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The sacred datura plant (Solanales: Solanaceae: Datura wrightii) has been used to study plant-herbivore interactions for decades. The wealth of information that has resulted leads it to have potential as a model system for studying the ecological and evolutionary genomics of these interactions. We present a de novo Datura wrightii genome assembled using PacBio HiFi long-reads. Our assembly is highly complete and contiguous (N50 = 179Mb, BUSCO Complete = 97.6%). We successfully detected a previously documented ancient whole genome duplication using our assembly and have classified the gene duplication history that generated its coding sequence content. We use it as the basis for a genome-guided differential expression analysis to identify the induced responses of this plant to one of its specialized herbivores (Coleoptera: Chrysomelidae: Lema daturaphila). We find over 3000 differentially expressed genes associated with herbivory and that elevated expression levels of over 200 genes last for several days. We also combined our analyses to determine the role that different gene duplication categories have played in the evolution of Datura-herbivore interactions. We find that tandem duplications have expanded multiple functional groups of herbivore responsive genes with defensive functions, including UGT-glycosyltranserases, oxidoreductase enzymes, and peptidase inhibitors. Overall, our results expand our knowledge of herbivore-induced plant transcriptional responses and the evolutionary history of the underlying herbivore-response genes.

Human-wildlife cooperation occurs when humans and free-living wild animals actively coordinate their behavior to achieve a mutually beneficial outcome. These interactions provide important benefits to both the human and wildlife communities involved, have wider impacts on the local ecosystem, and represent a unique intersection of human and animal cultures. The remaining active forms are human-honeyguide and human-dolphin cooperation, but these are at risk of joining several inactive forms (including human-wolf and human-orca cooperation). Human-wildlife cooperation faces a unique set of conservation challenges, as it requires multiple components-a motivated human and wildlife partner, a suitable environment, and compatible interspecies knowledge-which face threats from ecological and cultural changes. To safeguard human-wildlife cooperation, we recommend: (i) establishing ethically sound conservation strategies together with the participating human communities; (ii) conserving opportunities for human and wildlife participation; (iii) protecting suitable environments; (iv) facilitating cultural transmission of traditional knowledge; (v) accessibly archiving Indigenous and scientific knowledge; and (vi) conducting long-term empirical studies to better understand these interactions and identify threats. Tailored safeguarding plans are therefore necessary to protect these diverse and irreplaceable interactions. Broadly, our review highlights that efforts to conserve biological and cultural diversity should carefully consider interactions between human and animal cultures. Please see AfricanHoneyguides.com/abstract-translations for Kiswahili and Portuguese translations of the abstract.

Although dispersal is generally viewed as a crucial determinant for the fitness of any organism, our understanding of its role in the persistence and spread of plant populations remains incomplete. Generalizing and predicting dispersal processes are challenging due to context dependence of seed dispersal, environmental heterogeneity and interdependent processes occurring over multiple spatial and temporal scales. Current population models often use simple phenomenological descriptions of dispersal processes, limiting their ability to examine the role of population persistence and spread, especially under global change. To move seed dispersal ecology forward, we need to evaluate the impact of any single seed dispersal event within the full spatial and temporal context of a plant's life history and environmental variability that ultimately influences a population's ability to persist and spread. In this perspective, we provide guidance on integrating empirical and theoretical approaches that account for the context dependency of seed dispersal to improve our ability to generalize and predict the consequences of dispersal, and its anthropogenic alteration, across systems. We synthesize suitable theoretical frameworks for this work and discuss concepts, approaches and available data from diverse subdisciplines to help operationalize concepts, highlight recent breakthroughs across research areas and discuss ongoing challenges and open questions. We address knowledge gaps in the movement ecology of seeds and the integration of dispersal and demography that could benefit from such a synthesis. With an interdisciplinary perspective, we will be able to better understand how global change will impact seed dispersal processes, and potential cascading effects on plant population persistence, spread and biodiversity.

Plant species bearing extrafloral nectaries (EFNs) may indirectly influence other plant species by sharing protective ants, potentially altering herbivory levels. However, the propagation of indirect effects in this type of mutualism has seldom been investigated.We investigated indirect effects via ant sharing among 21 EFN‐bearing plant species of the tribe Bignonieae distributed on 28 plots in the central Brazilian Amazon. We used an ecological network index to quantify potential indirect effects among plant species through shared dominant and subordinate ant species.Plant species that were more attractive to ants (promoter species) had the highest potential to indirectly influence ant visitation to less attractive plant species (receptor species) in the community, primarily through changes in the attraction of dominant ant species. However, these potential indirect effects did not result in significant differences in herbivory patterns among the studied plants. Ant attendance and herbivory levels were similar among promoter species, neighbouring plants, and non‐neighbouring plants. Unlike other mutualisms involving plants (e.g., pollination), the indirect effects among plant species that share protective ants had limited consequences. The low levels of herbivory and the small foraging areas of shared ant defenders could be responsible for the observed limited impact of indirect interactions among plant species in this system.Synthesis: This study demonstrates that plant species with EFNs can indirectly influence other plant species through ant sharing. The attractiveness of certain plants to ants enables them to affect the ant visitation patterns of less attractive plants in the community. However, these indirect effects did not significantly alter herbivory levels among plants. Overall, this study advances ecological understanding by showing that the sharing of protective ants among plant species can in some cases confer limited costs and benefits, leading indirect interactions to have minimal impact on herbivory patterns. [ABSTRACT FROM AUTHOR]

