Source: CORNELL UNIVERSITY submitted to
EFFECT OF CLIMATE CHANGE ON SEASONAL ADAPTATION
Sponsoring Institution
National Institute of Food and Agriculture
Project Status
TERMINATED
Funding Source
Reporting Frequency
Annual
Accession No.
1004089
Grant No.
(N/A)
Project No.
NYC-183452
Proposal No.
(N/A)
Multistate No.
(N/A)
Program Code
(N/A)
Project Start Date
Oct 1, 2014
Project End Date
Sep 30, 2017
Grant Year
(N/A)
Project Director
Reed, RO, D.
Recipient Organization
CORNELL UNIVERSITY
(N/A)
ITHACA,NY 14853
Performing Department
Ecology & Evolutionary Biology
Non Technical Summary
Climate change is affecting many insect species, including those of major agricultural and conservation interest. Understanding the ability of insect populations to adapt to changing environments is important for assessing and predicting the varied effects climate change will have, and will permit better informed resource management decisions. This work focuses specifically on the question of how seasonal adaptation in insects may (or may not) be responding to climate change.Virtually all economically important species, including pollinators and pests, use seasonal cues during development to "pre-adapt" to future conditions, allowing them to physically and behaviorally optimize themselves for specific seasons. As the climate changes, however, these insects face the challenge of retuning their environmental response norms in order to ensure expression of their proper seasonal forms at the proper times. It is the purpose of this work to advance our basic understanding of how, and to what extent, insect populations can adapt their environmental response mechanisms to changing climates. There are three components to this work: (1) A survey of historical insect collections in the context of climate data to assess how environmental responses have been changing over time, (2) a survey of current insect populations across a latitudinal gradient to determine how, and to what extent, populations of the same species can genetically adapt to extremely different climates, and (3) genetic mapping work to identify regions of the insect genome that control seasonal variation. This work will provide an important initial baseline for modeling the effects of climate change on insect populations, especially in regions with dramatic seasonal variation.
Animal Health Component
0%
Research Effort Categories
Basic
90%
Applied
0%
Developmental
10%
Classification

Knowledge Area (KA)Subject of Investigation (SOI)Field of Science (FOS)Percent
21104301060100%
Goals / Objectives
Objective 1: How has J. coenia seasonal coloration changed over the last 100 years in New York?Using museum specimens and climate data from the last 100 years, we aim to determine how the expression of environmentally-induced coloration has changed over time, and how this change relates to climate.Objective 2: What are the physiological mechanisms underlying variation in seasonal plasticity?To assess how seasonal adaptation is regulated across different climates, we will use butterflies collected in the field along a latitudinal gradient spanning New York, North Carolina, and Florida. Climates in these states vary by temperature and day length, and it is expected that physiological regulation of seasonal color patterns will be affected as well. In these three populations we will assess (1) the extent of regional variation in seasonal plasticity, and (2) differences in hormonal regulation underlying these different response norms.Objective 3: What is the genetic basis of variation in seasonal response norms?Using butterflies from our lab colony, we will study in more detail how butterflies may regulate their plastic response by identifying genomic regions underlying seasonally responsive and non-responsive selection lines.
Project Methods
Objective 1: Change in color plasticity over timeWe will use museum collections to study recent historical changes in color plasticity norms. Because J. coenia is a widespread butterfly, many specimens are available in various natural history collections in New York. We are specifically interested in the collection at the American Museum of Natural History in New York City, as well as the Cornell Insect Collection in Ithaca, New York. We will score wing color according to, and compare this to temperature and day length conditions from two weeks prior (i.e. the critical period of phenotype determination). Thus, we can assess how environment has affected phenotype. Preliminary data suggest that seasonal response norms have evolved over the last 100 years, although we seek more data to better define trends in relation to climate change.Objective 2: Seasonal response along a latitudinal gradientTo assess seasonal response in different conditions, we will use butterflies from three populations along a latitudinal gradient to (1) determine the range of variation in seasonal response norms, and (2) determine associated differences in hormone regulation during development.First, we will establish lab colonies of butterflies from New York, North Carolina, and Florida. It is already known that Florida and North Carolina populations have diverged in their environmental response mechanisms, and we believe that New York populations have as well. We will rear larvae from these different populations under different day length and temperature conditions representing spring and fall, and then measure wing phenotypes in adults in order to quantify responses to these different conditions. Next, we will determine differences in ecdysone hormone regulation between these populations. Earlier work shows that the hormone ecdysone plays a pivotal role in formation of seasonal colors, where a signalling peak is shifted in different seasons. We will assess how this is hormone signal is regulated in populations from different climates. We will use HPLC to measure ecdsyone levels at several time points throughout development, and determine the timing and height of the signaling peak.Next, we will determine whether timing of, or sensitivity to, the ecdysone peak explains regional variation in seasonal response norms. Depending on the results of the first part of this project (i.e. ecdysone measurements), we will perform a series of timed ecdysone injections. If we see a change in timing or height of the ecdysone peak between different populations, we will determine whether this is sufficient to alter phenotype by performing timed injections of an ecdysone analog or an ecdysone inhibitor. Thus, we can change ecdysone regulation in one population to mimic ecdysone regulation in another population, and determine whether this is sufficient to reproduce seasonal phenotypes. If we don't see any change in timing or height of the ecdysone signaling peak in the different populations it could be because either the sensitive period has changed, or the ecdysone responsiveness has changed. We can test the first hypothesis by doing timed injections throughout development and determining when the phenotype will change, and we can test the second hypothesis by increasing the ecdysone level when the signaling peak occurs.Objective 3: Genetic mechanisms underlying seasonal response?In order to determine the genetic basis of a seasonal response we will use selection lines created from our lab colony that are either responsive or unresponsive to environmental variation. This objective has three phases.First, we will determine genomic regions of interest involved in the seasonal response. We have a plastic line (PL), with a tan wing under warm conditions and a red wing under cold conditions, as well as two lines that either constitutively express red (CR), or tan (CT), regardless of conditions. We will conduct a series of full-sib CR x PL and CT x PL crosses and raise F1, F2, and F3 progeny under conditions opposing the phenotype of their C-line grandparent. Wing color will be determined with a spectrometer, and average reflectance will be used to segregate and quantify intermediate, red, and tan phenotypes. These segregated individuals from both crosses will be sequenced. We will map these sequences back to our reference genome. Thus, we can identify regions in the genome that vary along with our phenotype of interest (i.e. seasonally responsive or not).Next, we will use gene expression data to determine what genes are differentially expressed during development between the different selection lines, and are thus likely involved in determining a seasonal response. We will rear the selection lines under different conditions, collect wing tissue at several times during development and extract RNA. We will sequence RNA and map these reads back to our reference transcriptome. Then we will determine which genes are differentially expressed between different lines under the different conditions, and thus assess which genes are potentially involved in generating the different phenotypes.Last, we will combine our genomic and expression data. By determining which differentially expressed genes are located in the genomic regions of interest found in the mapping component the objective, we can identify genes that are likely involved in determining whether an organism is plastic or not.

