Article
Biochemistry & Molecular Biology
Kimberly R. Andrews, Travis Seaborn, Joshua P. Egan, Matthew W. Fagnan, Daniel D. New, Zhongqi Chen, Paul A. Hohenlohe, Lisette P. Waits, Christopher C. Caudill, Shawn R. Narum
Summary: By conducting genome scans on redband trout populations in the interior Columbia River, we identified 12 genomic regions showing signs of local adaptation, driven primarily by diurnal temperature variation and population divergence. Our study also revealed adaptive differences between high-elevation desert and montane habitats. Additionally, we predicted substantial habitat loss and genetic shifts necessary for adaptation to future habitats, with high-elevation desert populations being the most vulnerable.
Article
Biotechnology & Applied Microbiology
Shaghayegh Soudi, Marc Crepeau, Travis C. Collier, Yoosook Lee, Anthony J. Cornel, Gregory C. Lanzaro
Summary: By integrating whole-genome sequencing data and topo-climate variables, this study identifies 112 genes associated with local environmental adaptation in Ae. aegypti populations in southern and central California. These findings provide insights into how environmental adaptation impacts the arboviral disease landscape and population control efforts.
Article
Multidisciplinary Sciences
Jose G. Cortes-Hernandez, Felipe J. Ruiz-Lopez, Carlos G. Vasquez-Pelaez, Adriana Garcia-Ruiz
Summary: This study aimed to investigate the runs of homozygosity (ROH) in the Mexican Holstein population and their associations with milk, fat and protein yields, and conformation final score. The results showed evidence of genomic regions preserved by genetic selection, which were associated with improved productivity and functionality of dairy cattle.
Review
Genetics & Heredity
Sam Yeaman
Summary: Observations of alleles associated with complex traits should be interpreted in the context of evolutionary processes. Genetic architecture can significantly impact evolutionary outcomes and provide insights into how evolution works. Local adaptation can lead to concentrated genetic architectures enriched for alleles of larger effect, but evolution of such architectures may be limited by various factors.
Article
Evolutionary Biology
Zachary A. Szpiech, Taylor E. Novak, Nick P. Bailey, Laurie S. Stevison
Summary: This study developed a genomic scan method to investigate local adaptation in species and found multiple signs of adaptation in the high-altitude rhesus macaque population, including the traditional adaptation target EGLN1. The research also showed that adaptation in high-altitude rhesus macaques is polygenic, involving multiple important biological systems.
Article
Plant Sciences
Thibaut Capblancq, Susanne Lachmuth, Matthew C. Fitzpatrick, Stephen R. Keller
Summary: This study combines genomic methods and common gardens to investigate local adaptation in red spruce. It identifies environmental gradients and loci involved in climate adaptation and uncovers phenotypic evidence of local adaptation to climate.
Article
Multidisciplinary Sciences
Claudia A. Martin, Claire Armstrong, Juan Carlos Illera, Brent C. Emerson, David S. Richardson, Lewis G. Spurgin
Summary: Oceanic island archipelagos offer valuable insights into evolutionary processes, with interactions between colonization events, gene flow, and selection shaping genetic variation at different spatial scales. Within the same geographical region, similar ecological factors may repeatedly drive selection between populations.
ROYAL SOCIETY OPEN SCIENCE
(2021)
Article
Multidisciplinary Sciences
Takeshi Iwasaki, Yoichiro Kamatani, Kazuhiro Sonomura, Shuji Kawaguchi, Takahisa Kawaguchi, Meiko Takahashi, Koichiro Ohmura, Taka-Aki Sato, Fumihiko Matsuda
Summary: An increase in ethnic diversity in genetic studies has allowed researchers to uncover new associations between genetic variations and human phenotypes. In this study, metabolite-gene associations were analyzed in 4,888 Japanese individuals, leading to the discovery of 60 associations, with 13 previously unreported. Meta-analyses with other Japanese and European studies revealed additional unreported loci. The study also found that genetic variants influencing metabolite levels were enriched in protein-coding regions and associated with disease risks. Furthermore, a strong negative selection signature for uric acid was identified. These findings expand our understanding of genetic influences on blood metabolites and provide insights into their physiological, pathological, and selective properties.
