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Mykhailenko A, Zieliński P, Bednarz A, Schlyter F, Andersson MN, Antunes B, Borowski Z, Krokene P, Melin M, Morales-García J, Müller J, Nowak Z, Schebeck M, Stauffer C, Viiri H, Zaborowska J, Babik W, Nadachowska-Brzyska K. Complex Genomic Landscape of Inversion Polymorphism in Europe's Most Destructive Forest Pest. Genome Biol Evol 2024; 16:evae263. [PMID: 39656753 DOI: 10.1093/gbe/evae263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2024] [Revised: 11/29/2024] [Accepted: 12/02/2024] [Indexed: 12/17/2024] Open
Abstract
In many species, polymorphic genomic inversions underlie complex phenotypic polymorphisms and facilitate local adaptation in the face of gene flow. Multiple polymorphic inversions can co-occur in a genome, but the prevalence, evolutionary significance, and limits to complexity of genomic inversion landscapes remain poorly understood. Here, we examine genome-wide genetic variation in one of Europe's most destructive forest pests, the spruce bark beetle Ips typographus, scan for polymorphic inversions, and test whether inversions are associated with key traits in this species. We analyzed 240 individuals from 18 populations across the species' European range and, using a whole-genome resequencing approach, identified 27 polymorphic inversions covering ∼28% of the genome. The inversions vary in size and in levels of intra-inversion recombination, are highly polymorphic across the species range, and often overlap, forming a complex genomic architecture. We found no support for mechanisms such as directional selection, overdominance, and associative overdominance that are often invoked to explain the presence of large inversion polymorphisms in the genome. This suggests that inversions are either neutral or maintained by the combined action of multiple evolutionary forces. We also found that inversions are enriched in odorant receptor genes encoding elements of recognition pathways for host plants, mates, and symbiotic fungi. Our results indicate that the genome of this major forest pest of growing social, political, and economic importance harbors one of the most complex inversion landscapes described to date and raise questions about the limits of intraspecific genomic architecture complexity.
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Affiliation(s)
- Anastasiia Mykhailenko
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
- Doctoral School of Exact and Natural Sciences, Jagiellonian University, 30-348 Kraków, Poland
| | - Piotr Zieliński
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
| | - Aleksandra Bednarz
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
| | - Fredrik Schlyter
- Chemical Ecology, Department of Plant Protection Biology, Swedish University of Agricultural Sciences Alnarp, 234 22 Lomma, Sweden
- ETM, Faculty of Forestry and Wood Sciences, Czech University of Life Sciences Prague, 165 00 Praha, Czechia
| | | | - Bernardo Antunes
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
| | - Zbigniew Borowski
- Departament of Forest Ecology, Forest Research Institute, 05-090 Raszyn, Poland
| | - Paal Krokene
- Division of Biotechnology and Plant Health, Norwegian Institute of Bioeconomy Research, 1433 Ås, Norway
| | - Markus Melin
- Forest Health and Bidiversity Group, Natural Resources Institute Finland, 80100 Joensuu, Finland
| | - Julia Morales-García
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
- Doctoral School of Exact and Natural Sciences, Jagiellonian University, 30-348 Kraków, Poland
| | - Jörg Müller
- Field Station Fabrikschleichach, Animal Ecology and Tropical Biology, Biocenter, University of Würzburg, 96181 Rauhenebrach, Germany
- Bavarian Forest National Park, 94481 Grafenau, Germany
| | - Zuzanna Nowak
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
| | - Martin Schebeck
- Institute of Forest Entomology, Forest Pathology and Forest Protection, Department of Forest and Soil Sciences, University of Natural Resources and Life Sciences Vienna (BOKU), 1190 Vienna, Austria
| | - Christian Stauffer
- Institute of Forest Entomology, Forest Pathology and Forest Protection, Department of Forest and Soil Sciences, University of Natural Resources and Life Sciences Vienna (BOKU), 1190 Vienna, Austria
| | - Heli Viiri
- UPM Forest, UPM-Kymmene, 33100 Tampere, Finland
| | - Julia Zaborowska
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
| | - Wiesław Babik
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, 30-387 Kraków, Poland
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Jin M, Peng Y, Peng J, Yu S, Wu C, Yang X, Zhu J, Infante O, Xu Q, Wang H, Wu K, Xiao Y. A supergene controls facultative diapause in the crop pest Helicoverpa armigera. Cell Rep 2024; 43:114939. [PMID: 39509270 DOI: 10.1016/j.celrep.2024.114939] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2024] [Revised: 08/13/2024] [Accepted: 10/17/2024] [Indexed: 11/15/2024] Open
Abstract
Many insect species, including the economically important pest Helicoverpa armigera, avoid unfavorable conditions by suspending development. This form of phenotypic plasticity-facultative diapause-is a complex trait, though its evolution and intricate genetic architecture remain poorly understood. To investigate how such a polygenic trait could be locally adapted, we explore its genetic architecture. We map a large-effect diapause-associated locus to the Z chromosome by crossing high- and low-latitude populations. By generating multiple chromosome-scale assemblies, we identify an ∼5.93-Mb chromosomal inversion that constitutes the locus. Within this inversion, 33 genes harbor divergent non-synonymous mutations, notably including three circadian rhythm genes: Period, Clock, and Cycle. CRISPR-Cas9 knockout experiments confirm that each gene is independently essential for pupal diapause. Thus, a diapause supergene arose within H. armigera via a Z chromosome inversion, enabling local climatic adaptation in this economically important crop pest.
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Affiliation(s)
- Minghui Jin
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Yan Peng
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Jie Peng
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Songmiao Yu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Chao Wu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Xianming Yang
- The State Key Laboratory for Biology and Plant Disease and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Jingyun Zhu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Oscar Infante
- Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos CP 04510, México
| | - Qi Xu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China
| | - Hongru Wang
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China.
| | - Kongming Wu
- The State Key Laboratory for Biology and Plant Disease and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
| | - Yutao Xiao
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Gene Editing Technologies (Hainan), Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518116, China.
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Fishman B, Tauber E. Epigenetics and seasonal timing in animals: a concise review. J Comp Physiol A Neuroethol Sens Neural Behav Physiol 2024; 210:565-574. [PMID: 37695537 PMCID: PMC11226475 DOI: 10.1007/s00359-023-01673-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2023] [Revised: 08/27/2023] [Accepted: 09/01/2023] [Indexed: 09/12/2023]
Abstract
Seasonal adaptation in animals is a complex process that involves genetic, epigenetic, and environmental factors. The present review explores recent studies on epigenetic mechanisms implicated in seasonal adaptation in animals. The review is divided into three main sections, each focusing on a different epigenetic mechanism: DNA methylation, histone modifications, and non-coding RNA. Additionally, the review delves into the current understanding of how these epigenetic factors contribute to the regulation of circadian and seasonal cycles. Understanding these molecular mechanisms provides the first step in deciphering the complex interplay between genetics, epigenetics, and the environment in driving seasonal adaptation in animals. By exploring these mechanisms, a better understanding of how animals adapt to changing environmental conditions can be achieved.
