The predictability and limits of evolution in response to increased temperature: insights from a natural 'experiment'

Lead Research Organisation: University of Glasgow
Department Name: College of Medical, Veterinary, Life Sci

Abstract

The ability to predict evolutionary responses to environmental change is of central importance for future conservation efforts. Increases in temperature from anthropogenic climate change are arguably the most widespread and dramatic alteration of natural ecosystems, with its impact predicted to become more acute with time. These increases in temperature are likely to shift species distributions, or drive developmental and evolutionary changes in local populations. Therefore, knowing how currently extant populations can or have changed in response to warmer conditions would be extremely important. Here we propose to investigate how populations change with respect to their growth, physiology, and anatomy in response to long term exposure to increased temperature. We will also determine what genetic changes may have happened in addition to epigenetic changes (i.e. environmentally-induced structural alterations of the genome that affect its function but don't change the DNA sequence), and relate these to phenotypic variation.

To address this we will use a series of unique study sites in Iceland where populations of threespine stickleback live both in geothermally heated ponds and in unheated (i.e. cool) ponds in close proximity. These pairs of adjacent populations (which occur in several places) have lived at these contrasting temperatures for thousands of generations and preliminary investigation shows evidence of evolutionary divergence between them. This broad-ranging project will use both comparative and experimental approaches to quantify how the phenotype, genome, and epigenome interact when the animal experiences rising temperatures. Lab experiments will use fish from these source populations to investigate 1) population level differences between ambient (cool) and 'warmed' populations at the genomic and epigenomic level, 2) the inheritance of phenotypic traits (including metabolic rate, morphology and locomotor performance) and epigenomic states in sticklebacks reared under reciprocal temperature regimes, 3) alterations of development under warm conditions that could limit evolution, and 4) the genetic and epigenetic basis for variation in phenotypic traits under different temperatures. This project will be holistic through its ability to allow plasticity and heritable epigenetic effects to be assessed together with genetic variation. It will reveal whether there are consistent (and hence predictable) evolutionary and epigenetic changes when populations are exposed to warmer temperatures, and will explore the role of plasticity in shaping adaptive responses. As a result, it will provide novel information on the extent to which populations can adapt to a warming world.

Planned Impact

The improved understanding of the role of temperature in determining the performance of fish will also inform our views on the short- and longer-term impacts of environmental change in freshwater ecosystems. Human-influenced environmental change, climate change being of perhaps most notable and immediate concern, is rapidly altering natural habitats and organisms are exposed to more erratic, extreme, unpredictable and unseasonal spells of weather. That these environmental perturbations may have long-term consequences beyond their immediate effects is not widely appreciated or understood. It is therefore justifiably expected by the wider public that biologists should be able to predict, and where the opportunity exists, examine the likely biological consequences of these changes. By focusing on both the short and long-term effects of environmental temperature perturbations in this project we will contribute directly to this body of applied information. This research will therefore be of interest to management agencies - as evidenced by the participation of the Icelandic Institute for Freshwater Fisheries - for making decisions about populations that are of greatest priority for conservation. Our genetic data have the potential to identify what changes are occurring at the molecular level, and this information (given the often common language of genetic variation) could be used to determine the susceptibility and evolutionary potential of other taxa and populations to the effects of climate change. Our outreach activities will promote the understanding of these issues by conservation/policy-forming bodies as well as among the general public. Given that the project is testing whether temperature affects the developmental processes occurring during early growth, it also has a direct relevance to animal scientists rearing captive animals, including those associated with the aquaculture industry.

Publications

10 25 50
 
Description We have found evidence of differences in metabolic rates between sticklebacks from geothermal versus ambient temperature pools. These differences are present under common temperature conditions suggesting heritable variation determines these differences. Update- a manuscript describing temperature preferences is now in review. We have found no temperature preferences in our fish but we are following up these experiments with a new project focused on sociability. We are now finding evidence that sticklebacks from warm and cold sites may be subject to social inertia which prevents them from seeking a preferred temperature

We have also found evidence of differences in craniofacial shape between geothermal and ambient temperature populations -Update- data collection is now complete and statistical analysis is due to be complete shortly. Update- a manuscript has been prepared for submission using the morphological data. Update- the manuscript is in review with acceptance likely, it will now demonstrate heritable differences in morphology between thermal habitats.
We have developed a genotyping protocol that is working on our sticklebacks and will be expanded to more specimens in the coming months. Update, the new postdoc (Ana Costa) is now analyzing the data and has found substantial evidence of genetic divergence between geothermal and ambient populations of stickleback. Update- Ana has analyzed RRBS and whole genome data, we are seeing the involvement of key metabolic pathways in the evolution of these populations (e.g. ATP related genes seem to differ).

We now (2020) have clear evidence of heritable differences in the morphology and appetite between fish from geothermal and ambient populations. In other words these traits have evolved between these populations. Update, we are now seeing evidence of epigenetic inheritance in morphology whereby these effects are as great as conventional heritable effects. Update (2022), we have gained clear evidence of epigenetic influences on morphology that have an effect size on par with conventional heritability, we have also found evidence of heritable differences in appetites with geothermal fish showing roughly twice the appetite of ambient fish.
Exploitation Route Within our group we now have information about which populations differ the most from a larger collection. This informs us about which populations will be most useful for breeding experiments over the next couple of years.

We can now suggest clearly traits which are affected and evolve in response to temperature in stickleback. This includes morphology and appetite but our assays of behaviour don't show much relevance to evolutionary change. Physiology appears to have evolved based on preliminary genomic data whereby ATP related genes show the highest levels of divergence between thermal habitats.