Article
Genetics & Heredity
James Sweet-Jones, Vasileios Panagiotis Lenis, Andrey A. Yurchenko, Nikolay S. Yudin, Martin Swain, Denis M. Larkin
Summary: The study identified genetic variations in Welsh sheep breeds that are important for enhancing the adaptative qualities of UK and global sheep breeds through a marker-assisted selection.
FRONTIERS IN GENETICS
(2021)
Article
Environmental Sciences
Ronan Becheler, Daniela Haverbeck, Corentin Clerc, Gabriel Montecinos, Myriam Valero, Andres Mansilla, Sylvain Faugeron
Summary: This study aimed to test the local adaptation in giant kelp and found that there are variations in temperature tolerance among different regions and populations. However, high latitude populations are not always more heat resilient than low latitude populations. Additionally, the gametophytes of the giant kelp have a large range of temperature tolerance, indicating their resistance.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Biao Wu, Xi Chen, Mengjun Yu, Jianfeng Ren, Jie Hu, Changwei Shao, Liqing Zhou, Xiujun Sun, Tao Yu, Yanxin Zheng, Yan Wang, Zhenyuan Wang, He Zhang, Guangyi Fan, Zhihong Liu
Summary: This study analyzed the genome of the economically and ecologically important species, Jinjiang oyster, in China, revealing its genomic features, gene families, population structure and selective sweeps. Results showed differences among populations with different geographical distributions, as well as gene flow from the south to Shanghai.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Biochemistry & Molecular Biology
Bingjian Liu, Jiasheng Li, Ying Peng, Kun Zhang, Qi Liu, Xun Jin, Sixu Zheng, Yunpeng Wang, Li Gong, Liqin Liu, Zhenming Lu, Yifan Liu
Summary: By constructing the genome of the common hairfin anchovy (Setipinna tenuifilis) and studying its adaptive diversity, we found three genetic groups of this species along the Chinese coast and identified the important role of environmental factors, such as temperature, in driving adaptive divergence. This study sheds light on the evolution and genetic variation patterns of S. tenuifilis, providing a valuable genomic resource for further research on this species and closely related Clupeiformes.
Article
Biochemistry & Molecular Biology
Jody Ye, Mihaela Stefan-Lifshitz, Yaron Tomer
Summary: Cathepsin H (CTSH) plays a role in type 1 diabetes (T1D) risk, with genetic and epidemiological studies showing a correlation between T1D risk, high CTSH expression, and beta-cell function decline. Proinflammatory cytokines can downregulate CTSH transcription through DNA methylation, potentially affecting individuals' sensitivity to cytokines and response to environmental factors. This suggests that genetic and environmental influences on a T1D locus are mediated by DNA methylation variability.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Yanmin Hu, Xianjun Peng, Fenfen Wang, Peilin Chen, Meiling Zhao, Shihua Shen
Summary: A total of 14 SNPs associated with woody plants' low temperature adaptation were identified, along with 75 selective regions. Important candidate genes were pinpointed, and a proposed network of cold-stress responses in these plants was suggested. Geographic distribution patterns revealed three clusters of individuals based on local climate adaptation, showcasing the specific and complex molecular mechanism of woody plants' adaptation to low temperatures and overwintering.
PLANT MOLECULAR BIOLOGY
(2021)
Article
Evolutionary Biology
Angela P. Fuentes-Pardo, Edward D. Farrell, Mats E. Pettersson, C. Grace Sprehn, Leif Andersson
Summary: Understanding population adaptation is important for preserving biodiversity in the face of overexploitation and climate change. This study focused on Atlantic horse mackerel, a commercially and ecologically important marine fish. The researchers used genomic data and environmental information to analyze population structure and genetic basis of local adaptation. Their findings revealed low population structure but identified key genetic markers associated with adaptation, such as loci discriminating different regions. The study emphasizes the importance of understanding both life history and climate-related selective pressures in shaping population structure in marine fish.
