Introduction to the symposium: responses of organisms to climate change: a synthetic approach to the role of thermal adaptation

Genomic and Phenotypic Adaptations of Rattus tanezumi to Cold Limit Its Further Northward Expansion and Range Overlap with R. norvegicus

Global climate change has led to shifts in the distribution ranges of many terrestrial species, promoting their migration from lower altitudes or latitudes to higher ones. Meanwhile, successful invaders have developed genetic adaptations enabling the colonization of new environments. Over the past 40 years, Rattus tanezumi (RT) has expanded into northern China (Northwest and North China) from its southern origins. We studied the cold adaptation of RT and its potential for northward expansion by comparing it with sympatric Rattus norvegicus (RN), which is well adapted to cold regions. Through population genomic analysis, we revealed that the invading RT rats have split into three distinct populations: the North, Northwest, and Tibetan populations. The first two populations exhibited high genetic diversity, while the latter population showed remarkably low genetic diversity. These rats have developed various genetic adaptations to cold, arid, hypoxic, and high-UV conditions. Cold acclimation tests revealed divergent thermoregulation between RT and RN. Specifically, RT exhibited higher brown adipose tissue activity and metabolic rates than did RN. Transcriptome analysis highlighted changes in genes regulating triglyceride catabolic processes in RT, including Apoa1 and Apoa4, which were upregulated, under selection and associated with local adaptation. In contrast, RN showed changes in carbohydrate metabolism genes. Despite the cold adaptation of RT, we observed genotypic and phenotypic constraints that may limit its ability to cope with severe low temperatures farther north. Consequently, it is less likely that RT rats will invade and overlap with RN rats in farther northern regions.

Global warming is projected to lead to increased freshwater growth potential and changes in pace of life in Atlantic salmon Salmo salar

Global warming has been implicated in widespread demographic changes in Atlantic salmon Salmo salar populations, but projections of life-history responses to future climate change are lacking. Here, we first exploit multiple decades of climate and biological data from the Burrishoole catchment in the west of Ireland to model statistical relationships between atmospheric variables, water temperature, and freshwater growth of juvenile Atlantic salmon. We then use this information to project potential changes in juvenile growth and life-history scheduling under three shared socioeconomic pathway and representative concentration pathway scenarios from 1961 to 2100, based on an ensemble of five climate models. Historical water temperatures were well predicted with a recurrent neural network, using observation-based atmospheric forcing data. Length-at-age was in turn also well predicted by cumulative growing degree days calculated from these water temperatures. Most juveniles in the Burrishoole population migrated to sea as 2-year-old smolts, but our future projections indicate that the system should start producing a greater proportion of 1-year-old smolts, as increasingly more juveniles cross a size-based threshold in their first summer for smoltification the following spring. Those failing to cross the size-based threshold will instead become 2-year-old smolts, but at a larger length relative to 2-year-old smolts observed currently, owing to greater overall freshwater growth opportunity. These changes in age- and size-at-seaward migration could have cascading effects on age- and size-at-maturity and reproductive output. Consequently, the seemingly small changes that our results demonstrate have the potential to cause significant shifts in population dynamics over the full life cycle. This workflow is highly applicable across the range of the Atlantic salmon, as well as to other anadromous species, as it uses openly accessible climate data and a length-at-age model with minimal input requirements, fostering improved general understanding of phenotypic and demographic responses to climate change and management implications.

Fatty acid metabolism decreased while sexual selection increased in brown rats spreading south

For mammals that originate in the cold north, adapting to warmer environments is crucial for southwards invasion. The brown rat (Rattus norvegicus) originated in Northeast China and has become a global pest. R. n. humiliatus (RNH) spread from the northeast, where R. n. caraco (RNC) lives, to North China and diverged to form a subspecies. Genomic analyses revealed that subspecies differentiation was promoted by temperature but impeded by gene flow and that genes related to fatty acid metabolism were under the strongest selection. Transcriptome analyses revealed downregulated hepatic genes related to fatty acid metabolism and upregulated those related to pheromones in RNH vs. RNC. Similar patterns were observed in relation to cold/warm acclimation. RNH preferred mates with stronger pheromone signals intra-populationally and more genetic divergence inter-populationally. We concluded that RNH experienced reduced fat utilization and increased pheromone-mediated sexual selection during its invasion from the cold north to warm south.