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Affiliation(s)
- Bettina Fishman
- Department of Evolutionary and Environmental Biology, Institute of Evolution, University of Haifa, Haifa, Israel
| | - Eran Tauber
- Department of Evolutionary and Environmental Biology, Institute of Evolution, University of Haifa, Haifa, Israel.
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Floessner TSE, Benetta ED, Beersma DGM, Hut RA. Variation in photoperiod response corresponds to differences in circadian light sensitivity in northern and southern Nasonia vitripennis lines. J Comp Physiol A Neuroethol Sens Neural Behav Physiol 2024; 210:667-676. [PMID: 37853248 PMCID: PMC11226509 DOI: 10.1007/s00359-023-01674-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Revised: 09/05/2023] [Accepted: 09/09/2023] [Indexed: 10/20/2023]
Abstract
The circadian clock times physiological and behavioural processes and resets on a daily basis to synchronize with the environment. The involvement of the circadian clock in photoperiodic time measurement synchronising annual rhythms is still under debate and different models have been proposed explaining their integration. Insects overcome unfavourable conditions in diapause, a form of dormancy. A latitudinal cline in diapause induction in the parasitoid wasp Nasonia vitripennis as well as a difference in circadian light sensitivity between north and south provide us with additional evidence that the circadian system of Nasonia is involved in photoperiodic time measurement and that latitude-specific seasonality drives adaptive evolution in photoperiodism partly through adaptation responses in the circadian system. We tested diapause induction in a range of T-cycles and photoperiods and found diapause induction in short photoperiods in all T-cycles in the northern line but in the southern line, diapause only occurred in T-cycles close to 24 h. Due to a lower light sensitivity in the southern line, a wider distribution of phase angles of entrainment can be expected at a specific T-cycle duration, while the range of entrainment will decrease. Taking these oscillator properties into account, our data can be explained by an external coincidence model involving a single oscillator with a light-sensitive phase that drives annual timing of diapause in Nasonia vitripennis.
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Affiliation(s)
- Theresa S E Floessner
- Chronobiology Unit, Neurobiology Expertise Group, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, the Netherlands
| | - Elena Dalla Benetta
- Evolutionary Genetics, Development & Behaviour Expertise Group, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, the Netherlands
| | - Domien G M Beersma
- Chronobiology Unit, Neurobiology Expertise Group, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, the Netherlands
| | - Roelof A Hut
- Chronobiology Unit, Neurobiology Expertise Group, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, the Netherlands.
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Lindestad O, Nylin S, Wheat CW, Gotthard K. Testing for variation in photoperiodic plasticity in a butterfly: Inconsistent effects of circadian genes between geographic scales. Ecol Evol 2024; 14:e11713. [PMID: 38975264 PMCID: PMC11227937 DOI: 10.1002/ece3.11713] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Revised: 06/25/2024] [Accepted: 06/26/2024] [Indexed: 07/09/2024] Open
Abstract
The genetic components of the circadian clock have been implicated as involved in photoperiodic regulation of winter diapause across various insect groups, thereby contributing to adaptation to adverse seasonal conditions. So far, the effects of within-population variation in these genes have not been well explored. Here, we present an experimental test of the effects of within-population variation at two circadian genes, timeless and period, on photoperiodic responses in the butterfly Pararge aegeria. While nonsynonymous candidate SNPs in both of these genes have previously shown to be associated with diapause induction on a between-population level, in the present experiment no such effect was found on a within-population level. In trying to reconcile these results, we examine sequence data, revealing considerable, previously unknown protein-level variation at both timeless and period across Scandinavian populations, including variants unique to the population studied here. Hence, we hypothesize that these variants may counteract the previously observed diapause-averting effect of the candidate SNPs, possibly explaining the difference in results between the experiments. Whatever the cause, these results highlight how the effects of candidate SNPs may sometimes vary across genetic backgrounds, which complicates evolutionary interpretations of geographic patterns of genetic variation.
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Affiliation(s)
- Olle Lindestad
- Department of Ecology, Environment and Plant SciencesStockholm UniversityStockholmSweden
- Department of ZoologyStockholm UniversityStockholmSweden
| | - Sören Nylin
- Department of ZoologyStockholm UniversityStockholmSweden
| | | | - Karl Gotthard
- Department of ZoologyStockholm UniversityStockholmSweden
- Bolin Centre for Climate ResearchStockholmSweden
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Häfker NS, Holcik L, Mat AM, Ćorić A, Vadiwala K, Beets I, Stockinger AW, Atria CE, Hammer S, Revilla-i-Domingo R, Schoofs L, Raible F, Tessmar-Raible K. Molecular circadian rhythms are robust in marine annelids lacking rhythmic behavior. PLoS Biol 2024; 22:e3002572. [PMID: 38603542 PMCID: PMC11008795 DOI: 10.1371/journal.pbio.3002572] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Accepted: 02/29/2024] [Indexed: 04/13/2024] Open
Abstract
The circadian clock controls behavior and metabolism in various organisms. However, the exact timing and strength of rhythmic phenotypes can vary significantly between individuals of the same species. This is highly relevant for rhythmically complex marine environments where organismal rhythmic diversity likely permits the occupation of different microenvironments. When investigating circadian locomotor behavior of Platynereis dumerilii, a model system for marine molecular chronobiology, we found strain-specific, high variability between individual worms. The individual patterns were maintained for several weeks. A diel head transcriptome comparison of behaviorally rhythmic versus arrhythmic wild-type worms showed that 24-h cycling of core circadian clock transcripts is identical between both behavioral phenotypes. While behaviorally arrhythmic worms showed a similar total number of cycling transcripts compared to their behaviorally rhythmic counterparts, the annotation categories of their transcripts, however, differed substantially. Consistent with their locomotor phenotype, behaviorally rhythmic worms exhibit an enrichment of cycling transcripts related to neuronal/behavioral processes. In contrast, behaviorally arrhythmic worms showed significantly increased diel cycling for metabolism- and physiology-related transcripts. The prominent role of the neuropeptide pigment-dispersing factor (PDF) in Drosophila circadian behavior prompted us to test for a possible functional involvement of Platynereis pdf. Differing from its role in Drosophila, loss of pdf impacts overall activity levels but shows only indirect effects on rhythmicity. Our results show that individuals arrhythmic in a given process can show increased rhythmicity in others. Across the Platynereis population, rhythmic phenotypes exist as a continuum, with no distinct "boundaries" between rhythmicity and arrhythmicity. We suggest that such diel rhythm breadth is an important biodiversity resource enabling the species to quickly adapt to heterogeneous or changing marine environments. In times of massive sequencing, our work also emphasizes the importance of time series and functional tests.
