. Weber, Jeremy R. H. Tame, Angela Fago, Jay F. Storz

School of Biological Sciences: Faculty Publications

During the adaptive evolution of a particular trait, some selectively fixed mutations may be directly causative and others may be purely compensatory. The relative contribution of these two classes of mutation to adaptive phenotypic evolution depends on the form and prevalence of mutational pleiotropy. To investigate the nature of adaptive substitutions and their pleiotropic effects, we used a protein engineering approach to characterize the molecular basis of hemoglobin (Hb) adaptation in the high-flying bar-headed goose (Anser indicus), a hypoxia-tolerant species renowned for its trans-Himalayan migratory flights. To test the effects of observed substitutions on evolutionarily relevant genetic backgrounds, …


Change In Dominance Determines Herbivore Effects On Plant Biodiversity, Sally E. Koerner, Johannes Knops, Dustin J. Strong, 80 More Co-Authors Jan 2018

Change In Dominance Determines Herbivore Effects On Plant Biodiversity, Sally E. Koerner, Johannes Knops, Dustin J. Strong, 80 More Co-Authors

School of Biological Sciences: Faculty Publications

Herbivores alter plant biodiversity (species richness) in many of the world's ecosystems, but the magnitude and the direction of herbivore effects on biodiversity vary widely within and among ecosystems. One current theory predicts that herbivores enhance plant biodiversity at high productivity but have the opposite effect at low productivity. Yet, empirical support for the importance of site productivity as a mediator of these herbivore impacts is equivocal. Here, we synthesize data from 252 large-herbivore exclusion studies, spanning a 20-fold range in site productivity, to test an alternative hypothesis—that herbivore-induced changes in the competitive environment determine the response of plant biodiversity …


Reproductive Promiscuity In The Variegated Fairy-Wren: An Alternative Reproductive Strategy In The Absence Of Helpers?, Allison E. Johnson, Stephen Pruett-Jones Jan 2018

Reproductive Promiscuity In The Variegated Fairy-Wren: An Alternative Reproductive Strategy In The Absence Of Helpers?, Allison E. Johnson, Stephen Pruett-Jones

School of Biological Sciences: Faculty Publications

Cooperative breeding, in which auxiliary group members help rear related, but nondescendent young, is often explained by kin selection. Reproductive monogamy is predicted in cooperatively breeding systems, as monogamy increases intragroup relatedness and maximizes auxiliary inclusive fitness. While monogamy is observed across many systems, including eusocial insects and cooperatively breeding mammals, some cooperatively breeding birds exhibit high rates of extrapair paternity. Here we quantify paternity and examine the role of auxiliaries on extrapair paternity in the highly cooperative variegated fairy-wren, Malurus lamberti, a species with both male and female auxiliaries. Extrapair paternity occurred in 55.4% of nests, and 39.8% …


Vertebrate Body Size Jumps The Wright Way, Peter J. Wagner Dec 2017

Vertebrate Body Size Jumps The Wright Way, Peter J. Wagner

School of Biological Sciences: Faculty Publications

Fossil data provide copious evidence that anatomical (morphological) change within individual lineages is not constant: short bursts of great change commonly separate long durations of little change (1, 2). Despite this, most models of morphological change assume that probabilities of morphological character change are the same from one generation to the next: even if rates change over time—such as in “Cambrian explosion” or “early burst” models, where high disparity among anatomies evolves early—then it is still assumed that fast rates of continuous character change gave way to slow rates of continuous change (3). In statistical parlance, early bursts usually are …


Nitrogen Addition And Ecosystem Functioning: Both Species Abundances And Traits Alter Community Structure And Function, Anna R. Tatarko, Johannes M.H. Knops Dec 2017

Nitrogen Addition And Ecosystem Functioning: Both Species Abundances And Traits Alter Community Structure And Function, Anna R. Tatarko, Johannes M.H. Knops