Differential effects of parental and developmental temperatures on larval thermal adaptation in oviparous and viviparous model fish species

Phenotypic plasticity has been identified as a major mechanism of response to changing temperatures. Parental effects are potentially important drivers of ecological and evolutionary dynamics, while developmental plasticity also plays a key role in generating phenotypic variation. However, little is known of the interaction between parental effects and developmental plasticity on the thermal phenotypes of fishes with different reproductive modes (i.e. oviparous vs. viviparous). To understand the contributions of inter- and intra-generational plasticity of thermal phenotypes (preferred temperature, avoidance temperatures, critical thermal thresholds) in fishes with different reproductive modes, we carried out a factorial experiment in which both breeding parents and offspring were exposed to lower (22 °C) or higher (28 °C) temperatures, using zebrafish (Danio rerio) and guppies (Poecilia reticulata) as representative oviparous and viviparous species. We found that offspring thermal preference and avoidance of both species were significantly influenced by parental effects and developmental plasticity, with higher thermal preference and avoidance consistent with higher background (parental) temperature treatments. However, parental effects were only found to impose significant effect on the thermal tolerances of guppies. The findings suggest that phenotypic plasticity, both within and across generations, may be an important mechanism to adapt to rapid climate changes, and that future temperature fluctuations may impose more profound effects on viviparous fish species in general.

Climatic envelopes of the genus Lacerta Linnaeus, 1758 in Türkiye: an application of ecological niche modeling

Six species belonging to the genus Lacerta live in Türkiye. In this study, both present and future potential distribution maps were created based on occurrence data and climatic variables for these six species. Two scenarios for future projections (shared socioeconomic pathways, SSPs,: 245 and 585) and two timeframes (2041-2060 and 2081-2100) were used. The present and future potential distributions of these species were compared. As a result, it was predicted that the distribution ranges in the six species will expand in the future, and this expansion has revealed new environments.

Evolutionary Mechanisms of Long-Term Genome Diversification Associated With Niche Partitioning in Marine Picocyanobacteria

Marine picocyanobacteria of the genera Prochlorococcus and Synechococcus are the most abundant photosynthetic organisms on Earth, an ecological success thought to be linked to the differential partitioning of distinct ecotypes into specific ecological niches. However, the underlying processes that governed the diversification of these microorganisms and the appearance of niche-related phenotypic traits are just starting to be elucidated. Here, by comparing 81 genomes, including 34 new Synechococcus, we explored the evolutionary processes that shaped the genomic diversity of picocyanobacteria. Time-calibration of a core-protein tree showed that gene gain/loss occurred at an unexpectedly low rate between the different lineages, with for instance 5.6 genes gained per million years (My) for the major Synechococcus lineage (sub-cluster 5.1), among which only 0.71/My have been fixed in the long term. Gene content comparisons revealed a number of candidates involved in nutrient adaptation, a large proportion of which are located in genomic islands shared between either closely or more distantly related strains, as identified using an original network construction approach. Interestingly, strains representative of the different ecotypes co-occurring in phosphorus-depleted waters (Synechococcus clades III, WPC1, and sub-cluster 5.3) were shown to display different adaptation strategies to this limitation. In contrast, we found few genes potentially involved in adaptation to temperature when comparing cold and warm thermotypes. Indeed, comparison of core protein sequences highlighted variants specific to cold thermotypes, notably involved in carotenoid biosynthesis and the oxidative stress response, revealing that long-term adaptation to thermal niches relies on amino acid substitutions rather than on gene content variation. Altogether, this study not only deciphers the respective roles of gene gains/losses and sequence variation but also uncovers numerous gene candidates likely involved in niche partitioning of two key members of the marine phytoplankton.

Temperature drop and the risk of asthma: a systematic review and meta-analysis

The relationship between asthma and temperature changes remains controversial. The aim of this study was to investigate the association between temperature changes and the risk of asthma. A total of 26 studies (combined total number of subjects N > 26 million), covering 13 countries and Costa Rica, were identified by using a series of keywords in different combinations and searching the papers in PubMed, EMBSEA, Web of Science, MEDLINE, AIM, LILACS, and WPRIM before February 2016. Most of the papers were published in English. Random-effects meta-analyses were performed to evaluate the effect of temperature drop on risk of asthma. Several secondary analyses were also calculated based on stratification for different age, season, latitude, and region on risk of asthma. The odds ratio (OR) estimate between temperature drop and asthma was 1.05 (95% CI 1.02, 1.08) in the meta-analysis. For children, the overall OR was 1.09 (95% CI 1.03, 1.15). Dose-effect analyses showed stronger associations in asthma risk for each 1°1 °C decrement in short-term temperature (OR 1.055, 95% CI 1.00, 1.11). Further stratifications showed that winter (OR 1.03, 95% CI 1.01, 105) and low latitude (OR 1.72, 95% CI 1.23, 2.41) have a statistically significant association with the increased risk of asthma. Exposure of people to short-term temperature drop (per 1 °C decrement) was significantly associated with the risk of lower respiratory tract infections (LRTI) with asthma (OR 1.02, 95% CI 1.00, 1.04). Results suggest an adverse effect of temperature drop on asthma risk, especially in children and low-latitude areas. It may be opportune to consider the preventive actions against temperature drop, including simple face masks, to decrease the risk of asthma.