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Affiliation(s)
- N. Sören Häfker
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Bremerhaven, Germany
| | - Laurenz Holcik
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Vienna BioCenter PhD Program, Doctoral School of the University of Vienna and Medical University of Vienna, Vienna, Austria
- Center for Integrative Bioinformatics Vienna, Max Perutz Labs, University of Vienna, Medical University of Vienna, Vienna, Austria
| | - Audrey M. Mat
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Aida Ćorić
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Vienna BioCenter PhD Program, Doctoral School of the University of Vienna and Medical University of Vienna, Vienna, Austria
| | - Karim Vadiwala
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Isabel Beets
- Division of animal Physiology and Neurobiology, KU Leuven, Leuven, Belgium
| | - Alexander W. Stockinger
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Vienna BioCenter PhD Program, Doctoral School of the University of Vienna and Medical University of Vienna, Vienna, Austria
| | - Carolina E. Atria
- Department of Neuro- and Developmental Biology, University of Vienna, Vienna, Austria
- Research Platform Single-Cell Regulation of Stem Cells, University of Vienna, Vienna, Austria
| | - Stefan Hammer
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Roger Revilla-i-Domingo
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Department of Neuro- and Developmental Biology, University of Vienna, Vienna, Austria
- Research Platform Single-Cell Regulation of Stem Cells, University of Vienna, Vienna, Austria
| | - Liliane Schoofs
- Division of animal Physiology and Neurobiology, KU Leuven, Leuven, Belgium
| | - Florian Raible
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
| | - Kristin Tessmar-Raible
- Max Perutz Labs, University of Vienna, Vienna BioCenter, Vienna, Austria
- Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Bremerhaven, Germany
- Institute for Chemistry and Biology of the Marine Environment (ICBM), School of Mathematics and Science, Carl von Ossietzky Universität Oldenburg, Oldenburg, Germany
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Maruoka N, Makino T, Urabe J. RNA-seq analysis to identify genes related to resting egg production of panarctic Daphnia pulex. BMC Genomics 2023; 24:262. [PMID: 37198540 PMCID: PMC10190107 DOI: 10.1186/s12864-023-09369-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2023] [Accepted: 05/08/2023] [Indexed: 05/19/2023] Open
Abstract
BACKGROUND The genus Daphnia switches its reproductive mode from subitaneous egg production to resting egg production in response to environmental stimuli. Although this life history trait is essential for surviving unsuitable environments, the molecular mechanism of resting egg production is little understood. In this study, we examined genes related to induction of resting egg production using two genotypes of panarctic Daphnia pulex, the JPN1 and JPN2 lineages, which differ genetically in the frequency of resting egg production. We reared these genotypes under high and low food levels. At the high food level, individuals of both genotypes continually produced subitaneous eggs, whereas at the low food level, only the JPN2 genotype produced resting eggs. Then, we performed RNA-seq analysis on specimens of three instars, including before and after egg production. RESULTS These results showed that expressed genes differed significantly between individuals grown under high and low food levels and among individuals of different instars and genotypes. Among these differentially expressed genes (DEGs), we found 16 that changed expression level before resting egg production. Some of these genes showed high-level expression only before resting egg production and one gene was an ortholog of bubblegum (bgm), which is reportedly up-regulated before diapause in bumblebees. According to gene ontology (GO) enrichment analysis, one GO term annotated as long-chain fatty acid biosynthetic process was enriched among these 16 genes. In addition, GO terms related to glycometabolism were enriched among down-regulated genes of individuals holding resting eggs, compared to those before resting egg production. CONCLUSIONS We found candidate genes highly expressed only before resting egg production. Although functions of candidate genes found in this study have not been reported previously in Daphnia, catabolism of long-chain fatty acids and metabolism of glycerates are related to diapause in other organisms. Thus, it is highly probable that candidate genes identified in this study are related to the molecular mechanism regulating resting egg production in Daphnia.
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Affiliation(s)
- Natsumi Maruoka
- Graduate School of Life sciences, Tohoku University, 6-3 Aoba, Aramaki, Aoba-ku, Sendai, 980-8578, 022-795-6686, Miyagi, Japan.
- Center for Bioscience Research and Education, Utsunomiya University, 350 Mine-machi, Utsunomiya, 321-8505, 028-649-5129, Tochigi, Japan.
| | - Takashi Makino
- Graduate School of Life sciences, Tohoku University, 6-3 Aoba, Aramaki, Aoba-ku, Sendai, 980-8578, 022-795-6686, Miyagi, Japan
| | - Jotaro Urabe
- Graduate School of Life sciences, Tohoku University, 6-3 Aoba, Aramaki, Aoba-ku, Sendai, 980-8578, 022-795-6686, Miyagi, Japan
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McCulloch GA, Waters JM. Rapid adaptation in a fast-changing world: Emerging insights from insect genomics. GLOBAL CHANGE BIOLOGY 2023; 29:943-954. [PMID: 36333958 PMCID: PMC10100130 DOI: 10.1111/gcb.16512] [Citation(s) in RCA: 26] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Accepted: 10/07/2022] [Indexed: 05/31/2023]
Abstract
Many researchers have questioned the ability of biota to adapt to rapid anthropogenic environmental shifts. Here, we synthesize emerging genomic evidence for rapid insect evolution in response to human pressure. These new data reveal diverse genomic mechanisms (single locus, polygenic, structural shifts; introgression) underpinning rapid adaptive responses to a variety of anthropogenic selective pressures. While the effects of some human impacts (e.g. pollution; pesticides) have been previously documented, here we highlight startling new evidence for rapid evolutionary responses to additional anthropogenic processes such as deforestation. These recent findings indicate that diverse insect assemblages can indeed respond dynamically to major anthropogenic evolutionary challenges. Our synthesis also emphasizes the critical roles of genomic architecture, standing variation and gene flow in maintaining future adaptive potential. Broadly, it is clear that genomic approaches are essential for predicting, monitoring and responding to ongoing anthropogenic biodiversity shifts in a fast-changing world.
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Nasonia-microbiome associations: a model for evolutionary hologenomics research. Trends Parasitol 2023; 39:101-112. [PMID: 36496327 DOI: 10.1016/j.pt.2022.11.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Revised: 11/02/2022] [Accepted: 11/18/2022] [Indexed: 12/12/2022]
Abstract
In recent years, with the development of microbial research technologies, microbiota research has received widespread attention. The parasitoid wasp genus Nasonia is a good model organism for studying insect behavior, development, evolutionary genetics, speciation, and symbiosis. This review describes key advances and progress in the field of the Nasonia-microbiome interactions. We provide an overview of the advantages of Nasonia as a model organism for microbiome studies, list research methods to study the Nasonia microbiome, and discuss recent discoveries in Nasonia microbiome research. This summary of the complexities of Nasonia-microbiome relationships will help to contribute to a better understanding of the interactions between animals and their microbiomes and establish a clear research direction for Nasonia-microbiome interactions in the future.
