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1.
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19 p, 8.7 MB |
Complex Evolutionary History With Extensive Ancestral Gene Flow in an African Primate Radiation
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Jensen, Axel (Uppsala University. Department of Ecology and Genetics, Animal Ecology) ;
Swift, Frances (University of Edinburgh. School of Biological Sciences) ;
de Vries, Dorien (University of Salford. School of Science, Engineering and Environment) ;
Beck, Robin (University of Salford. School of Science, Engineering & Environment) ;
Kuderna, Lukas (Illumina Inc) ;
Knauf, Sascha (Federal Research Institute for Animal Health) ;
Chuma, Idrissa S. (Tanzania National Parks) ;
Keyyu, Julius (Tanzania Wildlife Research Institute) ;
Kitchener, Andrew (University of Edinburgh. University of Edinburgh) ;
Farh, Kyle (Illumina Inc) ;
Rogers, Jeffrey (Baylor College of Medicine. Human Genome Sequencing Center) ;
Marques-Bonet, Tomas, 1975- (Institut Català de Paleontologia Miquel Crusafont) ;
Detwiler, Kate (Florida Atlantic University. Department of Biological Sciences) ;
Roos, Christian (Leibniz Institute for Primate Research. German Primate Center) ;
Guschanski, Katerina (Uppsala University. Department of Ecology and Genetics)
Understanding the drivers of speciation is fundamental in evolutionary biology, and recent studies highlight hybridization as an important evolutionary force. Using whole-genome sequencing data from 22 species of guenons (tribe Cercopithecini), one of the world's largest primate radiations, we show that rampant gene flow characterizes their evolutionary history and identify ancient hybridization across deeply divergent lineages that differ in ecology, morphology, and karyotypes. [...]
2023 -  10.1093/molbev/msad247
Molecular Biology and Evolution, Vol. 40, Issue 12 (December 2023) , art. msad247
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2.
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20 p, 2.5 MB |
Functional Evolution of Clustered Aquaporin Genes Reveals Insights into the Oceanic Success of Teleost Eggs
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Ferré, Alba (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Chauvigné, François (Instituto de Ciencias del Mar - CSIC) ;
Vlasova, Anna (Institut de Ciència i Tecnologia de Barcelona. Institut de Recerca en Biomedicina) ;
Norberg, Birgitta (Austevoll Research Station. Institute of Marine Research) ;
Bargelloni, Luca (Università di Padova. Dipartimento di Biomedicina Comparata e Scienza dell'Alimentazione) ;
Guigó, Roderic (Institut de Ciència i Tecnologia de Barcelona. Institut de Recerca en Biomedicina) ;
Finn, Roderick Nigel (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ;
Cerdà, Joan (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
Aquaporin-mediated oocyte hydration is considered important for the evolution of pelagic eggs and the radiative success of marine teleosts. However, the molecular regulatory mechanisms controlling this vital process are not fully understood. [...]
2023 - 10.1093/molbev/msad071
Molecular biology and evolution, Vol. 40, Issue 4 (April 2023) , art. msad071
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3.
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15 p, 1.1 MB |
The Elephant Evolved p53 Isoforms that Escape MDM2-Mediated Repression and Cancer
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Padariya, Monikaben (University of Gdansk. International Centre for Cancer Vaccine Science) ;
Jooste, Mia-Lyn (University of Edinburgh. Institute of Genetics and Cancer) ;
Hupp, Ted (University of Edinburgh. Institute of Genetics and Cancer) ;
Fåhraeus, Robin (Umeå University. Department of Medical Biosciences) ;
Vojtesek, Borek (Masaryk Memorial Cancer Institute) ;
Vollrath, Fritz (Save the Elephants Marula Manor) ;
Kalathiya, Umesh (University of Gdansk. International Centre for Cancer Vaccine Science) ;
Karakostis, Konstantinos (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
The p53 tumor suppressor is a transcription factor with roles in cell development, apoptosis, oncogenesis, aging, and homeostasis in response to stresses and infections. p53 is tightly regulated by the MDM2 E3 ubiquitin ligase. [...]