There has long been a fundamental divide in the study of cooperation: researchers focus either on cooperation within species, including but not limited to sociality, or else on cooperation between species, commonly termed mutualism. Here, we explore the ecologically and evolutionarily significant ways in which within- and between-species cooperation interact. We highlight two primary cross-linkages. First, cooperation of one type can change the context in which cooperation of the other type functions, and thus potentially its outcome. We delineate three possibilities: (i) within-species cooperation modulates benefits for a heterospecific partner; (ii) between-species cooperation affects the dynamics of within-species cooperation; and (iii) both processes take place interactively. The second type of cross-linkage emerges when resources or services that cooperation makes available are obtainable either from members of the same species or from different species. This brings cooperation at the two levels into direct interaction, to some extent obscuring the distinction between them. We expand on these intersections between within- and between-species cooperation in a diversity of taxa and interaction types. These interactions have the potential to weave together social networks and trophic dynamics, contributing to the structure and functioning of ecological communities in ways that are just beginning to be explored. This article is part of the theme issue 'Connected interactions: enriching food web research by spatial and social interactions'. [ABSTRACT FROM AUTHOR]

Primary nectar-robbers feed through holes they make in flowers, often bypassing the plant's reproductive organs in the process. In many robbed plants, multiple holes are made in a single flower. Why a flower should be robbed repeatedly is difficult to understand: a hole signals that a nectar forager has already fed, which would seem likely to predict low rewards. We tested three explanations for this pattern in Corydalis caseana (Fumariaceae), a bumble bee pollinated and robbed plant: (1) multiple holes appear only after all flowers have been robbed once; (2) individual foragers make multiple holes during single visits; and (3) it is more profitable for bees to rob older flowers, even if they have already been robbed. We tested these hypotheses from 2014 to 2016 in a Colorado, USA population using data on robbing rates over time, floral longevity, nectar accumulation in visited and unvisited flowers, and the accumulation of robbing holes across the life of flowers. Multiple holes were already appearing when two-thirds of flowers still lacked a single hole, allowing us to reject the first hypothesis. The second hypothesis cannot offer a full explanation for multiple robbing holes because 35% of additional holes appeared in flowers one or more days after the first hole was made. Repeated sampling of bagged and exposed inflorescences revealed that flowers filled at a constant rate and refilled completely after being drained. Consequently, young flowers are of consistently low value to foragers compared to older flowers even if they had previously been robbed, consistent with the third hypothesis. While further studies are needed, these results offer a simple explanation for the paradoxical clustering of nectar-robbing damage in this and possibly other plant species. [ABSTRACT FROM AUTHOR]

Biologists have taken the concept of organism largely for granted. However, advances in the study of chimerism, symbiosis, bacterial-eukaryote associations, and microbial behavior have prompted a redefinition of organisms as biological entities exhibiting low conflict and high cooperation among their parts. This expanded view identifies organisms in evolutionary time. However, the ecological processes, mechanisms, and traits that drive the formation of organisms remain poorly understood. Recognizing that organismality can be context dependent, we advocate elucidating the ecological contexts under which entities do or do not act as organisms. Here we develop a "contextual organismality" framework and provide examples of entities, such as honey bee colonies, tumors, and bacterial swarms, that can act as organisms under specific life history, resource, or other ecological circumstances. We suggest that context dependence may be a stepping stone to the development of increased organismal unification, as the most integrated biological entities generally show little context dependence. Recognizing that organismality is contextual can identify common patterns and testable hypotheses across different entities. The contextual organismality framework can illuminate timeless as well as pressing issues in biology, including topics as disparate as cancer emergence, genomic conflict, evolution of symbiosis, and the role of the microbiota in impacting host phenotype.