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Seasonal Adaptation: Geographic Photoperiod-Temperature Patterns Explain Genetic Variation in the Common Vole Tsh Receptor. Genes (Basel) 2023; 14:genes14020292. [PMID: 36833219 PMCID: PMC9957289 DOI: 10.3390/genes14020292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Revised: 01/14/2023] [Accepted: 01/18/2023] [Indexed: 01/26/2023] Open
Abstract
The vertebrate photoperiodic neuroendocrine system uses the photoperiod as a proxy to time the annual rhythms in reproduction. The thyrotropin receptor (TSHR) is a key protein in the mammalian seasonal reproduction pathway. Its abundance and function can tune sensitivity to the photoperiod. To investigate seasonal adaptation in mammals, the hinge region and the first part of the transmembrane domain of the Tshr gene were sequenced for 278 common vole (Microtus arvalis) specimens from 15 localities in Western Europe and 28 localities in Eastern Europe. Forty-nine single nucleotide polymorphisms (SNPs; twenty-two intronic and twenty-seven exonic) were found, with a weak or lack of correlation with pairwise geographical distance, latitude, longitude, and altitude. By applying a temperature threshold to the local photoperiod-temperature ellipsoid, we obtained a predicted critical photoperiod (pCPP) as a proxy for the spring onset of local primary food production (grass). The obtained pCPP explains the distribution of the genetic variation in Tshr in Western Europe through highly significant correlations with five intronic and seven exonic SNPs. The relationship between pCPP and SNPs was lacking in Eastern Europe. Thus, Tshr, which plays a pivotal role in the sensitivity of the mammalian photoperiodic neuroendocrine system, was targeted by natural selection in Western European vole populations, resulting in the optimized timing of seasonal reproduction.
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Tobita H, Kiuchi T. Knockouts of positive and negative elements of the circadian clock disrupt photoperiodic diapause induction in the silkworm, Bombyx mori. INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY 2022; 149:103842. [PMID: 36115518 DOI: 10.1016/j.ibmb.2022.103842] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Revised: 09/01/2022] [Accepted: 09/04/2022] [Indexed: 06/15/2023]
Abstract
Diapause is one of the most important traits that have sustained insects to thrive. To survive harsh seasons, most insects can arrest their development and enter diapause. The photoperiod is the signal that indicates insects the proper timing to enter diapause. Circadian clock genes are shown to be involved in photoperiodic diapause induction in various insect species. The silkworm, Bombyx mori, enters diapause at the embryonic stage. In bivoltine strains, diapause determination is under maternal control and affected by temperature and photoperiodic conditions that mothers experienced during embryonic and larval stages. Two independent studies showed that knocking out the core clock gene, period, perturb photoperiodic diapause induction in B. mori. However, whether the circadian clock as whole or individual clock genes are responsible for the photoperiodic diapause induction remains unknown. In this study, using CRISPR/Cas9 we knocked out negative (period and timeless) and positive elements (Clock and cycle) in p50T, a bivoltine strain which exhibits photoperiodic diapause induction during both embryonic and larval stages. The temporal expression patterns of clock genes changed in each core clock gene knockout strain, suggesting disruption of normal feedback loops produced by circadian clock genes. Furthermore, the ability of female moths to appropriately produce diapause or non-diapause eggs in response to photoperiod in both embryonic and larval stages was lost in all knockout strains. Our results indicate the involvement of circadian clock in photoperiodic diapause induction in B. mori.
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Affiliation(s)
- Hisashi Tobita
- Department of Agricultural and Environmental Biology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, 113-8657, Japan
| | - Takashi Kiuchi
- Department of Agricultural and Environmental Biology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, 113-8657, Japan.
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Hejníková M, Nouzova M, Ramirez CE, Fernandez-Lima F, Noriega FG, Doležel D. Sexual dimorphism of diapause regulation in the hemipteran bug Pyrrhocoris apterus. INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY 2022; 142:103721. [PMID: 35007710 DOI: 10.1016/j.ibmb.2022.103721] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2021] [Revised: 12/29/2021] [Accepted: 01/06/2022] [Indexed: 06/14/2023]
Abstract
Diapause is one of the major strategies for insects to prepare for and survive harsh seasons. In females, the absence of juvenile hormone (JH) is a hallmark of adult reproductive diapause, a developmental arrest, which is much less characterized in males. Here we show that juvenile hormone III skipped bisepoxide (JHSB3) titers in hemolymph remarkably differ between reproductive males and females of the linden bug Pyrrhocoris apterus, whereas no JH was detected in diapausing adults of both sexes. Like in females, ectopic application of JH mimic effectively terminated male diapause through the canonical JH receptor components, Methoprene-tolerant and Taiman. In contrast to females, long photoperiod induced reproduction even in males with silenced JH reception or in males with removed corpus allatum (CA), the JH-producing gland. JHSB3 was detected in the accessory glands (MAG) of reproductive males, unexpectedly, even in males without CA. If there is a source of JHSB3 outside CA or a long-term storage of JHSB3 in MAGs remains to be elucidated. These sex-related idiosyncrasies are further manifested in different dynamics of diapause termination in P. apterus by low temperature. We would like to propose that this sexual dimorphism of diapause regulation might be explained by the different reproductive costs for each sex.
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Affiliation(s)
- Markéta Hejníková
- Biology Center of the Academy of Sciences of the Czech Republic, Institute of Entomology, 37005, Ceske Budejovice, Czech Republic; Faculty of Science, University of South Bohemia in Ceske Budejovice, 37005, Ceske Budejovice, Czech Republic
| | - Marcela Nouzova
- Biology Center of the Academy of Sciences of the Czech Republic, Institute of Parasitology, 37005, Ceske Budejovice, Czech Republic; Department of Biological Sciences, Biomolecular Science Institute, Florida International University, Miami, FL, 33199, USA
| | - Cesar E Ramirez
- Department of Chemistry and Biochemistry, Biomolecular Science Institute, Florida International University, Miami, FL, 33199, USA
| | - Francisco Fernandez-Lima
- Department of Chemistry and Biochemistry, Biomolecular Science Institute, Florida International University, Miami, FL, 33199, USA
| | - Fernando Gabriel Noriega
- Department of Biological Sciences, Biomolecular Science Institute, Florida International University, Miami, FL, 33199, USA
| | - David Doležel
- Biology Center of the Academy of Sciences of the Czech Republic, Institute of Entomology, 37005, Ceske Budejovice, Czech Republic; Faculty of Science, University of South Bohemia in Ceske Budejovice, 37005, Ceske Budejovice, Czech Republic.
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13
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Lindestad O, Nylin S, Wheat CW, Gotthard K. Local adaptation of life cycles in a butterfly is associated with variation in several circadian clock genes. Mol Ecol 2021; 31:1461-1475. [PMID: 34931388 DOI: 10.1111/mec.16331] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2021] [Revised: 11/30/2021] [Accepted: 12/07/2021] [Indexed: 12/25/2022]
Abstract
Many insects exhibit geographical variation in voltinism, the number of generations produced per year. This includes high-latitude species in previously glaciated areas, meaning that divergent selection on life cycle traits has taken place during or shortly after recent colonization. Here, we use a population genomics approach to compare a set of nine Scandinavian populations of the butterfly Pararge aegeria that differ in life cycle traits (diapause thresholds and voltinism) along both north-south and east-west clines. Using a de novo-assembled genome, we reconstruct colonization histories and demographic relationships. Based on the inferred population structure, we then scan the genome for candidate loci showing signs of divergent selection potentially associated with population differences in life cycle traits. The identified candidate genes include a number of components of the insect circadian clock (timeless, timeless2, period, cryptochrome and clockwork orange). Most notably, the gene timeless, which has previously been experimentally linked to life cycle regulation in P. aegeria, is here found to contain a novel 97-amino acid deletion unique to, and fixed in, a single population. These results add to a growing body of research framing circadian gene variation as a potential mechanism for generating local adaptation of life cycles.