There are active plans to bring in a new postdoc on another smaller grant to follow up on the data that was generated.
Sectors Environment,Other

 
Description Assessing inversion polymorphisms and genomic structural variation in relation to thermal habitat divergence
Amount £8,000 (GBP)
Organisation Natural Environment Research Council 
Sector Public
Country United Kingdom
Start 12/2021 
End 12/2021
 
Description FSBI PhD studentship
Amount £57,750 (GBP)
Organisation The Fisheries Society of the British Isles 
Sector Learned Society
Country United Kingdom
Start 10/2018 
End 03/2022
 
Description Genetic adaptation to increased temperature: insights from whole genome re-sequencing
Amount £6,000 (GBP)
Funding ID nbaf1120 
Organisation Natural Environment Research Council 
Department NERC Catalyst Grant
Sector Public
Country United Kingdom
Start 01/2018 
 
Title Unique dual index barcodes for Hi-Seq 4000 genotyping 
Description While newer sequencers such as the Hiseq4000 provide greater output they suffer more frequently from and phenomenon known as 'index hopping'. This can lead to the mis-assignment of sequence to a given sample. To avoid this my postdoc has created a new approach toward barcodes for DNA libraries that will circumvent this problem. This involves the use of two barcodes per sample with unique identifiers. Currently others at the Liverpool Genomics facility are adopting this method for their projects. 
Type Of Material Biological samples 
Year Produced 2018 
Provided To Others? Yes  
Impact This method is increasing the feasibility of projects using newer generation sequencers. It lowers the cost of project while increasing the reliability of the data generated. 
 
Title Multigenerational exposure to elevated temperatures leads to a reduction in standard metabolic rate in the wild 
Description In light of global climate change, there is a pressing need to understand and predict the capacity of populations to respond to rising temperatures. Metabolic rate is a key trait that is likely to influence the ability to cope with climate change. Yet, empirical and theoretical work on metabolic rate responses to temperature changes has so far produced mixed results and conflicting predictions. Our study addresses this issue using a novel approach of comparing fish populations in geothermally warmed lakes and adjacent ambient-temperature lakes in Iceland. This unique 'natural experiment' provides repeated and independent examples of populations experiencing contrasting thermal environments for many generations over a small geographic scale, thereby avoiding the confounding factors associated with latitudinal or elevational comparisons. Using Icelandic sticklebacks from three warm and three cold habitats, we measured individual metabolic rates across a range of acclimation temperatures to obtain reaction norms for each population. We found a general pattern for a lower standard metabolic rate in sticklebacks from warm habitats when measured at a common temperature, as predicted by Krogh's rule. Metabolic rate differences between warm- and cold-habitat sticklebacks were more pronounced at more extreme acclimation temperatures, suggesting the release of cryptic genetic variation upon exposure to novel conditions, which can reveal hidden evolutionary potential. We also found a stronger divergence in metabolic rate between thermal habitats in allopatry than sympatry, indicating that gene flow may constrain physiological adaptation when dispersal between warm and cold habitats is possible. In sum, our study suggests that fish may diverge toward a lower standard metabolic rate in a warming world, but this might depend on connectivity and gene flow between different thermal habitats. 
Type Of Material Database/Collection of data 
Year Produced 2020 
Provided To Others? Yes  
URL http://datadryad.org/stash/dataset/doi:10.5061/dryad.rfj6q576x
 
Title Testing the predictability of morphological evolution in contrasting thermal environments 
Description Gaining the ability to predict population responses to climate change is a pressing concern. Using a 'natural experiment', we show that testing for divergent evolution in wild populations from contrasting thermal environments provides a powerful approach, and likely an enhanced predictive power for responses to climate change. Specifically, we used a unique study system in Iceland, where freshwater populations of threespine sticklebacks (Gasterosteus aculeatus) are found in waters warmed by geothermal activity, adjacent to populations in ambient-temperature water. We focused on morphological traits across six pairs from warm and cold habitats. We found that fish from warm habitats tended to have a deeper mid-body, a sub-terminally orientated jaw, steeper craniofacial profile, and deeper caudal region relative to fish from cold habitats. Our common garden experiment showed that most of these differences were heritable. Population age did not appear to influence the magnitude or type of thermal divergence, but similar types of divergence between thermal habitats were more prevalent across allopatric than sympatric population pairs. These findings suggest that morphological divergence in response to thermal habitat, despite being relatively complex and multivariate, are predictable to a degree. Our data also suggests that the potential for migration of individuals between different thermal habitats may enhance non-parallel evolution and reduce our ability to predict responses to climate change. 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
URL http://datadryad.org/stash/dataset/doi:10.5061/dryad.bnzs7h4fb
 
Description Holar University College, Iceland - Glasgow University partnership 
Organisation Holar University College
Country Iceland 
Sector Academic/University 
PI Contribution We are collaborating on this project with fish biologists in Iceland. This project is increasing links between our groups with recent visits hosted by Glasgow for Dr. Bjarni Kristjansson, and invitations to speak in Iceland for Prof. Neil Metcalfe.
Collaborator Contribution Our partners in Iceland have provided valuable logistic support including the arrangement of car rentals (at a major discount), the provision of field equipment, lab space, fish holding facilities, and housing. Our partners have also provided support in our absence by placing temperature loggers at field sites around Iceland.
Impact It is still too early in the project for outputs.
Start Year 2016
 
Description Public engagement lecture - Kilmarnock Engineering and Science Society 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact I provided a 1 hour lecture to members of the general public. Much of this focused on research regarding the effects of climate change on biodiversity, and how fish can be used to understand these effects. Data generated from the NERC Highlight Topic grant was used extensively to provide examples of the changes we see in fish experiencing temperature increases.
Year(s) Of Engagement Activity 2018
URL http://www.kess2012.org/index.php/lecture-programme-2017-2018