Genomic and phenotypic signatures of climate adaptation in an Anolis lizard

Integrated knowledge on phenotype, physiology, and genomic adaptations is required to understand the effects of climate on evolution. The functional genomic basis of organismal adaptation to changes in the abiotic environment, its phenotypic consequences, and its possible convergence across vertebrates are still understudied. In this study, we use a comparative approach to verify predicted gene functions for vertebrate thermal adaptation with observed functions underlying repeated genomic adaptations in response to elevation in the lizard Anolis cybotes. We establish a direct link between recurrently evolved phenotypes and functional genomics of altitude-related climate adaptation in three highland and lowland populations in the Dominican Republic. We show that across vertebrates, genes contained in this interactome are expressed within the brain, the endocrine system, and during development. These results are relevant to elucidate the effect of global climate change across vertebrates and might aid in furthering insight into gene-environment relationships under disturbances to homeostasis.

Beyond the Mean: Biological Impacts of Cryptic Temperature Change

Studies have typically used shifts in mean temperatures to make predictions about the biotic impacts of climate change. Though shifts in mean temperatures correlate with changes in phenology and distributions, other hidden, or cryptic, changes in temperature, such as temperature variation and extreme temperatures, could pose greater risks to species and ecological communities. Yet, these cryptic temperature changes have received relatively little attention because mean temperatures are readily available and the organism-appropriate temperature response is often elusive. An alternative to using mean temperatures is to view organisms as physiological filters of hourly temperature data. We explored three classes of physiological filters: (1) nonlinear thermal responses using performance curves of insect fitness, (2) cumulative thermal effects using degree-day models for corn emergence, and (3) threshold temperature effects using critical thermal maxima and minima for diverse ectotherms. For all three physiological filters, we determined the change in biological impacts of hourly temperature data from a standard reference period (1961-90) to a current period (2005-10). We then examined how well mean temperature changes during the same time period predicted the biotic impacts we determined from hourly temperature data. In all cases, mean temperature alone provided poor predictions of the impacts of climate change. These results suggest that incorporating high frequency temperature data can provide better predictions for how species will respond to temperature change.

Seasonal Changes Drive Short-Term Selection for Fitness Traits in the Wheat Pathogen Zymoseptoria tritici

In a cross-infection experiment, we investigated how seasonal changes can affect adaptation patterns in a Zymoseptoria tritici population. The fitness of isolates sampled on wheat leaves at the beginning and at the end of a field epidemic was assessed under environmental conditions (temperature and host stage) to which the local pathogen population was successively exposed. Isolates of the final population were more aggressive, and showed greater sporulation intensity under winter conditions and a shorter latency period (earlier sporulation) under spring conditions, than isolates of the initial population. These differences, complemented by lower between-genotype variability in the final population, exhibited an adaptation pattern with three striking features: (i) the pathogen responded synchronously to temperature and host stage conditions; (ii) the adaptation concerned two key fitness traits; (iii) adaptation to one trait (greater sporulation intensity) was expressed under winter conditions while, subsequently, adaptation to the other trait (shorter latency period) was expressed under spring conditions. This can be interpreted as the result of short-term selection, driven by abiotic and biotic factors. This case study cannot yet be generalized but suggests that seasonality may play an important role in shaping the variability of fitness traits. These results further raise the question of possible counterselection during the interepidemic period. While we did not find any trade-off between clonal multiplication on leaves during the epidemic period and clonal spore production on debris, we suggest that final populations could be counterselected by an Allee effect, mitigating the potential impact of seasonal selection on long-term dynamics.