2022 - 10.1093/molbev/msac149
Molecular biology and evolution, Vol. 39, Issue 7 (July 2022) , art. msac149
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4.
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26 p, 12.8 MB |
Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci
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Lv, Feng-Hua (China Agricultural University. College of Animal Science and Technology) ;
Cao, Yin-Hong (University of Chinese Academy of Sciences . College of Life Sciences) ;
Liu, Guang-Jian (Novogene Bioinformatics Institute) ;
Luo, Ling-Yun (China Agricultural University. College of Animal Science and Technology) ;
Lu, Ran (China Agricultural University. College of Animal Science and Technology) ;
Liu, Ming-Jun (Xinjiang Academy of Animal Science. Animal Biotechnological Research Center) ;
Li, Wen-Rong (Xinjiang Academy of Animal Science. Animal Biotechnological Research Center) ;
Zhou, Ping (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Wang, Xin-Hua (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Shen, Min (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Gao, Lei (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Yang, Jing-Quan (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Yang, Hua (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Yang, Yong-Lin (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Liu, Chang-Bin (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Wan, Peng-Cheng (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Zhang, Yun-Sheng (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Pi, Wen-Hui (Xinjiang Academy of Agricultural and Reclamation Sciences. State Key Laboratory of Sheep Genetic Improvement and Healthy Production) ;
Ren, Yan-Ling (Shandong Binzhou Academy of Animal Science and Veterinary Medicine) ;
Shen, Zhi-Qiang (Shandong Binzhou Academy of Animal Science and Veterinary Medicine) ;
Wang, Feng (Nanjing Agricultural University. Institute of Sheep and Goat Science) ;
Wang, Yu-Tao (Kashi University. College of Life and Geographic Sciences) ;
Li, Jin-Quan (Inner Mongolia Agricultural University. College of Animal Science) ;
Salehian-Dehkordi, Hosein (University of Chinese Academy of Sciences. College of Life Sciences) ;
Hehua, Eer (Ningxia Academy of Agriculture and Forestry Sciences. Grass-Feeding Livestock Engineering Technology Research Center) ;
Liu, Yong-Gang (Yunnan Agricultural University. College of Animal Science and Technology) ;
Chen, Jian-Fei (China Agricultural University. College of Animal Science and Technology) ;
Wang, Jian-Kui (China Agricultural University. College of Animal Science and Technology) ;
Deng, Xue-Mei (China Agricultural University. College of Animal Science and Technology) ;
Esmailizadeh, Ali (Shahid Bahonar University of Kerman. Department of Animal Science) ;
Dehghani-Qanatqestani, Mostafa (Shahid Bahonar University of Kerman. Department of Animal Science) ;
Charati, Hadi (Shahid Bahonar University of Kerman. Department of Animal Science) ;
Nosrati, Maryam (Payame Noor University. Department of Agriculture) ;
Štěpánek, Ondřej (State Veterinary Institute Jihlava. Department of Virology) ;
Rushdi, Hossam E (Cairo University. Department of Animal Production) ;
Olsaker, Ingrid (Norwegian University of Life Sciences. Department of Preclinical Sciences and Pathology) ;
Curik, Ino (University of Zagreb. Department of Animal Science) ;
Gorkhali, Neena A (Nepal Agriculture Research Council. Animal Breeding Division, National Animal Science Institute) ;
Paiva, Samuel R (Embrapa Recursos Genéticos e Biotecnologia) ;
Caetano, Alexandre R (Embrapa Recursos Genéticos e Biotecnologia) ;
Ciani, Elena (Università degli Studi di Bari. Dipartimento di Bioscienze, Biotecnologie e Biofarmaceutica) ;
Amills i Eras, Marcel (Universitat Autònoma de Barcelona. Departament de Ciència Animal i dels Aliments) ;
Weimann, Christina (Justus-Liebig-University Giessen. Department of Animal Breeding and Genetics) ;
Erhardt, Georg (Justus-Liebig-University Giessen. Department of Animal Breeding and Genetics) ;
Amane, Agraw (International Livestock Research Institute) ;
Mwacharo, Joram M (The Roslin Institute Building) ;
Han, Jian-Lin (International Livestock Research Institute (Nairobi, Kènia)) ;
Hanotte, Olivier (University of Nottingham. School of Life Sciences) ;
Periasamy, Kathiravan (International Atomic Energy Agency. Animal Production and Health Laboratory) ;
Johansson, Anna M (Swedish University of Agricultural Sciences. Department of Animal Breeding and Genetics) ;
Hallsson, Jón H (Agricultural University of Iceland. Faculty of Natural Resources and Environmental Sciences) ;
Kantanen, Juha (Natural Resources Institute Finland. Production Systems) ;
Coltman, David W (University of Alberta. Department of Biological Sciences) ;
Bruford, Michael W (Cardiff University. Sustainable Places Research Institute) ;
Lenstra, Johannes A (Utrecht University. Faculty of Veterinary Medicine) ;
Li, Meng-Hua (China Agricultural University. College of Animal Science and Technology)
Domestic sheep and their wild relatives harbor substantial genetic variants that can form the backbone of molecular breeding, but their genome landscapes remain understudied. Here, we present a comprehensive genome resource for wild ovine species, landraces and improved breeds of domestic sheep, comprising high-coverage (∼16. [...]