EVOLUTIONARY APPLICATIONS
(2023)
Article
Biology
Hanna ten Brink, Ole Seehausen
Summary: Ontogenetic diet shifts, where individuals change their resource use during development, are common in the animal world. This study uses a consumer-resource model and the adaptive dynamics approach to understand the impact of these diet changes on speciation. The research finds that competition among individuals of different sizes can hinder the occurrence of adaptive radiation, and initial conditions also play a role in determining whether adaptive radiation occurs or not.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2022)
Correction
Multidisciplinary Sciences
Spela Borko, Peter Trontelj, Ole Seehausen, Ajda Moskric, Cene Fiser
NATURE COMMUNICATIONS
(2022)
Article
Ecology
David Frei, Rishi De-Kayne, Oliver M. Selz, Ole Seehausen, Philine G. D. Feulner
Summary: Environmental change can lead to species extinction through speciation reversal and hybridization, but the genomic analysis of an Alpine whitefish radiation shows that the genome of an extinct species can persist within surviving species due to introgressive hybridization.
NATURE ECOLOGY & EVOLUTION
(2022)
Article
Ecology
Ian R. McFadden, Agnieszka Sendek, Morgane Brosse, Peter M. Bach, Marco Baity-Jesi, Janine Bolliger, Kurt Bollmann, Eckehard G. Brockerhoff, Giulia Donati, Friederike Gebert, Shyamolina Ghosh, Hsi-Cheng Ho, Imran Khaliq, J. Jelle Lever, Ivana Logar, Helen Moor, Daniel Odermatt, Loiec Pellissier, Luiz Jardim de Queiroz, Christian Rixen, Nele Schuwirth, J. Ryan Shipley, Cornelia W. Twining, Yann Vitasse, Christoph Vorburger, Mark K. L. Wong, Niklaus E. Zimmermann, Ole Seehausen, Martin M. Gossner, Blake Matthews, Catherine H. Graham, Florian Altermatt, Anita Narwani
Summary: Human impacts such as habitat loss, climate change, and biological invasions are drastically changing biodiversity. We propose an integrative approach to explain the differences in impacts between terrestrial and freshwater ecosystems by linking them to four fundamental processes that structure communities. Through this approach, we aim to provide insights into why human impacts and responses to them may differ across ecosystem types, using a mechanistic, eco-evolutionary framework.
Article
Ecology
Claudio Mueller, Florian N. Moser, David Frei, Ole Seehausen
Summary: Most of the cichlid species in Lake Victoria evolved rapidly within the last 15,000 years, originating from one of the five old cichlid lineages. Astatoreochromis alluaudi is a member of an old lineage that did not diversify in the Lake Victoria region. Despite the presence of distinct ecotypes associated with major habitat classes, there is a lack of assortative mating and speciation constraints.
Article
Biochemistry & Molecular Biology
Sara. M. M. Stieb, Fabio Cortesi, Luiz Jardim de Queiroz, Karen. L. L. Carleton, Ole Seehausen, N. Justin Marshall
Summary: This study investigates the expression of visual pigment gene (opsin) in coral reef fishes and finds that algivorous species with orange/red colors exhibit high expression of long-wavelength-sensitive (lws) opsin. This enhances their ability to detect algae and orange/red-colored conspecifics, possibly enabling social signalling.
Article
Biochemistry & Molecular Biology
David Frei, Pascal Reichlin, Ole Seehausen, Philine G. D. Feulner
Summary: Anthropogenic disturbances have caused the extinction of an endemic whitefish species in Lake Constance, leading to hybridization with surviving species that potentially facilitates adaptation to deep-water habitats. The study identified genomic regions under divergent selection between deep and shallow spawning habitats, with introgression from the extinct species potentially contributing to ongoing deep-water adaptation. These findings support the syngameon hypothesis and highlight the importance of introgression from extinct species in enabling rapid adaptation and ecological recovery.
Article
Geography, Physical
Yunuen Temoltzin-Loranca, Erika Gobet, Boris Vanniere, Jacqueline F. N. van Leeuwen, Giulia Wienhues, Sonke Szidat, Colin Courtney-Mustaphi, Mary Kishe, Moritz Muschick, Ole Seehausen, Martin Grosjean, Willy Tinner
Summary: This study provides insights into the fire regime changes and long-term vegetation dynamics in Lake Victoria over the past 17,000 years by using 14C dating of sediment cores. The results suggest that climate and vegetation play significant roles in shaping the fire regime, which can inform ecosystem management and conservation strategies.
