Browsing by Author "Kuderna, Lukas F.K."

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  • Kuderna, Lukas F.K.; Laayouni, Hafid, 1968-; García Pérez, Raquel, 1989-; Povolotskaya, Inna, 1986-; Serres Armero, Aitor, 1992-; Gómez Garrido, Jèssica; Alioto, Tyler; Navarro i Cuartiellas, Arcadi, 1969-; Bertranpetit, Jaume, 1952-; Marquès i Bonet, Tomàs, 1975- (Oxford University Press, 2017)
    The chimpanzee is arguably the most important species for the study of human origins. A key resource for these studies is a high-quality reference genome assembly; however, as with most mammalian genomes, the current ...
  • Zoonomia Consortium; Serres Armero, Aitor, 1992-; Juan, David; Kuderna, Lukas F.K.; Marquès i Bonet, Tomàs, 1975- (Nature Research, 2020)
    The Zoonomia Project is investigating the genomics of shared and specialized traits in eutherian mammals. Here we provide genome assemblies for 131 species, of which all but 9 are previously uncharacterized, and describe ...
  • Palmada Flores, Marc; Orkin, Joseph D.; Haase, Bettina; Mountcastle, Jacquelyn; Bertelsen, Mads F.; Fedrigo, Olivier; Kuderna, Lukas F.K.; Jarvis, Erich D.; Marquès i Bonet, Tomàs, 1975- (Oxford University Press, 2022)
    Background: The ring-tailed lemur (Lemur catta) is a charismatic strepsirrhine primate endemic to Madagascar. These lemurs are of particular interest, given their status as a flagship species and widespread publicity in ...
  • Boubli, Jean P.; Ruiz-Gartzia, Irune; Kuderna, Lukas F.K.; Marquès i Bonet, Tomàs, 1975-; Roos, Christian (Science Press, 2021)
    The pygmy marmoset, the smallest of the anthropoid primates, has a broad distribution in Western Amazonia. Recent studies using molecular and morphological data have identified two distinct species separated by the Napo ...
  • Sinding, Mikkel Holger S.; Kuderna, Lukas F.K.; Marquès i Bonet, Tomàs, 1975-; Gilbert, M Thomas (American Association for the Advancement of Science (AAAS), 2020)
    Although sled dogs are one of the most specialized groups of dogs, their origin and evolution has received much less attention than many other dog groups. We applied a genomic approach to investigate their spatiotemporal ...
  • de Manuel, Marc; Kuhlwilm, Martin; Sousa, Victor C.; Prado Martínez, Javier, 1987-; Hernández Rodríguez, Jéssica, 1983-; Dupanloup, Isabelle; Lao Grueso, Oscar, 1976-; Heredia Genestar, José María, 1985-; Kuderna, Lukas F.K.; Casals López, Ferran; Angedakin, Samuel; Arandjelovic, Mimi; Boesch, Christophe; Kühl, Hjalmar S.; Vigilant, Linda; Navarro i Cuartiellas, Arcadi, 1969-; Excoffier, Laurent; Marquès i Bonet, Tomàs, 1975- (American Association for the Advancement of Science (AAAS), 2016)
    Our closest living relatives, chimpanzees and bonobos, have a complex demographic history. We analyzed the high-coverage whole genomes of 75 wild-born chimpanzees and bonobos from 10 countries in Africa. We found that ...
  • Warren, Wesley C.; García Pérez, Raquel, 1989-; Xu, Sen; Lampert, Kathrin P.; Chapolin, Domitille; Stöck, Matthias; Loewe, Laurence; Lu, Yuan; Kuderna, Lukas F.K.; Minx, Patrick; Montague, Michael J.; Tomlinson, Chad; Hillier, LeDeana W.; Murphy, Daniel N.; Wang, John; Wang, Zhongwei; Macias Garcia, Constantino; Thomas, Gregg C. W.; Volff, Jean-Nicolas; Farias, Fabiana; Aken, Bronwen; Walter, Ronald B.; Pruitt, Kim D.; Marquès i Bonet, Tomàs, 1975-; Hahn, Matthew W.; Kneitz, Susanne; Lynch, Michael; Schartl, Manfred (Nature Publishing Group, 2018)
    The extreme rarity of asexual vertebrates in nature is generally explained by genomic decay due to absence of meiotic recombination, thus leading to extinction of such lineages. We explore features of a vertebrate asexual ...