2021 - 10.1093/molbev/msab353
Molecular biology and evolution, Vol. 39 (december 2021)
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5.
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14 p, 924.4 KB |
Tunicates Illuminate the Enigmatic Evolution of Chordate Metallothioneins by Gene Gains and Losses, Independent Modular Expansions, and Functional Convergences
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Calatayud, Sara (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
García-Risco, Mario (Universitat Autònoma de Barcelona. Departament de Química) ;
Palacios Bonilla, Òscar (Universitat Autònoma de Barcelona. Departament de Química) ;
Capdevila Vidal, Mercè (Universitat Autònoma de Barcelona. Departament de Química) ;
Cañestro, Cristian (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
Albalat, Ricard (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística)
To investigate novel patterns and processes of protein evolution, we have focused in the metallothioneins (MTs), a singular group of metal-binding, cysteine-rich proteins that, due to their high degree of sequence diversity, still represents a "black hole" in Evolutionary Biology. [...]
2021 - 10.1093/molbev/msab184
Molecular biology and evolution, Vol. 38, Issue 10 (October 2021) , p. 4435-4448
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6.
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21 p, 2.7 MB |
Conservation of Aging and Cancer Epigenetic Signatures across Human and Mouse
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Pérez, Raúl F. (Centro de Investigación Biomédica en Red de Enfermedades Raras) ;
Tejedor, Juan Ramón (Centro de Investigación Biomédica en Red de Enfermedades Raras) ;
Santamarina-Ojeda, Pablo (Centro de Investigación Biomédica en Red de Enfermedades Raras) ;
Martínez, Virginia López (Centro de Investigación Biomédica en Red de Enfermedades Raras) ;
Urdinguio, Rocío G. (Centro de Investigación Biomédica en Red de Enfermedades Raras) ;
Villamañán, Lucía (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular) ;
Candiota Silveira, Ana Paula (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular) ;
Sarró, N. mí Vidal (Institut d'Investigació Biomèdica de Bellvitge) ;
Barradas, Marta (Metabolic Syndrome Group-BIOPROMET) ;
Fernandez-Marcos, Pablo Jose (Metabolic Syndrome Group-BIOPROMET) ;
Serrano, Manuel (Institució Catalana de Recerca i Estudis Avançats) ;
Fernández, Agustín F (Centro de Investigación Biomédica en Red de Enfermedades Raras) ;
Fraga, Mario F.. (Centro de Investigación Biomédica en Red de Enfermedades Raras)
Aging and cancer are two interrelated processes, with aging being a major risk factor for the development of cancer. Parallel epigenetic alterations have been described for both, although differences, especially within the DNA hypomethylation scenario, have also been recently reported. [...]
2021 - 10.1093/molbev/msab112
Molecular biology and evolution, Vol. 38, Issue 8 (August 2021) , p. 3415-3435
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7.