School of Biological Sciences: Faculty Publications

Increased nutrient inputs can cause shifts in plant community composition and plant functional traits, both of which affect ecosystem function. We studied community- and species-level leaf functional trait changes in a full factorial nitrogen (N), phosphorus (P), and potassium (K) fertilization experiment in a semi-arid grassland. Nitrogen was the only nutrient addition to significantly affect leaf functional traits, and N addition increased community-weighted specific leaf area (SLA) by 19%, leaf chlorophyll content by 34%, height by 26%, and leaf dry matter content (LDMC) decreased by 11% while leaf thickness and toughness did not change significantly. At the species level, most …


Multiple Hypotheses Explain Variation In Extra-Pair Paternity At Different Levels In A Single Bird Family, Lyanne Brouwer, Martijn Van De Pol, Nataly Hidalgo Aranzamendi, Glen Bain, Daniel T. Baldassarre, Lesley C. Brooker, Michael G. Brooker, Diane Diane Colombelli-Négrel, Erik Enbody, Kurt Gielow, Michelle L. Hall, Allison E. Johnson, Jordan Karubian, Sjouke A. Kingma, Sonia Kleindorfer, Marina Louter, Raoul A. Mulder, Anne Peters, Stephen Pruett-Jones, Keith A. Tarvin, Derrick J. Thrasher, Claire W. Varian-Ramos, Michael S. Webster, Andrew Cockburn Oct 2017

Multiple Hypotheses Explain Variation In Extra-Pair Paternity At Different Levels In A Single Bird Family, Lyanne Brouwer, Martijn Van De Pol, Nataly Hidalgo Aranzamendi, Glen Bain, Daniel T. Baldassarre, Lesley C. Brooker, Michael G. Brooker, Diane Diane Colombelli-Négrel, Erik Enbody, Kurt Gielow, Michelle L. Hall, Allison E. Johnson, Jordan Karubian, Sjouke A. Kingma, Sonia Kleindorfer, Marina Louter, Raoul A. Mulder, Anne Peters, Stephen Pruett-Jones, Keith A. Tarvin, Derrick J. Thrasher, Claire W. Varian-Ramos, Michael S. Webster, Andrew Cockburn

School of Biological Sciences: Faculty Publications

Extra-pair paternity (EPP), where offspring are sired by a male other than the social male, varies enormously both within and among species. Trying to explain this variation has proved difficult because the majority of the interspecific variation is phylogenetically based. Ideally, variation in EPP should be investigated in closely related species, but clades with sufficient variation are rare. We present a comprehensive multifactorial test to explain variation in EPP among individuals in 20 populations of nine species over 89 years from a single bird family (Maluridae). Females had higher EPP in the presence of more helpers, more neighbors or …


Phosphate Starvation Induces Replacement Of Phospholipids With The Betaine Lipid Diacylglycerol-N,N,N-Trimethylhomoserine In The Human Fungal Pathogen Candida Albicans, Surabhi Naik, Rebecca E. Cahoon, Bridget Tripp, Christian Elowsky, Sophie Alvarez, Kan Liu, Chi Zhang, Wayne R. Riekhof Oct 2017

Phosphate Starvation Induces Replacement Of Phospholipids With The Betaine Lipid Diacylglycerol-N,N,N-Trimethylhomoserine In The Human Fungal Pathogen Candida Albicans, Surabhi Naik, Rebecca E. Cahoon, Bridget Tripp, Christian Elowsky, Sophie Alvarez, Kan Liu, Chi Zhang, Wayne R. Riekhof

School of Biological Sciences: Faculty Publications

We have previously demonstrated that phosphate starvation induces replacement of phosphatidylcholine with the betaine lipid diacylglyceryl-N,N,N-trimethylhomoserine (DGTS) in fungi. In Neurospora crassa, the BTA1 gene encodes the betaine lipid synthase, which is necessary and sufficient for DGTS synthesis. BTA1 expression and DGTS accumulation are part of the fungal phosphorus (Pi) deprivation (PHO) regulon, mediated by the NUC-1/Pho4p transcription factor. We now demonstrate that the human pathogen Candida albicans encodes a BTA1 ortholog (CaBTA1), which is activated during Pi scarcity. The CaBTA1 gene is also induced under certain biofilm-promoting conditions independent of P …


Multiple Streptomyces Species With Distinct Secondary Metabolomes Have Identical 16s Rrna Gene Sequences, Sanjay Antony-Babu, Didier Stien, Véronique Eparvier, Delphine Parrot, Sophie Tomasi, Marcelino Suzuki Sep 2017