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Affiliation(s)
- Olle Lindestad
- Department of Zoology, Stockholm University, Stockholm, Sweden
| | - Sören Nylin
- Department of Zoology, Stockholm University, Stockholm, Sweden
| | | | - Karl Gotthard
- Department of Zoology, Stockholm University, Stockholm, Sweden
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14
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Wiberg RAW, Tyukmaeva V, Hoikkala A, Ritchie MG, Kankare M. Cold adaptation drives population genomic divergence in the ecological specialist, Drosophila montana. Mol Ecol 2021; 30:3783-3796. [PMID: 34047417 DOI: 10.1111/mec.16003] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Revised: 05/10/2021] [Accepted: 05/20/2021] [Indexed: 12/18/2022]
Abstract
Detecting signatures of ecological adaptation in comparative genomics is challenging, but analysing population samples with characterised geographic distributions, such as clinal variation, can help identify genes showing covariation with important ecological variation. Here, we analysed patterns of geographic variation in the cold-adapted species Drosophila montana across phenotypes, genotypes and environmental conditions and tested for signatures of cold adaptation in population genomic divergence. We first derived the climatic variables associated with the geographic distribution of 24 populations across two continents to trace the scale of environmental variation experienced by the species, and measured variation in the cold tolerance of the flies of six populations from different geographic contexts. We then performed pooled whole genome sequencing of these six populations, and used Bayesian methods to identify SNPs where genetic differentiation is associated with both climatic variables and the population phenotypic measurements, while controlling for effects of demography and population structure. The top candidate SNPs were enriched on the X and fourth chromosomes, and they also lay near genes implicated in other studies of cold tolerance and population divergence in this species and its close relatives. We conclude that ecological adaptation has contributed to the divergence of D. montana populations throughout the genome and in particular on the X and fourth chromosomes, which also showed highest interpopulation FST . This study demonstrates that ecological selection can drive genomic divergence at different scales, from candidate genes to chromosome-wide effects.
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Affiliation(s)
- R A W Wiberg
- Centre for Biological Diversity, School of Biology, University of St Andrews, St Andrews, UK
| | - V Tyukmaeva
- Department of Biological and Environmental Science, University of Jyväskylä, Jyväskylä, Finland
| | - A Hoikkala
- Department of Biological and Environmental Science, University of Jyväskylä, Jyväskylä, Finland
| | - M G Ritchie
- Centre for Biological Diversity, School of Biology, University of St Andrews, St Andrews, UK
| | - M Kankare
- Department of Biological and Environmental Science, University of Jyväskylä, Jyväskylä, Finland
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15
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Dalla Benetta E, van de Zande L, Beukeboom LW. Courtship rhythm in Nasonia vitripennis is affected by the clock gene period. BEHAVIOUR 2021. [DOI: 10.1163/1568539x-bja10087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Abstract
The clock gene period (per) is a regulator of circadian rhythms but may also play a role in the regulation of ultradian rhythms, such as insect courtship. Males of the parasitoid wasp Nasonia vitripennis court females by performing series of head movements (‘head-nods’) and wing vibrations within repeated cycles. The pattern of cycle duration and head-nod number is species-specific and has a genetic basis. In this study, the possible involvement of per in regulating Nasonia courtship rhythms was investigated in a southern and northern European strain that differ in number and timing of courtship components. Knockdown of per via RNA interference (RNAi) resulted in a shortening of the circadian free running period (tau) in constant darkness (DD), and increased both the cycle duration and the number of head-nods per cycle in both strains. These results point at a role of per in the regulation of ultradian rhythms and male courtship behaviour of N. vitripennis and may contribute to resolving the controversy about the role of per in insect courtship behaviour.
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Affiliation(s)
- Elena Dalla Benetta
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands
- Division of Biological Sciences, Section of Cell and Developmental Biology, University of California, 9500 Gilman Drive, San Diego, CA 92093, USA
| | - Louis van de Zande
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands
| | - Leo W. Beukeboom
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG Groningen, The Netherlands
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16
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Dittmer J, Brucker RM. When your host shuts down: larval diapause impacts host-microbiome interactions in Nasonia vitripennis. MICROBIOME 2021; 9:85. [PMID: 33836829 PMCID: PMC8035746 DOI: 10.1186/s40168-021-01037-6] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Accepted: 02/12/2021] [Indexed: 05/03/2023]
Abstract
BACKGROUND The life cycles of many insect species include an obligatory or facultative diapause stage with arrested development and low metabolic activity as an overwintering strategy. Diapause is characterised by profound physiological changes in endocrine activity, cell proliferation and nutrient metabolism. However, little is known regarding host-microbiome interactions during diapause, despite the importance of bacterial symbionts for host nutrition and development. In this work, we investigated (i) the role of the microbiome for host nutrient allocation during diapause and (ii) the impact of larval diapause on microbiome dynamics in the parasitoid wasp Nasonia vitripennis, a model organism for host-microbiome interactions. RESULTS Our results demonstrate that the microbiome is essential for host nutrient allocation during diapause in N. vitripennis, as axenic diapausing larvae had consistently lower glucose and glycerol levels than conventional diapausing larvae, especially when exposed to cold temperature. In turn, microbiome composition was altered in diapausing larvae, potentially due to changes in the surrounding temperature, host nutrient levels and a downregulation of host immune genes. Importantly, prolonged larval diapause had a transstadial effect on the adult microbiome, with unknown consequences for host fitness. Notably, the most dominant microbiome member, Providencia sp., was drastically reduced in adults after more than 4 months of larval diapause, while potential bacterial pathogens increased in abundance. CONCLUSION This work investigates host-microbiome interactions during a crucial developmental stage, which challenges both the insect host and its microbial associates. The impact of diapause on the microbiome is likely due to several factors, including altered host regulatory mechanisms and changes in the host environment. Video Abstract.
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Affiliation(s)
- Jessica Dittmer
- The Rowland Institute at Harvard, Harvard University, 100 Edwin H. Land Boulevard, Cambridge, MA, 02142, USA.
- Present Address: Dipartimento di Scienze agrarie e ambientali (DISAA), Università degli Studi di Milano, Via Celoria 2, 20133, Milano, Italy.
| | - Robert M Brucker
- The Rowland Institute at Harvard, Harvard University, 100 Edwin H. Land Boulevard, Cambridge, MA, 02142, USA.