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14 p, 657.8 KB |
The Counteracting effects of demography on functional genomic variation : The Roma Paradigm
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Font-Porterias, Neus (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Caro-Consuegra, Rocio (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Lucas-Sánchez, Marcel (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Lopez, Marie (Institut Pasteur. Human Evolutionary Genetics Unit) ;
Giménez, Aaron (Universitat Autònoma de Barcelona. Departament de Sociologia) ;
Carballo-Mesa, Annabel (Universitat de Barcelona. Facultat de Geografia i Història) ;
Bosch, Elena (Centro de Investigación Biomédica en Red de Salud Mental) ;
Calafell, Francesc (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut) ;
Quintana-Murci, Lluís (Collège de France. Human Genomics and Evolution) ;
Comas, D. (Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut)
Demographic history plays a major role in shaping the distribution of genomic variation. Yet the interaction between different demographic forces and their effects in the genomes is not fully resolved in human populations. [...]
2021 - 10.1093/molbev/msab070
Molecular biology and evolution, Vol. 38 (march 2021) , p. 2804-2817
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8.
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18 p, 5.3 MB |
Genomic analysis of European Drosophila melanogaster populations reveals longitudinal structure, continent-wide selection, and previously unknown DNA viruses
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Kapun, Martin (The European Drosophila Population Genomics Consortium) ;
Barrón Aduriz, Maite Garazi (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Staubach, Fabian (University of Freiburg. Department of Evolutionary Biology and Ecology) ;
Obbard, Darren J. (University of Edinburgh. Institute of Evolutionary Biology) ;
Wiberg, R. Axel W. (University of Basel. Department of Environmental Sciences) ;
Vieira, Jorge (Instituto de Investigação e Inovação em Saúde (Porto, Portugal)) ;
Goubert, Clément (Cornell University. Department of Molecular Biology and Genetics) ;
Rota-Stabelli, Omar (The European Drosophila Population Genomics Consortium) ;
Kankare, Maaria (University of Jyväskylä. Department of Biological and Environmental Science) ;
Bogaerts-Márquez, María (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Haudry, Annabelle (Université Lyon 1. Laboratoire de Biométrie et Biologie Evolutive) ;
Waidele, Lena (University of Freiburg. Department of Evolutionary Biology and Ecology) ;
Kozeretska, Iryna (The European Drosophila Population Genomics Consortium) ;
Pasyukova, Elena G. (The European Drosophila Population Genomics Consortium) ;
Loeschcke, Volker (Aarhus University. Department of Bioscience-Genetics, Ecology and Evolution) ;
Pascual, Marta (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
Vieira, Cristina P. (The European Drosophila Population Genomics Consortium) ;
Serga, Svitlana (Taras Shevchenko National University of Kyiv. General and Medical Genetics Department) ;
Montchamp-Moreau, Catherine (The European Drosophila Population Genomics Consortium) ;
Abbott, Jessica (Lund University. Department of Biology) ;
Gibert, Patricia (Université Lyon 1. Laboratoire de Biométrie et Biologie Evolutive) ;
Porcelli, Damiano (The European Drosophila Population Genomics Consortium) ;
Posnien, Nico (Universität Göttingen. Johann-Friedrich-Blumenbach-Institut für Zoologie und Anthropologie) ;
Sánchez-Gracia, Alejandro (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
Grath, Sonja (The European Drosophila Population Genomics Consortium) ;
Sucena, Élio (Universidade de Lisboa. Departamento de Biologia Animal) ;
Bergland, Alan O. (University of Virginia. Department of Biology) ;
García Guerreiro, María Pilar (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Onder, Banu Sebnem (Hacettepe University. Department of Biology) ;
Argyridou, Eliza (The European Drosophila Population Genomics Consortium) ;
Guio, Lain (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Schou, Mads Fristrup (Lund University. Department of Biology) ;
Deplancke, Bart (The European Drosophila Population Genomics Consortium) ;
Vieira, Cristina (Université Lyon 1. Laboratoire de Biométrie et Biologie Evolutive) ;
Ritchie, Michael G. (University of St. Andrews. Centre for Biological Diversity) ;
Zwaan, Bas J. (Wageningen University. Department of Plant Sciences) ;
Tauber, Eran (University of Haifa. Department of Evolutionary and Environmental Biology) ;
Orengo, Dorcas J. (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
Puerma, Eva (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
Aguadé, Montserrat (Universitat de Barcelona. Departament de Genètica, Microbiologia i Estadística) ;
Schmidt, Paul (University of Pennsylvania. Department of Biology) ;
Parsch, John (Ludwig-Maximilians-Universität München. Division of Evolutionary Biology) ;
Betancourt, Andrea J. (University of Liverpool. Department of Evolution, Ecology, and Behaviour) ;
Flatt, Thomas (University of Fribourg. Department of Biology) ;
González, Josefa (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona))
Genetic variation is the fuel of evolution, with standing genetic variation especially important for short-term evolution and local adaptation. To date, studies of spatiotemporal patterns of genetic variation in natural populations have been challenging, as comprehensive sampling is logistically difficult, and sequencing of entire populations costly. [...]
