Biology subjects

Dyer, L.

Publications and source records attributed to Dyer, L..

6 recordsLinked to original sources

bioRxiv2026

Physiological architecture and evolutionary origins of cellular adaptability

The capacity to adapt to complex environments ( adaptability) is a defining property of cells. Yet, its relationship across single-cell physiology, population-level responses, and evolutionary timescales remains unclear. We performed single-cell transcriptional profiling of budding yeast across 20 complex environments before and after long-term selection for increased osmotolerance. In ancestral populations, transcriptional responses organized into a reproducible hierarchy where adaptation to certain cues took precedence over others. This hierarchy mechanistically originated within individual cells through contingent regulation of translation initiation. Evolution for >3,000 generations under osmotic stress increased osmotolerance while reordering this hierarchy, selectively deprioritizing osmotic stress as an organizing axis of adaptation. The derived strain exhibited impaired integration of stress responses, defective translational coordination, and reduced fitness outside the selected condition. Together, these findings illustrate that cellular adaptability is an evolved architecture whose form is set by the history of selection. One Sentence SummaryCells adapt to complex environments via a prioritization hierarchy; this hierarchy is shaped by the frequency and magnitude of environmental fluctuations in their evolutionary history.

cell biology↗

bioRxiv2025

Emergent 3D genome reorganization from the stepwise assembly of transcriptional condensates

Transcriptional condensates are clusters of transcription factors, coactivators, and RNA Pol II associated with high-level gene expression, yet how they assemble and function within the cell remains unclear. Here we show that transcriptional condensates form in a stepwise manner to enable both graded and three-dimensional (3D) gene control in the yeast heat shock response. Molecular dissection revealed a condensate cascade. First, the transcription factor Hsf1 clusters upon partial dissociation from the chaperone Hsp70. Next, the coactivator Mediator partitions following further Hsp70 dissociation and Hsf1 phosphorylation. Finally, Pol II condenses, driving the emergent coalescence of HSR genes. Molecular analysis of a series of Hsf1 mutants revealed graded, rather than switch-like, transcriptional activity. Separation-of-function mutants showed that condensate formation can be decoupled from gene activation. Instead, fully assembled HSR condensates promote adaptive 3D genome reconfiguration, suggesting a role of transcriptional condensates beyond gene activation.

molecular biology↗

bioRxiv2023

Intra and interspecific diversity in a tropical plant clade alter herbivory and ecosystem resilience

Declines in biodiversity generated by anthropogenic stressors at both species and population levels can alter emergent processes instrumental to ecosystem function and resilience. As such, understanding the role of biodiversity in ecosystem function and its response to climate perturbation is increasingly important, especially in tropical systems where responses to changes in biodiversity are less predictable and more challenging to assess experimentally. Using large scale transplant experiments conducted at five neotropical sites, we documented the impacts of changes in intraspecific and interspecific plant richness in the genus Piper on insect herbivory, insect richness, and ecosystem resilience to perturbations in water availability. We found that reductions of both intraspecific and interspecific Piper diversity had measurable and site specific effects on herbivory, herbivorous insect richness, and plant mortality. The responses of these ecosystem-relevant processes to reduced intraspecific Piper richness were often similar in magnitude to the effects of reduced interspecific richness. Increased water availability reduced herbivory by 4.2% overall, and the response of herbivorous insect richness and herbivory to water availability were altered by both intra and interspecific richness in a site dependent manner. Our results underscore the role of intraspecific and interspecific richness as foundations of ecosystem function and the importance of community and location specific contingencies in controlling function in complex tropical systems.

ecology↗

bioRxiv2020

Reconstructing Great Basin Butterfly-Pollen Interaction Networks over the Past Century

AimsInsects and the plants they interact with dominate terrestrial biomes and constitute over half of the earths macro-organismal diversity. Their abundance in museum collections can provide a wealth of natural history data if they are collected as part of careful ecological studies or conservation programs. Here, we summarize pollen-insect quantitative networks gleaned from adult lepidopteran museum specimens to characterize these interactions and to examine how richness and frequency of butterfly-pollen associations have changed over a 100-year time series in Nevada and California. Pollen collected from well-curated butterfly specimens can provide insight into spatial and temporal variation in pollen-butterfly interactions and provide a complement to other approaches to studying pollination, such as pollinator observation networks. LocationGreat Basin and Sierra Nevada: California, Nevada Time periodThe last 100 years Major Taxon studiedButterflies MethodsWe estimated butterfly-pollen network parameters based on pollen collected from butterfly specimens from the Great Basin and Sierra Nevada. Additionally, we pooled interaction networks associated with specimens captured before and after 2000 to compare pollen-pollinator interaction variation under drought periods in California and Nevada in the last two decades versus previous years in the time series. ResultsButterfly-pollen networks indicated that most pollen-butterfly species interactions are specialized and appear to be different from observational networks. Interaction networks associated with specimens captured before and after 2000 revealed that compared to previous decades, butterfly-pollen networks over the past 20 years had higher nestedness and connectance, with high pollen richness and low pollen abundance. Main conclusionsThese findings represent another unique approach to understanding more about pollination biology, and how butterfly-pollen interactions are impacted by climate variation and ecosystem alteration.

ecology↗

bioRxiv2019

Simulating groundcover community assembly in a frequently burned ecosystem using a simple neutral model

Fire is a global process that drives patterns of biodiversity. In frequently burned fire-dependent ecosystems, surface fire regimes allow for the coexistence of high plant diversity at fine-scales even where soils are uniform. The mechanisms on how fire impacts groundcover community dynamics are however, poorly understood. Because fire can act as a stochastic agent of mortality, we hypothesized that a neutral mechanism might be responsible for maintaining plant diversity. We used the demographic parameters of the Unified Neutral Theory of Biodiversity (UNTB) as a foundation to model groundcover species richness, using a southeastern U.S. pine woodland as an example. We followed the fate of over 7,000 individuals of 123 plant species for four years and two prescribed burns in frequently burned Pinus palustris sites in NW FL, USA. Using these empirical data and UNTB-based assumptions, we developed two parsimonious autonomous agent models, which were distinct by spatially explicit and implicit local recruitment processes. Using a parameter sensitivity test, we examined how empirical estimates, input species frequency distributions, and community size affected output species richness. We found that dispersal limitation was the most influential parameter, followed by mortality and birth, and that these parameters varied based on scale of the frequency distributions. Overall, these nominal parameters were useful for simulating fine-scale groundcover communities, although further empirical analysis of richness patterns, particularly related to fine-scale burn severity is needed. This modeling framework can be utilized to examine our premise that localized groundcover assemblages are neutral communities at high fire frequencies, as well as examine the extent to which niche-based dynamics determine community dynamics when fire frequency is altered and spatial fire intensity patterns differ.

ecology↗

bioRxiv2019

Scale dependent patterns in interaction diversity maintain resiliency in a frequently disturbed ecosystem

Frequently disturbed ecosystems are characterized by resilience to ecological disturbances. For example, longleaf pine ecosystems are exposed to frequent fire disturbance, and this feature sustains biodiversity. We examined how fire frequency maintains beta diversity of multi-trophic interactions, as this community parameter provides a measure of functional redundancy of an ecosystem. We found that turnover in interaction diversity at small local scales is highest in the most frequently burned stands, conferring immediate resiliency to disturbance by fire. Interactions become more specialized and less resilient as fire frequency decreases. Local scale patterns of interaction diversity contribute to broader scale patterns and confer long-term ecosystem resiliency. Such natural disturbances are likely to be important for maintaining regional diversity of interactions for a broad range of ecosystems.

ecology↗