Multiple Streptomyces Species With Distinct Secondary Metabolomes Have Identical 16s Rrna Gene Sequences, Sanjay Antony-Babu, Didier Stien, Véronique Eparvier, Delphine Parrot, Sophie Tomasi, Marcelino Suzuki

School of Biological Sciences: Faculty Publications

Microbial diversity studies using small subunit (SSU) rRNA gene sequences continue to advance our understanding of biological and ecological systems. Although a good predictor of overall diversity, using this gene to infer the presence of a species in a sample is more controversial. Here, we present a detailed polyphasic analysis of 10 bacterial strains isolated from three coastal lichens Lichina confinis, Lichina pygmaea and Roccella fuciformis with SSU rRNA gene sequences identical to the type strain of Streptomyces cyaneofuscatus. This analysis included phenotypic, microscopic, genetic and genomic comparisons and showed that despite their identical SSU rRNA sequences the …


Assessing The Influence Of Temporal Autocorrelations On The Population Dynamics Of A Disturbance Specialist Plant Population In A Random Environment, Eric A. Eager, Diana Pilson, Helen M. Alexander, Brigitte Tenhumberg Aug 2017

Assessing The Influence Of Temporal Autocorrelations On The Population Dynamics Of A Disturbance Specialist Plant Population In A Random Environment, Eric A. Eager, Diana Pilson, Helen M. Alexander, Brigitte Tenhumberg

School of Biological Sciences: Faculty Publications

Biological populations are strongly influenced by random variations in their environment, which are often autocorrelated in time. For disturbance specialist plant populations, the frequency and intensity of environmental stochasticity (via disturbances) can drive the qualitative nature of their population dynamics. In this article, we extended our earlier model to explore the effect of temporally autocorrelated disturbances on population persistence. In our earlier work, we only assumed disturbances were independent and identically distributed in time. We proved that the plant seed bank population converges in distribution, and we showed that the mean and variance in seed bank population size were both …


Geographical Variation In Community Divergence: Insights From Tropical Forest Monodominance By Ectomycorrhizal Trees*, Tadashi Fukami, Mifuyu Nakajima, Claire Fortunel, Paul V. Fine, Christopher Baraloto, Sabrina E. Russo, Kabir G. Peay Aug 2017

Geographical Variation In Community Divergence: Insights From Tropical Forest Monodominance By Ectomycorrhizal Trees*, Tadashi Fukami, Mifuyu Nakajima, Claire Fortunel, Paul V. Fine, Christopher Baraloto, Sabrina E. Russo, Kabir G. Peay

School of Biological Sciences: Faculty Publications

Convergence occurs in both species traits and community structure, but how convergence at the two scales influences each other remains unclear. To address this question, we focus on tropical forest monodominance, in which a single, often ectomycorrhizal (EM) tree species occasionally dominates forest stands within a landscape otherwise characterized by diverse communities of arbuscular mycorrhizal (AM) trees. Such monodominance is a striking potential example of community divergence resulting in alternative stable states. However, it is observed only in some tropical regions. A diverse suite of AM and EM trees locally codominate forest stands elsewhere. We develop a hypothesis to explain …


Abundance And Distribution Of Microbial Cells And Viruses In An Alluvial Aquifer, Donald Pan, Jason Nolan, Kenneth H. Williams, Karrie A. Weber Jul 2017

Abundance And Distribution Of Microbial Cells And Viruses In An Alluvial Aquifer, Donald Pan, Jason Nolan, Kenneth H. Williams, Karrie A. Weber

School of Biological Sciences: Faculty Publications

Viruses are the most abundant biological entity on Earth and their interactions with microbial communities are recognized to influence microbial ecology and impact biogeochemical cycling in various ecosystems. While the factors that control the distribution of viruses in surface aquatic environments are well-characterized, the abundance and distribution of continental subsurface viruses with respect to microbial abundance and biogeochemical parameters have not yet been established. In order to begin to understand the factors governing virus distribution in subsurface environments, we assessed microbial cell and virus abundance in groundwater concurrent with groundwater chemistry in a uranium impacted alluvial aquifer adjoining the Colorado …