2020 - 10.1093/molbev/msaa120
Molecular biology and evolution, Vol. 37, issue 9 (Sep. 2020) , p. 2661-2678
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9.
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13 p, 460.4 KB |
Modularity in Protein Evolution : Modular Organization and De Novo Domain Evolution in Mollusk Metallothioneins
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Calatayud, Sara (Universitat de Barcelona) ;
García-Risco, Mario (Universitat Autònoma de Barcelona. Departament de Química) ;
Pedrini-Martha, Veronika (University of Innsbruck) ;
Eernisse, Douglas J. (California State University Fullerton) ;
Dallinger, Reinhard (University of Innsbruck) ;
Palacios Bonilla, Òscar (Universitat Autònoma de Barcelona. Departament de Química) ;
Capdevila Vidal, Mercè (Universitat Autònoma de Barcelona. Departament de Química) ;
Albalat, Ricard (Universitat de Barcelona)
Metallothioneins (MTs) are proteins devoted to the control of metal homeostasis and detoxification, and therefore, MTs have been crucial for the adaptation of the living beings to variable situations of metal bioavailability. [...]
2021 - 10.1093/molbev/msaa230
Molecular biology and evolution, Vol. 38, Issue 2 (February 2021) , p. 424-436
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10.
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13 p, 1.5 MB |
Plasmodium vivax Malaria viewed through the lens of an eradicated European strain
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van Dorp, Lucy (University College London. UCL Genetics Institute (UK)) ;
Gelabert Xirinachs, Pere (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Rieux, Adrien (Coopération Internationale en Recherche Agronomique pour le Développement (France)) ;
de Manuel, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
de-Dios, Toni (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Gopalakrishnan, Shyam (University of Copenhagen. The GLOBE Institute (Denmark)) ;
Carøe, Christian (University of Copenhagen. The GLOBE Institute (Denmark)) ;
Sandoval Velasco, Marcela (University of Copenhagen. The GLOBE Institute (Denmark)) ;
Fregel, Rosa (Universidad de La Laguna. Departamento de Bioquímica, Microbiología, Biología Celular y Genética) ;
Olalde, Iñigo (Harvard Medical School. Department of Genetics (USA)) ;
Escosa, Raúl (Consorci de Polítiques Ambientals de les Terres de l'Ebre) ;
Aranda Pallero, Carles (Consell Comarcal del Baix Llobregat. Servei de Control de Mosquits) ;
Huijben, Silvie (Barcelona Institute for Global Health (ISGlobal)) ;
Mueller, Ivo (Barcelona Institute for Global Health (ISGlobal)) ;
Marques-Bonet, Tomas, 1975- (Institut Català de Paleontologia Miquel Crusafont) ;
Balloux, François (University College London. UCL Genetics Institute (UK)) ;
Gilbert, M. Thomas P. (University of Copenhagen. The GLOBE Institute (Denmark)) ;
Lalueza-Fox, Carles (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona))
The protozoan Plasmodium vivax is responsible for 42% of all cases of malaria outside Africa. The parasite is currently largely restricted to tropical and subtropical latitudes in Asia, Oceania, and the Americas. [...]
2020 - 10.1093/molbev/msz264
Molecular biology and evolution, Vol. 37, Issue 3 (March 2020) , p. 773-785
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