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17
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Pruisscher P, Nylin S, Wheat CW, Gotthard K. A region of the sex chromosome associated with population differences in diapause induction contains highly divergent alleles at clock genes. Evolution 2020; 75:490-500. [PMID: 33340097 PMCID: PMC7986627 DOI: 10.1111/evo.14151] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2020] [Revised: 10/08/2020] [Accepted: 10/25/2020] [Indexed: 01/06/2023]
Abstract
Developmental plasticity describes the capacity of individuals with the same genotype to induce permanent change in a phenotype depending on a specific external input. One well‐studied example of adaptive developmental plasticity is the induction of facultative diapause in insects. Studies investigating the inheritance of diapause induction have suggested diverse genetic origins. However, only few studies have performed genome‐wide scans to identify genes affecting the induction decision. Here we compare two populations of the butterfly Pieris napi that differ in the propensity to enter diapause, and despite showing a low genome‐wide divergence, we identify a few genomic regions that show high divergence between populations. We then identified a single genomic region associated with diapause induction by genotyping diapausing and directly developing siblings from backcrosses of these populations. This region is located on the Z chromosome and contained three circadian clock genes, cycle, clock, and period. Additionally, period harbored the largest number of SNPs showing complete fixation between populations. We conclude that the heritable basis of between‐population variation in the plasticity that determines diapause induction resides on the Z chromosome, with the period gene being the prime candidate for the genetic basis of adaptive plasticity.
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Affiliation(s)
- Peter Pruisscher
- Department of Zoology, Stockholm University, Svante Arrheniusväg 18b, Stockholm, S-106 91, Sweden
| | - Sören Nylin
- Department of Zoology, Stockholm University, Svante Arrheniusväg 18b, Stockholm, S-106 91, Sweden
| | - Christopher West Wheat
- Department of Zoology, Stockholm University, Svante Arrheniusväg 18b, Stockholm, S-106 91, Sweden
| | - Karl Gotthard
- Department of Zoology, Stockholm University, Svante Arrheniusväg 18b, Stockholm, S-106 91, Sweden
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18
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Leung K, Ras E, Ferguson KB, Ariëns S, Babendreier D, Bijma P, Bourtzis K, Brodeur J, Bruins MA, Centurión A, Chattington SR, Chinchilla‐Ramírez M, Dicke M, Fatouros NE, González‐Cabrera J, Groot TVM, Haye T, Knapp M, Koskinioti P, Le Hesran S, Lyrakis M, Paspati A, Pérez‐Hedo M, Plouvier WN, Schlötterer C, Stahl JM, Thiel A, Urbaneja A, van de Zande L, Verhulst EC, Vet LEM, Visser S, Werren JH, Xia S, Zwaan BJ, Magalhães S, Beukeboom LW, Pannebakker BA. Next-generation biological control: the need for integrating genetics and genomics. Biol Rev Camb Philos Soc 2020; 95:1838-1854. [PMID: 32794644 PMCID: PMC7689903 DOI: 10.1111/brv.12641] [Citation(s) in RCA: 41] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2019] [Revised: 07/16/2020] [Accepted: 07/20/2020] [Indexed: 12/12/2022]
Abstract
Biological control is widely successful at controlling pests, but effective biocontrol agents are now more difficult to import from countries of origin due to more restrictive international trade laws (the Nagoya Protocol). Coupled with increasing demand, the efficacy of existing and new biocontrol agents needs to be improved with genetic and genomic approaches. Although they have been underutilised in the past, application of genetic and genomic techniques is becoming more feasible from both technological and economic perspectives. We review current methods and provide a framework for using them. First, it is necessary to identify which biocontrol trait to select and in what direction. Next, the genes or markers linked to these traits need be determined, including how to implement this information into a selective breeding program. Choosing a trait can be assisted by modelling to account for the proper agro-ecological context, and by knowing which traits have sufficiently high heritability values. We provide guidelines for designing genomic strategies in biocontrol programs, which depend on the organism, budget, and desired objective. Genomic approaches start with genome sequencing and assembly. We provide a guide for deciding the most successful sequencing strategy for biocontrol agents. Gene discovery involves quantitative trait loci analyses, transcriptomic and proteomic studies, and gene editing. Improving biocontrol practices includes marker-assisted selection, genomic selection and microbiome manipulation of biocontrol agents, and monitoring for genetic variation during rearing and post-release. We conclude by identifying the most promising applications of genetic and genomic methods to improve biological control efficacy.
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Affiliation(s)
- Kelley Leung
- Groningen Institute for Evolutionary Life SciencesUniversity of GroningenPO Box 111039700 CCGroningenThe Netherlands
| | - Erica Ras
- Insect Pest Control Laboratory, Joint FAO/IAEA Division of Nuclear Techniques in Food and AgricultureVienna International CentreP.O. Box 1001400ViennaAustria
| | - Kim B. Ferguson
- Laboratory of GeneticsWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
| | - Simone Ariëns
- Group for Population and Evolutionary Ecology, FB 02, Institute of EcologyUniversity of BremenLeobener Str. 528359BremenGermany
| | | | - Piter Bijma
- Animal Breeding and GenomicsWageningen University & ResearchPO Box 3386700 AHWageningenThe Netherlands
| | - Kostas Bourtzis
- Insect Pest Control Laboratory, Joint FAO/IAEA Division of Nuclear Techniques in Food and AgricultureVienna International CentreP.O. Box 1001400ViennaAustria
| | - Jacques Brodeur
- Institut de Recherche en Biologie VégétaleUniversité de Montréal4101 Sherbrooke EstMontréalQuebecCanadaH1X 2B2
| | - Margreet A. Bruins
- Laboratory of GeneticsWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
| | - Alejandra Centurión
- Group for Population and Evolutionary Ecology, FB 02, Institute of EcologyUniversity of BremenLeobener Str. 528359BremenGermany
| | - Sophie R. Chattington
- Group for Population and Evolutionary Ecology, FB 02, Institute of EcologyUniversity of BremenLeobener Str. 528359BremenGermany
| | - Milena Chinchilla‐Ramírez
- Instituto Valenciano de Investigaciones Agrarias (IVIA), Centro de Protección Vegetal y BiotecnologíaUnidad Mixta Gestión Biotecnológica de Plagas UV‐IVIACarretera CV‐315, Km 10'746113MoncadaValenciaSpain
| | - Marcel Dicke