How Question Types Reveal Student Thinking: An Experimental Comparison Of Multiple-True-False And Free-Response Formats, Joanna K. Hubbard, Macy A. Potts, Brian A. Couch Jul 2017

How Question Types Reveal Student Thinking: An Experimental Comparison Of Multiple-True-False And Free-Response Formats, Joanna K. Hubbard, Macy A. Potts, Brian A. Couch

School of Biological Sciences: Faculty Publications

Assessments represent an important component of undergraduate courses because they affect how students interact with course content and gauge student achievement of course objectives. To make decisions on assessment design, instructors must understand the affordances and limitations of available question formats. Here, we use a crossover experimental design to identify differences in how multiple-true-false (MTF) and free-response (FR) exam questions reveal student thinking regarding specific conceptions. We report that correct response rates correlate across the two formats but that a higher percentage of students provide correct responses for MTF questions. We find that MTF questions reveal a high prevalence of …


Identification Of The Atpase Subunit Of The Primary Maltose Transporter In The Hyperthermophilic Anaerobe Thermotoga Maritima, Raghuveer Singh, Derrick White, Paul H. Blum Jul 2017

Identification Of The Atpase Subunit Of The Primary Maltose Transporter In The Hyperthermophilic Anaerobe Thermotoga Maritima, Raghuveer Singh, Derrick White, Paul H. Blum

School of Biological Sciences: Faculty Publications

Thermotoga maritima is a hyperthermophilic anaerobic bacterium that produces molecular hydrogen (H2) by fermentation. It catabolizes a broad range of carbohydrates through the action of diverse ABC transporters. However, in T. maritima and related species, highly similar genes with ambiguous annotation obscure a precise understanding of genome function. In T. maritima, three putative malK genes, all annotated as ATPase subunits, exhibited high identity to each other. To distinguish between these genes, malK disruption mutants were constructed by gene replacement, and the resulting mutant cell lines were characterized. Only a disruption of malK3 produced a defect in maltose …


Nutrient Addition Shifts Plant Community Composition Towards Earlier Flowering Species In Some Prairie Ecoregions In The U.S. Central Plains, Lori A. Biederman, Brent Mortensen, Philip Fay, Nicole Hagenah, Johannes M. H. Knops, Kimberly J. La Pierre, Ramesh Laungani, Eric Lind, Rebecca Mcculley, Sally Power, Eric W. Seabloom, Pedro Tognetti May 2017

Nutrient Addition Shifts Plant Community Composition Towards Earlier Flowering Species In Some Prairie Ecoregions In The U.S. Central Plains, Lori A. Biederman, Brent Mortensen, Philip Fay, Nicole Hagenah, Johannes M. H. Knops, Kimberly J. La Pierre, Ramesh Laungani, Eric Lind, Rebecca Mcculley, Sally Power, Eric W. Seabloom, Pedro Tognetti

School of Biological Sciences: Faculty Publications

The distribution of flowering across the growing season is governed by each species' evolutionary history and climatic variability. However, global change factors, such as eutrophication and invasion, can alter plant community composition and thus change the distribution of flowering across the growing season. We examined three ecoregions (tall-, mixed, and short-grass prairie) across the U.S. Central Plains to determine how nutrient (nitrogen (N), phosphorus, and potassium (+micronutrient)) addition alters the temporal patterns of plant flowering traits. We calculated total community flowering potential (FP) by distributing peakseason plant cover values across the growing season, allocating each species' cover to only those …


Unexpected Nongenetic Individual Heterogeneity And Trait Covariance In Daphnia And Its Consequences For Ecological And Evolutionary Dynamics, Clayton E. Cressler, Stefan Bengtson, William A. Nelson Apr 2017

Unexpected Nongenetic Individual Heterogeneity And Trait Covariance In Daphnia And Its Consequences For Ecological And Evolutionary Dynamics, Clayton E. Cressler, Stefan Bengtson, William A. Nelson