Thinking about Change: An Integrative Approach for Examining Cognition in a Changing World

We are currently experiencing shifts in climate at rates not previously recorded. One important aspect of this change is a tendency toward extremes--extremes in temperature and moisture, both within and among years. Numerous studies focus on the physiological consequences of environmental change, especially in terms of ectothermic taxa's thermal regime and use of habitat. For many species, though, cognitive responses may be a means of response to environmental perturbation. However, the effects of environmental change on the general mechanisms of cognitive processes and their implications for larger phenomena are seldom examined. Moreover, at a larger scale, we do not fully understand the features of the environment that might select for cognitive enhancements or their mechanisms, making us unable to accurately predict which species might experience the most severe response to environmental change and in which environments. This symposium brought together scientists from numerous disciplines to examine the role of cognition in how organisms cope with changing environments. We cover topics from the perspectives of the physiological mechanisms underlying and driving cognition to the complexity of individual behavioral responses in changing environments to emergent large-scale processes influencing species' abilities to respond to such change. Our ultimate goals are to explore how animals use cognition to cope with rapid environmental change, how such coping mechanisms "scale up" to affect ecological and evolutionary patterns, and how we might determine which features of the environment have been (and will become) most important for the conservation of biodiversity.

A candidate multimodal functional genetic network for thermal adaptation

Vertebrate ectotherms such as reptiles provide ideal organisms for the study of adaptation to environmental thermal change. Comparative genomic and exomic studies can recover markers that diverge between warm and cold adapted lineages, but the genes that are functionally related to thermal adaptation may be difficult to identify. We here used a bioinformatics genome-mining approach to predict and identify functions for suitable candidate markers for thermal adaptation in the chicken. We first established a framework of candidate functions for such markers, and then compiled the literature on genes known to adapt to the thermal environment in different lineages of vertebrates. We then identified them in the genomes of human, chicken, and the lizard Anolis carolinensis, and established a functional genetic interaction network in the chicken. Surprisingly, markers initially identified from diverse lineages of vertebrates such as human and fish were all in close functional relationship with each other and more associated than expected by chance. This indicates that the general genetic functional network for thermoregulation and/or thermal adaptation to the environment might be regulated via similar evolutionarily conserved pathways in different vertebrate lineages. We were able to identify seven functions that were statistically overrepresented in this network, corresponding to four of our originally predicted functions plus three unpredicted functions. We describe this network as multimodal: central regulator genes with the function of relaying thermal signal (1), affect genes with different cellular functions, namely (2) lipoprotein metabolism, (3) membrane channels, (4) stress response, (5) response to oxidative stress, (6) muscle contraction and relaxation, and (7) vasodilation, vasoconstriction and regulation of blood pressure. This network constitutes a novel resource for the study of thermal adaptation in the closely related nonavian reptiles and other vertebrate ectotherms.

Widespread rapid reductions in body size of adult salamanders in response to climate change

Reduction in body size is a major response to climate change, yet evidence in globally imperiled amphibians is lacking. Shifts in average population body size could indicate either plasticity in the growth response to changing climates through changes in allocation and energetics, or through selection for decreased size where energy is limiting. We compared historic and contemporary size measurements in 15 Plethodon species from 102 populations (9450 individuals) and found that six species exhibited significant reductions in body size over 55 years. Biophysical models, accounting for actual changes in moisture and air temperature over that period, showed a 7.1-7.9% increase in metabolic expenditure at three latitudes but showed no change in annual duration of activity. Reduced size was greatest at southern latitudes in regions experiencing the greatest drying and warming. Our results are consistent with a plastic response of body size to climate change through reductions in body size as mediated through increased metabolism. These rapid reductions in body size over the past few decades have significance for the susceptibility of amphibians to environmental change, and relevance for whether adaptation can keep pace with climate change in the future.

Facultative nocturnal behaviour in snakes: experimental examination of why and how with Ratsnakes (Elaphe obsoleta) and Racers (Coluber constrictor)

Diel activity patterns are often fixed within species such that most animals can be classified as diurnal, crepuscular, or nocturnal, and have sensory abilities that reflect when they are active. However, many snake species appear capable of switching between diurnal and nocturnal activity. Here, we evaluate the hypothesis that some species are constrained in their activity by the sensory cues used for foraging. We experimentally assessed differences between two sympatric snake species in their ability to alter diel activity patterns, to address why those snakes that switch do so (do thermal constraints force them to be active in otherwise nonpreferred conditions?), and to explore how sensory abilities to locate prey facilitate or constrain this shift. Ratsnakes (Elaphe obsoleta (Say in James, 1823)) were active when temperature was optimal, regardless of light level, suggesting their activity pattern is genuinely plastic. Consistent with our predictions, Ratsnakes successfully detected prey in low and high light using visual or chemical cues, and were most successful when cues were coupled. Racers (Coluber constrictor L., 1758) were almost exclusively diurnal, regardless of temperature, and became less active when daytime temperatures were suboptimal. The ability of Ratsnakes to shift activity may confer a foraging advantage and should buffer Ratsnakes and similarly flexible species from climate change, whereas climate change may pose a more serious threat to inflexible species such as Racers.