- Laboratory of EntomologyWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
| | - Nina E. Fatouros
- Biosystematics GroupWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
| | - Joel González‐Cabrera
- Department of Genetics, Estructura de Recerca Interdisciplinar en Biotecnología i Biomedicina (ERI‐BIOTECMED)Unidad Mixta Gestión Biotecnológica de Plagas UV‐IVIA, Universitat de ValènciaDr Moliner 5046100BurjassotValenciaSpain
| | - Thomas V. M. Groot
- Koppert Biological SystemsVeilingweg 142651 BEBerkel en RodenrijsThe Netherlands
| | - Tim Haye
- CABIRue des Grillons 12800DelémontSwitzerland
| | - Markus Knapp
- Koppert Biological SystemsVeilingweg 142651 BEBerkel en RodenrijsThe Netherlands
| | - Panagiota Koskinioti
- Insect Pest Control Laboratory, Joint FAO/IAEA Division of Nuclear Techniques in Food and AgricultureVienna International CentreP.O. Box 1001400ViennaAustria
- Department of Biochemistry and BiotechnologyUniversity of ThessalyBiopolis41500LarissaGreece
| | - Sophie Le Hesran
- Laboratory of EntomologyWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
- Koppert Biological SystemsVeilingweg 142651 BEBerkel en RodenrijsThe Netherlands
| | - Manolis Lyrakis
- Institut für PopulationsgenetikVetmeduni ViennaVeterinärplatz 11210ViennaAustria
- Vienna Graduate School of Population GeneticsVetmeduni ViennaVeterinärplatz 11210ViennaAustria
| | - Angeliki Paspati
- Instituto Valenciano de Investigaciones Agrarias (IVIA), Centro de Protección Vegetal y BiotecnologíaUnidad Mixta Gestión Biotecnológica de Plagas UV‐IVIACarretera CV‐315, Km 10'746113MoncadaValenciaSpain
| | - Meritxell Pérez‐Hedo
- Instituto Valenciano de Investigaciones Agrarias (IVIA), Centro de Protección Vegetal y BiotecnologíaUnidad Mixta Gestión Biotecnológica de Plagas UV‐IVIACarretera CV‐315, Km 10'746113MoncadaValenciaSpain
| | - Wouter N. Plouvier
- INRA, CNRS, UMR 1355‐7254400 Route des ChappesBP 167 06903Sophia Antipolis CedexFrance
| | | | - Judith M. Stahl
- CABIRue des Grillons 12800DelémontSwitzerland
- Kearney Agricultural Research and Extension CenterUniversity of California Berkeley9240 South Riverbend AvenueParlierCA93648USA
| | - Andra Thiel
- Group for Population and Evolutionary Ecology, FB 02, Institute of EcologyUniversity of BremenLeobener Str. 528359BremenGermany
| | - Alberto Urbaneja
- Instituto Valenciano de Investigaciones Agrarias (IVIA), Centro de Protección Vegetal y BiotecnologíaUnidad Mixta Gestión Biotecnológica de Plagas UV‐IVIACarretera CV‐315, Km 10'746113MoncadaValenciaSpain
| | - Louis van de Zande
- Groningen Institute for Evolutionary Life SciencesUniversity of GroningenPO Box 111039700 CCGroningenThe Netherlands
| | - Eveline C. Verhulst
- Laboratory of EntomologyWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
| | - Louise E. M. Vet
- Laboratory of EntomologyWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
- Netherlands Institute of Ecology (NIOO‐KNAW)Droevendaalsesteeg 106708 PBWageningenThe Netherlands
| | - Sander Visser
- Institute of EntomologyBiology Centre CASBranišovská 31370 05České BudějoviceCzech Republic
- Faculty of ScienceUniversity of South BohemiaBranišovská 1760370 05České BudějoviceCzech Republic
| | - John H. Werren
- Department of BiologyUniversity of RochesterRochesterNY14627USA
| | - Shuwen Xia
- Animal Breeding and GenomicsWageningen University & ResearchPO Box 3386700 AHWageningenThe Netherlands
| | - Bas J. Zwaan
- Laboratory of GeneticsWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
| | - Sara Magalhães
- cE3c: Centre for Ecology, Evolution, and Environmental ChangesFaculdade de Ciências da Universidade de LisboaEdifício C2, Campo Grande1749‐016LisbonPortugal
| | - Leo W. Beukeboom
- Groningen Institute for Evolutionary Life SciencesUniversity of GroningenPO Box 111039700 CCGroningenThe Netherlands
| | - Bart A. Pannebakker
- Laboratory of GeneticsWageningen University & ResearchDroevendaalsesteeg 16708 PBWageningenThe Netherlands
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Marshall KE, Gotthard K, Williams CM. Evolutionary impacts of winter climate change on insects. CURRENT OPINION IN INSECT SCIENCE 2020; 41:54-62. [PMID: 32711362 DOI: 10.1016/j.cois.2020.06.003] [Citation(s) in RCA: 55] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2020] [Revised: 05/29/2020] [Accepted: 06/08/2020] [Indexed: 06/11/2023]
Abstract
Overwintering is a serious challenge for insects, and winters are rapidly changing as climate shifts. The capacity for phenotypic plasticity and evolutionary adaptation will determine which species profit or suffer from these changes. Here we discuss current knowledge on the potential and evidence for evolution in winter-relevant traits among insect species and populations. We conclude that the best evidence for evolutionary shifts in response to changing winters remain those related to changes in phenology, but all evidence points to cold hardiness as also having the potential to evolve in response to climate change. Predicting future population sizes and ranges relies on understanding to what extent evolution in winter-related traits is possible, and remains a serious challenge.
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Affiliation(s)
| | - Karl Gotthard
- Department of Zoology, Stockholm University, Stockholm SE-106 91, Sweden
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20
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Ragland GJ, Armbruster PA, Meuti ME. Evolutionary and functional genetics of insect diapause: a call for greater integration. CURRENT OPINION IN INSECT SCIENCE 2019; 36:74-81. [PMID: 31539788 PMCID: PMC7212789 DOI: 10.1016/j.cois.2019.08.003] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2019] [Revised: 07/29/2019] [Accepted: 08/07/2019] [Indexed: 06/10/2023]
Abstract
Diapause in response to seasonality is an important model for rapid evolutionary adaptation that is highly genetically variable, and experiences strong natural selection. Forward genetic methods using various genomic and transcriptomic approaches have begun to characterize the genetic architecture and candidate genes underlying diapause evolution. Largely in parallel, reverse genetic studies have identified functional roles for candidate genes that may or may not be genetically variable. We illustrate the disconnect between the evolutionary and physiological literature using a suite of studies of the role of the circadian clock in diapause regulation. These extensive studies in two different disciplines provide excellent opportunities for integration, which should facilitate rapid progress in understanding both the regulation and evolution of diapause.
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Affiliation(s)
- Gregory J Ragland
- Department of Integrative Biology, University of Colorado, Denver, 1151 Arapahoe St., SI 2071, Denver, CO 80204, USA.