School of Biological Sciences: Faculty Publications

Individual differences in genetics, age, or environment can cause tremendous differences in individual life-history traits. This individual heterogeneity generates demographic heterogeneity at the population level, which is predicted to have a strong impact on both ecological and evolutionary dynamics. However, we know surprisingly little about the sources of individual heterogeneity for particular taxa or how different sources scale up to impact ecological and evolutionary dynamics. Here we experimentally study the individual heterogeneity that emerges from both genetic and nongenetic sources in a species of freshwater zooplankton across a large gradient of food quality. Despite the tight control of environment, we …


The Combined Effects Of Reactant Kinetics And Enzyme Stability Explain The Temperature Dependence Of Metabolic Rates, John Delong, J. P. Gibert, Thomas M. Luhring, Gwendolyn C. Bachman, B. Reed, A. Neyer, Kristi Montooth Mar 2017

The Combined Effects Of Reactant Kinetics And Enzyme Stability Explain The Temperature Dependence Of Metabolic Rates, John Delong, J. P. Gibert, Thomas M. Luhring, Gwendolyn C. Bachman, B. Reed, A. Neyer, Kristi Montooth

School of Biological Sciences: Faculty Publications

A mechanistic understanding of the response of metabolic rate to temperature is essential for understanding thermal ecology and metabolic adaptation. Although the Arrhenius equation has been used to describe the effects of temperature on reaction rates and metabolic traits, it does not adequately describe two aspects of the thermal performance curve (TPC) for metabolic rate—that metabolic rate is a unimodal function of temperature often with maximal values in the biologically relevant temperature range and that activation energies are temperature dependent. We show that the temperature dependence of metabolic rate in ectotherms is well described by an enzyme-assisted Arrhenius (EAAR) model …


Microbial Strains And Methods Of Making And Using, Nicole Roswitha Buan Murphy, Jennifer Catlett Mar 2017

Microbial Strains And Methods Of Making And Using, Nicole Roswitha Buan Murphy, Jennifer Catlett

School of Biological Sciences: Faculty Publications

Microbial strains are provided, as are methods of making and using such microbial strains.

Methane is an increasingly important global energy Source, both as the primary component of natural gas and as a biologically produced fuel. Currently, Sweden uses 100% renewable methane (biogas) in place of compressed natural gas (CNG) for transportation fuel, and several European countries are implementing policies to increase their pro portion of biogas transportation fuel. In addition, methane is a valuable chemical for conversion into other higher-order carbon compounds (e.g., methanol, formate, alkanes, ter penes). More than 50% of the world's methane is produced biologically by …


Testing The Terminal Investment Hypothesis In California Oaks, Walter D. Koenig, Johannes M.H. Knops, William J. Carmen, Mario B. Pesendorfer Mar 2017

Testing The Terminal Investment Hypothesis In California Oaks, Walter D. Koenig, Johannes M.H. Knops, William J. Carmen, Mario B. Pesendorfer

School of Biological Sciences: Faculty Publications

The terminal investment hypothesis—which proposes that reproductive investment should increase with age-related declines in reproductive value—has garnered support in a range of animal species but has not been previously examined in long-lived plants, such as trees. We tested this hypothesis by comparing relative acorn production and radial growth among 1,0001 mature individuals of eight species of California oaks (genus Quercus) followed for up to 37 years, during which time 70 trees died apparently natural deaths. We found no significant differences in the radial growth, acorn production, or index of reproductive effort, taking into consideration both growth and reproduction among dying …


Ecological Pleiotropy Suppresses The Dynamic Feedback Generated By A Rapidly Changing Trait, John Delong Feb 2017

Ecological Pleiotropy Suppresses The Dynamic Feedback Generated By A Rapidly Changing Trait, John Delong

School of Biological Sciences: Faculty Publications

Population dynamics may carry a signature of an ecology- evolution-ecology feedback, known as eco-evolutionary dynamics, when functionally important traits change. Given current theory, the absence of a feedback from a trait with strong links to species interactions should not occur. In a previous study with the Didinium-Paramecium predator-prey system, however, rapid and large-magnitude changes in predator cell volume occurred without any noticeable effect on the population dynamics. Here I resolve this theory-data conflict by showing that ecological pleiotropy—when a trait has more than one functional effect on an ecological process—suppresses shifts in dynamics that would arise, given the links between …