Progress 10/01/14 to 09/30/17

Outputs
Target Audience:(1) Researchers. A key audience of our work consists of academic researchers involved in entomology, agriculture, and conservation. We have reached, and will continue to reach, this audience through research publications, online databases, and presentation of results at seminars and scientific meetings in New York and beyond. To date our research has produced two scientific manuscripts, and we aim to produce at least two more within the next 18 months as we finish data analysis and writing. This funding has also helped us develop a Junonia coenia genome assembly and online genome browser. Lastly, as described in this and previous reports, personnel involved with this project have presented their work at numerous scientific meetings and academic seminars over the funding period. (2) Students. Seven undergraduate and two graduate students at Cornell were directly involved with conducting this research. Through this experience these students were directly trained in many aspects of scientific research, including experimental bench work, data analysis, and writing. (3) Resource managers. We anticipate that our models of insect environmental response will ultimately be useful for resource managers interested in species of economic or conservation concern. Thus far our strongest outreach to the audience has consisted of research publications and presentations of findings at scientific meetings. We hope that as our data analysis matures we will be able to generate products of more direct benefit to resource managers. As described in our original proposal, we anticipate that these more developed items will be presented to this audience primarily through cooperation with the Cornell Institute for Climate Smart Solutions (formerly Cornell Institute for Climate Change and Agriculture). Changes/Problems:The major problem we faced in this work was completing Objective 1, i.e. a museum survey of historical butterfly specimens. We found that it was a challenge to recruit someone who could travel to do the work, and that also we did not have sufficient funding for travel and lodging after the actual financial demands of Objectives 2 and 3 became clearer. Thus, we made the decision to prioritize completing Objectives 2 and 3, and to leave the Objective 1 research goals for a later date. Nevertheless, we do have some very compelling preliminary data for Objective 1 that we hope will form the basis for a future grant proposal. What opportunities for training and professional development has the project provided?During the reporting period this funding contributed to the training of three undergraduates and one graduate student. How have the results been disseminated to communities of interest?One manuscript is currently in review. A second manuscript is in the final stages of editing and will be submitted in June 2018. We anticipate submission of at least two more manuscripts that benefitted from this funding. In addition to publications, we have also disseminated our results through academic seminars, symposium presentations, and workshops over the final funding period: 2018. Seminar: Dept. of Biology ­- UNC Chapel Hill 2018. Symposium: Nijhout Symposium ­- Duke University 2018. Seminar: ADVANCE Distinguished Speaker Series ­- Clemson University 2018. Workshop Leader: STRI Workshop on ATAC-seq for Epigenetic Profiling. Smithsonian Tropical Research Institute, Panama. 2018. Seminar: Dept. of Molecular, Cellular, and Developmental Biology and Dept. of Ecology & Evolutionary Biology ­- University of Michigan 2017. Symposium: Latin American Society for Developmental Biology. Medellin, Colombia What do you plan to do during the next reporting period to accomplish the goals? Nothing Reported