  • Mak, Sarah Siu Tze; Gopalakrishnan, Shyam; Carøe, Christian; Geng, Chunyu; Liu, Shanlin; Sinding, Mikkel Holger S.; Kuderna, Lukas F.K.; Zhang, Wenwei; Fu, Shujin; Vieira, Filipe Garrett; Germonpré, Mietje; Bocherens, Hervé; Fedorov, Sergey E.; Petersen, Bent; Sicheritz-Ponten, Thomas; Marquès i Bonet, Tomàs, 1975-; Zhang, Guojie; Jiang, Hui; Gilbert, M Thomas (Oxford University Press, 2017)
    Ancient DNA research has been revolutionized following development of next-generation sequencing platforms. Although a number of such platforms have been applied to ancient DNA samples, the Illumina series are the dominant ...
  • Jensen, Axel; Swift, Frances; de Vries, Dorien; Beck, Robin M. D.; Kuderna, Lukas F.K.; Knauf, Sascha; Chuma, Idrissa S.; Keyyu, Julius D.; Kitchener, Andrew C.; Farh, Kyle; Rogers, Jeffrey; Marquès i Bonet, Tomàs, 1975-; Detwiler, Kate M.; Roos, Christian; Guschanski, Katerina (Oxford University Press, 2023)
    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 ...
  • Kuderna, Lukas F.K.; Solís Moruno, Manuel, 1993-; Batlle Masó, Laura, 1993-; Julià, Eva; Lizano González, Esther, 1974-; Anglada Busquets, Roger; Ramírez Bautista, Eva; Bote, Alex; Tormo, Marc; Marquès i Bonet, Tomàs, 1975-; Fornas Carreño, Oscar; Casals López, Ferran (Frontiers Media, 2020)
    Sorting of individual chromosomes by Flow Cytometry (flow-sorting) is an enrichment method to potentially simplify genome assembly by isolating chromosomes from the context of the genome. We have recently developed a ...
  • Dobrynin, Pavel; Kuderna, Lukas F.K.; García Pérez, Raquel, 1989-; de Manuel, Marc; Marquès i Bonet, Tomàs, 1975-; O’Brien, Stephen J. (BioMed Central, 2015)
    BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs ...
  • Dobrynin, Pavel; Liu, Shiping; Tamazian, Gaik; Xiong, Zijun; Yurchenko, Andrey A.; Krasheninnikova, Ksenia; Kliver, Sergey; Schmidt-Küntzel, Anne; Koepfli, Klaus-Peter; Johnson, Warren; Kuderna, Lukas F.K.; García Pérez, Raquel, 1989-; de Manuel, Marc; Godinez, Ricardo; Komissarov, Aleksey; Makunin, Alexey; Brukhin, Vladimir; Qiu, Weilin; Zhou, Long; Li, Fang; Yi, Jian; Driscoll, Carlos; Antunes, Agostinho; Oleksyk, Taras K.; Eizirik, Eduardo; Perelman, Polina; Roelke, Melody; Wildt, David; Diekhans, Mark; Marquès i Bonet, Tomàs, 1975-; Marker, Laurie; Bhak, Jong; Wang, Jun; Zhang, Guojie; O'Brien, Stephen J. (BioMed Central, 2015)
    BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs ...
  • Quesada, Víctor; Kuderna, Lukas F.K.; Marquès i Bonet, Tomàs, 1975-; López Otín, Carlos (Nature Research, 2019)
    Giant tortoises are among the longest-lived vertebrate animals and, as such, provide an excellent model to study traits like longevity and age-related diseases. However, genomic and molecular evolutionary information on ...