QUATERNARY SCIENCE REVIEWS
(2023)
Article
Ecology
Kotaro Kagawa, Gaku Takimoto, Ole Seehausen
Summary: Hybridization can promote ecological speciation through generating novel genetic variation and creating new mating phenotypes. This study suggests that transgressive segregation of mating traits can drive incipient hybrid speciation, with moderate continued immigration facilitating recurrent hybridization events. Recurrent hybridization leads to the rapid stochastic evolution of mating phenotypes until a novel phenotype dominates the hybrid population, resulting in reproductive isolation from parental lineages. However, excessive hybridization hinders the evolution of reproductive isolation by producing mating phenotypes allowing interbreeding with parental lineages. The study also identifies conditions for the long-term persistence of hybrid species.
Article
Ecology
Tiziana P. Gobbin, Maarten P. M. Vanhove, Renee Veenstra, Martine E. Maan, Ole Seehausen
Summary: Parasites may enhance host diversification through eco-evolutionary interactions. The role of parasites in different stages of host speciation was studied using cichlid fish in Lake Victoria. Different sympatric host species showed differences in parasite infection levels and community composition. Infection differentiation increased with genetic differentiation, but significant differences between sympatric species were only found in the oldest and most differentiated pair, suggesting that parasites may contribute to host differentiation after speciation rather than initiate it.
Article
Ecology
Cameron Marshall Hudson, Maria Cuenca Cambronero, Marvin Moosmann, Anita Narwani, Piet Spaak, Ole Seehausen, Blake Matthews
Summary: Hybridization between genetically divergent populations can affect the expansion of invasive species, and our study shows that when hybrid fitness is not influenced by environmental conditions, introgression can promote population expansion and accelerate invasion success. Our experiment with threespine stickleback lineages in freshwater ponds demonstrated that fish from the older lineage and hybrids had better growth and survival than fish from the younger lineage, regardless of the nutrient loading history of the ponds. Hybrids exhibited the highest survival across all ponds.
JOURNAL OF EVOLUTIONARY BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Nare Ngoepe, Moritz Muschick, Mary A. Kishe, Salome Mwaiko, Yunuen Temoltzin-Loranca, Leighton King, Colin Courtney Mustaphi, Oliver Heiri, Giulia Wienhues, Hendrik Vogel, Maria Cuenca-Cambronero, Willy Tinner, Martin Grosjean, Blake Matthews, Ole Seehausen
Summary: Adaptive radiations play a crucial role in generating biodiversity, but the relative importance of species' ecological versatility and arrival order in determining which lineage radiates is still unclear. Through analyzing the fossil record of cichlid fishes in Lake Victoria, it was found that their ecological versatility was key to their persistence in new habitats, suggesting that it played a major role in adaptive radiation.
Article
Ecology
Lukas Ruber, Andrea Gandolfi, Danilo Foresti, Luca Paltrinieri, Andrea Splendiani, Ole Seehausen
Summary: The Adriatic brook lamprey, Lampetra zanandreai, is found in northeastern Italy and its distribution extends to other countries in the Adriatic Sea river basins. Previously identified Lampetra zanandreai populations in Croatia, Bosnia and Herzegovina, and Montenegro have been recently described as a new species called Lampetra soljani. Genetic analysis shows low sequence divergence between L. zanandreai populations from Switzerland, Italy, Slovenia, and L. soljani from the Balkans. However, a population from northwest Italy shows significant genetic divergence and may represent an undescribed species.
ECOLOGY AND EVOLUTION
(2023)
Article
Ecology
Marvin Moosmann, Cameron M. Hudson, Ole Seehausen, Blake Matthews
Summary: Lineages with independent evolutionary histories often differ in both their morphology and diet, but the reasons for dietary divergence are not well understood. This study explores the phenotypic causes of dietary divergence between two divergent lineages of threespine stickleback using common-garden experiments and analyses of foraging traits. The results suggest that dietary divergence arises from differences in both morphology and behaviors related to prey capture success.
Article
Evolutionary Biology
David Frei, Salome Mwaiko, Ole Seehausen, Philine G. D. Feulner
Summary: Genomic diversity is associated with the adaptive potential and extinction risk of a species during environmental change. A study on Alpine whitefish radiation found that genomic diversity decreased during a period of anthropogenic disturbance and has not yet recovered. The erosion of genomic variation and loss of potentially adaptive genomic differentiation highlights the sensitivity of biodiversity in young adaptive radiations to environmental disturbance.
EVOLUTIONARY APPLICATIONS
(2023)