Impacts
What was accomplished under these goals? Objective 1: We were unable to make significant progress on this objective due to lack of time and resources. It turns out that our grant support was sufficient only for Objectives 1 and 2. We do, however, have preliminary data from limited museum sampling pointing towards reaction norm evolution over the last century, and we hope this will form the seed for another more focused grant proposal. Objective 2: We have largely completed this work, although we had to adapt our experimental plan somewhat. We were unable to compare the latitudinal gradient we first proposed because of seasonal rarity of buckeye butterflies at our NY collecting sites during our field excursions in 2016. We therefore opted to focus on comparing California versus North Carolina populations. We found that even though the pigmentation reaction norms of these populations are radically different, they both maintain the same cue detection and steroid signaling response to environmental variation. We thus conclude that local adaptation of plasticity reaction norms is likely due to changes tissue-specific response, as opposed to changes in cue detection or endocrine signal transduction mechanisms. This is a clear and significant result the shapes our understanding of organismal adaptation to variable environments. Objective 3: This objective succeeded spectacularly. We generated all the proposed crosses and RNA-seq experiments. By genotyping F3 individuals using whole genome sequencing we identified exactly five genomic loci that underlie reaction norm variation in nature. RNA-seq data allowed us to pinpoint a handful of specific candidate genes in out map loci. We have now used CRISPR genome editing to functionally validate that three of these - trehalase, cortex, and a previously uncharacterized transcription factor - all control seasonally plastic color patterns. We are now in the process of increasing our replicate numbers and genotyping our knockouts. To our knowledge this is the first time that anyone has identified specific genes that underlie seasonal response mechanisms in an animal, and shown that these genes are also sufficient to cause genetic assimilation of seasonal traits. We anticipate that our results will result in a high profile scientific publication.

Publications

  • Type: Journal Articles Status: Under Review Year Published: 2018 Citation: J�rvi, V.V., K.R.L. van der Burg, R.D. Reed. (2018) Seasonal plasticity in buckeye butterflies: Linking wing color, thermoregulation, and behavior.
  • Type: Journal Articles Status: Other Year Published: 2018 Citation: van der Burg, K.R.L., J. Lewis, N. Patel, A. Martin, H.F. Nijhout, C. Danko, R.D. Reed. Factors associated with the highly dynamic chromatin landscape of butterfly wing metamorphosis.
  • Type: Conference Papers and Presentations Status: Published Year Published: 2018 Citation: STRI Workshop on ATAC-seq for Epigenetic Profiling. Smithsonian Tropical Research Institute, Panama.


Progress 10/01/15 to 09/30/16

Outputs
Target Audience:The target audience of our workhas primarily been scientists engaged in basic research. Changes/Problems: Nothing Reported What opportunities for training and professional development has the project provided?This work has contributed to the training of one graduate student and two undergraduates. How have the results been disseminated to communities of interest?The PI and graduate student have presented this work at several international scientific meetingsand invited departmental seminars. What do you plan to do during the next reporting period to accomplish the goals?Objective 1: We will collect and analyze data from museum specimens to complete the proposed work. Objective 2: This work has been largely completed. We aim to write up and publish our results over the next reporting period. Objective 3: Over the next reporting period we are aiming to generate and score a second set of mapping broods, complete gene expression comparisons, and hopefully begin CRISPR/Cas9 functional validation of candidate genes.

Impacts
What was accomplished under these goals? Objective 1: {nothing to report} Objective 2: This work has been largely completed and is now in the process of being analyzed and written up. We discovered that reaction norms are locally adapted to climate conditions. Surprisingly, however, all populations show similar hormonal responses to environmental stumili. Therefore our emerging hypothesis is that environmental response is tuned at the level of specific tissues, and howthese tissuesrespond to inductive signals. Objective 3: Significant progress has been made on this objective. We generated the proposed crosses and completed genotyping and scoring all relevant individuals. We have identified six distinct genomic loci that associated with variation in environmental reaction norms.We are now planning to follow up on functional validation of specific candidate genes at these loci.

Publications


    Progress 10/01/14 to 09/30/15

    Outputs
    Target Audience:Academic research community. Changes/Problems: Nothing Reported What opportunities for training and professional development has the project provided?This work contributed to the training of two undergraduates and one graduate student. How have the results been disseminated to communities of interest? Nothing Reported What do you plan to do during the next reporting period to accomplish the goals?Objective 1: We will examine museum specimens to score change over time in plastic response norms. Objective 2: We will complete HPLC/MS titer measurements and finish the objective. Objective 3: We will sequence genomic DNA from our genetic crosses to map plasticity loci.

    Impacts
    What was accomplished under these goals? Objective 1: No progress to date. Objective 2: We have developed colonies of respective populations, collected all samples, and developed the assay method. This work should be completed in 2016. Objective 3: We have completed and scored all genetic crosses and are currently in the process of genetic mapping.

    Publications