  • Kuderna, Lukas F.K.; Valenzuela, Alejandro; Navarro i Cuartiellas, Arcadi, 1969-; Marquès i Bonet, Tomàs, 1975-; Kai-How Farh, Kyle (Nature Research, 2023)
    Noncoding DNA is central to our understanding of human gene regulation and complex diseases1,2, and measuring the evolutionary sequence constraint can establish the functional relevance of putative regulatory elements in ...
  • Alvarez-Estape, Marina; Fontseré Alemany, Clàudia, 1992-; Serres Armero, Aitor, 1992-; Kuderna, Lukas F.K.; Dobrynin, Pavel; Guidara, Héla; Pukazhenthi, Budhan S.; Koepfli, Klaus-Peter; Marquès i Bonet, Tomàs, 1975-; Moreno, Eulalia; Lizano González, Esther, 1974- (Wiley, 2022)
    Captive breeding programmes represent the most intensive type of ex situ population management for threatened species. One example is the Cuvier’s gazelle programme that started in 1975 with only four founding individuals, ...
  • Gopalakrishnan, Shyam; Montero, Marc de Manuel; Kuderna, Lukas F.K.; Serres Armero, Aitor, 1992-; González-Basallote, Víctor Manuel; Marquès i Bonet, Tomàs, 1975-; Gilbert, M Thomas (Elsevier, 2018)
    The evolutionary history of the wolf-like canids of the genus Canis has been heavily debated, especially regarding the number of distinct species and their relationships at the population and species level [1-6]. We assembled ...
  • Tollis, Marc; Robbins, Jooke; Webb, Andrew E.; Kuderna, Lukas F.K.; Caulin, Aleah F.; Garcia, Jacinda D.; Bèrubè, Martine; Pourmand, Nader; Marquès i Bonet, Tomàs, 1975-; O'Connell, Mary J.; Palsbøll, Per J.; Maley, Carlo C. (Oxford University Press, 2019)
    Cetaceans are a clade of highly specialized aquatic mammals that include the largest animals that have ever lived. The largest whales can have ∼1,000× more cells than a human, with long lifespans, leaving them theoretically ...
  • Kuderna, Lukas F.K.; Lizano González, Esther, 1974-; Julià, Eva; Gómez Garrido, Jèssica; Serres Armero, Aitor, 1992-; Kuhlwilm, Martin; Alandes, Regina Antoni; Alvarez-Estape, Marina; Juan, David; Simon, Heath; Alioto, Tyler; Gut, Marta; Gut, Ivo Glynne; Schierup, Mikkel H.; Fornas Carreño, Oscar; Marquès i Bonet, Tomàs, 1975- (Nature Research, 2019)
    Mammalian Y chromosomes are often neglected from genomic analysis. Due to their inherent assembly difficulties, high repeat content, and large ampliconic regions, only a handful of species have their Y chromosome properly ...
  • Serres Armero, Aitor, 1992-; Povolotskaya, Inna, 1986-; Quilez Oliete, Javier; Ramírez, Oscar; Santpere Baró, Gabriel, 1981-; Kuderna, Lukas F.K.; Hernández Rodríguez, Jéssica, 1983-; Fernández Callejo, Marcos; Gómez Sánchez, Daniel; Freedman, Adam H.; Fan, Zhenxin; Novembre, John; Navarro i Cuartiellas, Arcadi, 1969-; Boyko, Adam; Wayne, Robert K.; Vilà, Carles; Lorente-Galdós, Belén, 1981-; Marquès i Bonet, Tomàs, 1975- (BioMed Central, 2017)
    BACKGROUND: Whole genome re-sequencing data from dogs and wolves are now commonly used to study how natural and artificial selection have shaped the patterns of genetic diversity. Single nucleotide polymorphisms, microsatellites ...
  • Orkin, Joseph D.; Kuderna, Lukas F.K.; Marquès i Bonet, Tomàs, 1975- (Annual Reviews Inc, 2021)
    Until now, the field of primate genomics has focused on two major themes: understanding human evolution and advancing biomedical research. We propose that it is now time for a third theme to receive attention: conservation ...

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