| | - Peter A Armbruster
- Department of Biology, Georgetown University, Reiss Science Building, Room 406 37th and O Streets, NW Washington DC 20057, USA
| | - Megan E Meuti
- Department of Entomology, The Ohio State University, 216 Kottman Hall 2021 Coffey Road, Columbus, OH 43210, USA
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21
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Czypionka T, Fields PD, Routtu J, van den Berg E, Ebert D, De Meester L. The genetic architecture underlying diapause termination in a planktonic crustacean. Mol Ecol 2019; 28:998-1008. [PMID: 30592346 DOI: 10.1111/mec.15001] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Revised: 11/15/2018] [Accepted: 11/27/2018] [Indexed: 01/17/2023]
Abstract
Diapause is a feature of the life cycle of many invertebrates by which unfavourable environmental conditions can be outlived. The seasonal timing of diapause allows organisms to adapt to seasonal changes in habitat suitability and thus is key to their fitness. In the planktonic crustacean Daphnia, various cues can induce the production of diapause stages that are resistant to heat, drought or freezing and contain one to two embryos in developmental arrest. Daphnia is a keystone species of many freshwater ecosystems, where it acts as the main link between phytoplankton and higher trophic levels. The correct seasonal timing of diapause termination is essential to maintain trophic interactions and is achieved via a genetically based interpretation of environmental cues like photoperiod and temperature. Field monitoring and modelling studies raised concerns on whether populations can advance their seasonal release from diapause to advances in spring phenology under global change, or if a failure to adapt will cause trophic mismatches negatively affecting ecosystem functioning. Our capacity to understand and predict the evolution of diapause timing requires information about the genetic architecture underlying this trait. In this study, we identified eight quantitative trait loci (QTLs) and four epistatic interactions that together explained 66.5% of the variation in diapause termination in Daphnia magna using QTL mapping. Our results suggest that the most significant QTL is modulating diapause termination dependent on photoperiod and is involved in three of the four detected epistatic interactions. Candidate genes at this QTL could be identified through the integration with genome data and included the presynaptic active zone protein bruchpilot. Our findings contribute to understanding the genomic control of seasonal diapause timing in an ecological relevant species.
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Affiliation(s)
- Till Czypionka
- Laboratory of Aquatic Ecology and Evolutionary Biology, KU Leuven, Leuven, Belgium
| | - Peter D Fields
- Department of Environmental Sciences, Zoology, University of Basel, Basel, Switzerland
| | - Jarkko Routtu
- Department of Environmental Sciences, Zoology, University of Basel, Basel, Switzerland.,Molecular Ecology, Martin-Luther-Universität, Halle-Wittenberg, Germany
| | - Edwin van den Berg
- Laboratory of Aquatic Ecology and Evolutionary Biology, KU Leuven, Leuven, Belgium
| | - Dieter Ebert
- Department of Environmental Sciences, Zoology, University of Basel, Basel, Switzerland
| | - Luc De Meester
- Laboratory of Aquatic Ecology and Evolutionary Biology, KU Leuven, Leuven, Belgium
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Paolucci S, Dalla Benetta E, Salis L, Doležel D, van de Zande L, Beukeboom LW. Latitudinal Variation in Circadian Rhythmicity in Nasonia vitripennis. Behav Sci (Basel) 2019; 9:E115. [PMID: 31731741 PMCID: PMC6912635 DOI: 10.3390/bs9110115] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2019] [Revised: 11/12/2019] [Accepted: 11/13/2019] [Indexed: 12/19/2022] Open
Abstract
Many physiological processes of living organisms show circadian rhythms, governed by an endogenous clock. This clock has a genetic basis and is entrained by external cues, such as light and temperature. Other physiological processes exhibit seasonal rhythms, that are also responsive to light and temperature. We previously reported a natural latitudinal cline of photoperiodic diapause induction in the parasitic wasp Nasonia vitripennis in Europe and a correlated haplotype frequency for the circadian clock gene period (per). To evaluate if this correlation is reflected in circadian behaviour, we investigated the circadian locomotor activity of seven populations from the cline. We found that the proportion of rhythmic males was higher than females in constant darkness, and that mating decreased rhythmicity of both sexes. Only for virgin females, the free running period (τ) increased weakly with latitude. Wasps from the most southern locality had an overall shorter free running rhythm and earlier onset, peak, and offset of activity during the 24 h period, than wasps from the northernmost locality. We evaluated this variation in rhythmicity as a function of period haplotype frequencies in the populations and discussed its functional significance in the context of local adaptation.
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Affiliation(s)
- Silvia Paolucci
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, 9712 CP Groningen, The Netherlands; (S.P.); (L.S.); (D.D.); (L.W.B.)
| | - Elena Dalla Benetta
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, 9712 CP Groningen, The Netherlands; (S.P.); (L.S.); (D.D.); (L.W.B.)
| | - Lucia Salis
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, 9712 CP Groningen, The Netherlands; (S.P.); (L.S.); (D.D.); (L.W.B.)
| | - David Doležel
- Institute of Entomology, Biology Center of the Czech Academy of Sciences, 370 05 Ceske Budejovice, Czech Republic;
| | - Louis van de Zande
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, 9712 CP Groningen, The Netherlands; (S.P.); (L.S.); (D.D.); (L.W.B.)
| | - Leo W. Beukeboom
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, 9712 CP Groningen, The Netherlands; (S.P.); (L.S.); (D.D.); (L.W.B.)
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Kozak GM, Wadsworth CB, Kahne SC, Bogdanowicz SM, Harrison RG, Coates BS, Dopman EB. Genomic Basis of Circannual Rhythm in the European Corn Borer Moth. Curr Biol 2019; 29:3501-3509.e5. [DOI: 10.1016/j.cub.2019.08.053] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2019] [Revised: 08/15/2019] [Accepted: 08/20/2019] [Indexed: 12/15/2022]
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Dalla Benetta E, Beukeboom LW, van de Zande L. Adaptive Differences in Circadian Clock Gene Expression Patterns and Photoperiodic Diapause Induction in Nasonia vitripennis. Am Nat 2019; 193:881-896. [DOI: 10.1086/703159] [Citation(s) in RCA: 39] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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Yamaguchi K, Goto SG. Distinct Physiological Mechanisms Induce Latitudinal and Sexual Differences in the Photoperiodic Induction of Diapause in a Fly. J Biol Rhythms 2019; 34:293-306. [PMID: 30966851 DOI: 10.1177/0748730419841931] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Many temperate insects enter diapause (dormancy) for overwintering in response to short days (long nights). A latitudinal cline in the critical day lengths for the photoperiodic induction of diapause has been reported in various insect species. However, the physiological mechanisms underlying this cline have remained elusive. We approached this issue in the flesh fly Sarcophaga similis, in which the photoperiodic time measurement system meets the "external coincidence model." In this model, measuring day lengths depends on whether the photoinducible phase (φi), determined by a circadian clock, is exposed to light or not. First, we detected a clear latitudinal cline in the critical day lengths of flies collected from 4 localities at different latitudes. The phase positions of the φi, which can be verified by night interruption photoperiods, also showed a clear latitudinal cline. This result supports the hypothesis that the latitudinal cline in the critical day length is produced by the difference in the phase positions of the φi among different strains. A sexual difference in the critical day length for photoperiodic induction has also been detected in various species. In this study, a sexual difference in the critical day length was observed in the southern strains but there was no sexual difference in the phase positions of the φi. This result indicates that both sexes measure photoperiods in the same manner. Males are less sensitive than females to the light pulse given at the φi, suggesting a quantitative difference in the photoperiodic time measurement and counter systems. This study clearly reveals that distinct mechanisms induce latitudinal and sexual differences in the critical day length for the photoperiodic induction of diapause in a fly.
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Affiliation(s)
- Koki Yamaguchi
- Graduate School of Science, Osaka City University, Japan
| | - Shin G Goto
- Graduate School of Science, Osaka City University, Japan
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