Cheating is a focal concept in the study of mutualism, with the majority of researchers considering cheating to be both prevalent and highly damaging. However, current definitions of cheating do not reliably capture the evolutionary threat that has been a central motivation for the study of cheating. We describe the development of the cheating concept and distill a relative-fitness-based definition of cheating that encapsulates the evolutionary threat posed by cheating, i.e. that cheaters will spread and erode the benefits of mutualism. We then describe experiments required to conclude that cheating is occurring and to quantify fitness conflict more generally. Next, we discuss how our definition and methods can generate comparability and integration of theory and experiments, which are currently divided by their respective prioritisations of fitness consequences and traits. To evaluate the current empirical evidence for cheating, we review the literature on several of the best-studied mutualisms. We find that although there are numerous observations of low-quality partners, there is currently very little support from fitness data that any of these meet our criteria to be considered cheaters. Finally, we highlight future directions for research on conflict in mutualisms, including novel research avenues opened by a relative-fitness-based definition of cheating.

Climate change is altering the timing of life history events in a wide array of species, many of which are involved in mutualistic interactions. Because many mutualisms can form only if partner species are able to locate each other in time, differential phenological shifts are likely to influence their strength, duration and outcome. At the extreme, climate change-driven shifts in phenology may result in phenological mismatch: the partial or complete loss of temporal overlap of mutualistic species. We have a growing understanding of how, when, and why phenological change can alter one type of mutualism-pollination. However, as we show here, there has been a surprising lack of attention to other types of mutualism. We generate a set of predictions about the characteristics that may predispose mutualisms in general to phenological mismatches. We focus not on the consequences of such mismatches but rather on the likelihood that mismatches will develop. We explore the influence of three key characteristics of mutualism: 1) intimacy, 2) seasonality and duration, and 3) obligacy and specificity. We predict that the following characteristics of mutualism may increase the likelihood of phenological mismatch: 1) a non-symbiotic life history in which co-dispersal is absent; 2) brief, seasonal interactions; and 3) facultative, generalized interactions. We then review the limited available data in light of our a priori predictions and point to mutualisms that are more and less likely to be at risk of becoming phenologically mismatched, emphasizing the need for research on mutualisms other than plant-pollinator interactions. Future studies should explicitly focus on mutualism characteristics to determine whether and how changing phenologies will affect mutualistic interactions.

Floral nectar contains microbes that can influence nectar chemistry and pollinator visitation, and these microbial communities can be affected by pollinators in turn. Some flowers are also visited by nectar robbers, which feed on nectar through holes cut in floral tissue. If nectar robbers alter nectar microbial communities, they might have unexpected impacts on pollinator visitation. We investigated whether robbing could affect nectar microbial communities directly, by introducing microbes, or indirectly, by triggering a plant response to floral damage. We applied four treatments to flowers of Tecoma × "Orange Jubilee" (Bignoniaceae) in an arboretum setting: flowers were (1) covered to exclude all visitors; (2) available to both pollinators and nectar robbers and robbed naturally by carpenter bees; (3) available to pollinators only but cut at the base to simulate nectar robbing damage; or (4) available to pollinators only. We found that nectar in flowers accessible to any visitors was more likely to contain culturable microbes than flowers from which visitors were excluded. Microbial community composition and beta diversity were similar across treatments. Among flowers containing culturable microbes, flowers available to pollinators and nectar robbers had higher microbial abundance than flowers with simulated robbing, but there were no differences between flowers available to pollinators and robbers and unwounded flowers from which robbers were excluded. Overall, our results suggest that floral damage can affect some features of nectar microbial communities, but specific effects of nectar robbing are limited compared with the influence of visitation in general. [ABSTRACT FROM AUTHOR]

Concern regarding the biological effects of climate change has led to a recent surge in research to understand the consequences of phenological change for species interactions. This rapidly expanding research program is centered on three lines of inquiry: (1) how the phenological overlap of interacting species is changing, (2) why the phenological overlap of interacting species is changing, and (3) how the phenological overlap of interacting species will change under future climate scenarios. We synthesize the widely disparate approaches currently being used to investigate these questions: (1) interpretation of long-term phenological data, (2) field observations, (3) experimental manipulations, (4) simulations and nonmechanistic models, and (5) mechanistic models. We present a conceptual framework for selecting approaches that are best matched to the question of interest. We weigh the merits and limitations of each approach, survey the recent literature from diverse systems to quantify their use, and characterize the types of interactions being studied by each of them. We highlight the value of combining approaches and the importance of long-term data for establishing a baseline of phenological synchrony. Future work that scales up from pairwise species interactions to communities and ecosystems, emphasizing the use of predictive approaches, will be particularly valuable for reaching a broader understanding of the complex effects of climate change on the phenological overlap of interacting species. It will also be important to study a broader range of interactions: to date, most of the research on climate-induced phenological shifts has focused on terrestrial pairwise resource-consumer interactions, especially those between plants and insects.