Activity response to climate seasonality in species with fossorial habits: a niche modeling approach using the lowland burrowing treefrog (Smilisca fodiens)

The importance of climatic conditions in shaping the geographic distribution of amphibian species is mainly associated to their high sensitivity to environmental conditions. How they cope with climate gradients through behavioral adaptations throughout their distribution is an important issue due to the ecological and evolutionary implications for population viability. Given their low dispersal abilities, the response to seasonal climate changes may not be migration, but behavioral and physiological adaptations. Here we tested whether shifts in climatic seasonality can predict the temporal variation of surface activity of the fossorial Lowland Burrowing Treefrog (Smilisca fodiens) across its geographical distribution. We employed Ecological Niche Modeling (ENM) to perform a monthly analysis of spatial variation of suitable climatic conditions (defined by the July conditions, the month of greatest activity), and then evaluated the geographical correspondence of monthly projections with the occurrence data per month. We found that the species activity, based on the species' occurrence data, corresponds with the latitudinal variation of suitable climatic conditions. Due to the behavioral response of this fossorial frog to seasonal climate variation, we suggest that precipitation and temperature have played a major role in the definition of geographical and temporal distribution patterns, as well as in shaping behavioral adaptations to local climatic conditions. This highlights the influence of macroclimate on shaping activity patterns and the important role of fossorials habits to meet the environmental requirements necessary for survival.

Potenciais efeitos das mudanças climáticas futuras sobre a distribuiçãode um anuro da Caatinga Rhinella granulosa (Anura, Bufonidae)

Neste estudo, usamos dois tipos de modelagem de distribuição de espécies (correlativo e mecanístico), com o objetivo de avaliar o efeito das mudanças climáticas sob a distribuição geográfica de Rhinella granulosa (Spix, 1824), espécie inserida principalmente no bioma Caatinga. Avaliamos a predição, levantada por outros autores, de que espécies de anfíbios distribuídos em climas quentes terão suas distribuições espaciais restringidas por aumento da temperatura considerando cenários futuros. Na abordagem correlativa, os resultados mostraram que as distribuições espaciais geradas pelo modelo de distância Euclidiana foram mais conservativas, ou seja, as áreas que apresentaram menor distância do nicho ótimo se restringiram às áreas de distribuição real da espécie (Caatinga) e às pequenas regiões que abrangem o bioma Cerrado. A abordagem mecanística apresentou resultados menos conservativos, onde o habitat indicado como adequado para R. granulosa está contido em grande parte da América do Sul, formando uma extensa área contínua. No geral, verificou-se que R. granulosa não sofrerá forte influência climática sobre sua distribuição geográfica no futuro, pelo menos até 2080, provavelmente por apresentar uma fisiologia extremamente tolerante às altas temperaturas e por possuir adaptações para suportar clima quente e seco.

Introduction to the symposium: responses of organisms to climate change: a synthetic approach to the role of thermal adaptation

On a global scale, changing climates are affecting ecological systems across multiple levels of biological organization. Moreover, climates are changing at rates unprecedented in recent geological history. Thus, one of the most pressing concerns of the modern era is to understand the biological responses to climate such that society can both adapt and implement measures that attempt to offset the negative impacts of a rapidly changing climate. One crucial question, to understand organismal responses to climate, is whether the ability of organisms to adapt can keep pace with quickly changing environments. To address this question, a syntheses of knowledge from a broad set of biological disciplines will be needed that integrates information from the fields of ecology, behavior, physiology, genetics, and evolution. This symposium assembled a diverse group of scientists from these subdisciplines to present their perspectives regarding the ability of organisms to adapt to changing climates. Specifically, the goals of this symposia were to (1) highlight what each discipline brings to a discussion of organismal responses to climate, (2) to initiate and foster a discussion to break barriers in the transfer of knowledge across disciplines, and (3) to synthesize an approach to address ongoing issues concerning biological responses to climate.