Browsing by Author "Kondrashov, Fyodor A., 1979-"

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  • Koblik, Evgeny A.; Red'kin, Yaroslav A.; Meer, Margarita V., 1986-; Derelle, Romain; Golenkina, Sofia A.; Kondrashov, Fyodor A., 1979-; Arkhipov, Vladimir Y. (Public Library of Science (PLoS), 2011)
    Recent discovery of the Large-billed Reed Warbler (Acrocephalus orinus) in museums and in the wild significantly expanded our knowledge of its morphological traits and genetic variability, and revealed new data on geographical ...
  • Pokusaeva, Victoria O.; Usmanova, Dinara R.; Putintseva, Ekaterina V.; Espinar, Lorena; Sarkisyan, Karen S.; Mishin, Alexander S.; Bogatyreva, Natalya S.; Ivankov, Dmitry N.; Akopyan, Arseniy V.; Avvakumov, Sergey Ya; Povolotskaya, Inna, 1986-; Filion, Guillaume; Carey, Lucas, 1980-; Kondrashov, Fyodor A., 1979- (Public Library of Science (PLoS), 2019)
    Characterizing the fitness landscape, a representation of fitness for a large set of genotypes, is key to understanding how genetic information is interpreted to create functional organisms. Here we determined the ...
  • Derelle, Romain; Kondrashov, Fyodor A., 1979-; Arkhipov, Vladimir Y.; Corbel, Hélène; Frantz, Adrien; Gasparini, Julien; Jacquin, Lisa; Jacob, Gwenaël; Thibault, Sophie; Baudry, Emmanuelle (BioMed Central, 2013)
    Genetic variation at the melanocortin-1 receptor (MC1R) gene is correlated with melanin color variation in many birds. Feral pigeons (Columba livia) show two major melanin-based colorations: a red coloration due to pheomelanic ...
  • Povolotskaya, Inna, 1986- (Universitat Pompeu Fabra, 2015-02-16)
    Se ha predicho teóreticamente que la epistasis, es decir, las interacciones genéticas entre diferentes mutaciones, cumple un rol sustancial en procesos evolutivos, tales como la emergencia de la reproducción sexual, la ...
  • Söylemez, Onuralp, 1985-; Kondrashov, Fyodor A., 1979- (Oxford University Press, 2012)
    Whether or not evolutionary change is inherently irreversible remains a controversial topic. Some examples of evolutionary irreversibility are known; however, this question has not been comprehensively addressed at the ...
  • Bello, Carla, 1990- (Universitat Pompeu Fabra, 2017-12-15)
    La identificación de elementos funcionales en el genoma no-codificante continúa siendo una tarea desafiante. La genómica comparativa puede ayudarnos a entender como estos elementos han evolucionado y cuáles son sus posibles ...
  • Meer, Margarita V., 1986- (Universitat Pompeu Fabra, 2015-12-09)
    Fitness landscape is a concept, which describes the dependence of phenotype on genotype. It was proposed almost a hundred years ago but only recent burst of technologies finally allowed exploring it. We studied different ...
  • Rivkina, Elizaveta; Petrovskaya, Lada; Vishnivetskaya, Tatiana; Krivushin, Kirill; Shmakova, Lyubov; Tutukina, Maria; Meyers, Arthur; Kondrashov, Fyodor A., 1979- (European Geosciences Union (EGU), 2016)
    A comparative analysis of the metagenomes from two 30 000-year-old permafrost samples, one of lake-alluvial origin and the other from late Pleistocene Ice Complex sediments, revealed significant differences within microbial ...
  • Zapata Ortiz, Luis, 1985-; Pich, Oriol; Serrano Pubull, Luis, 1982-; Kondrashov, Fyodor A., 1979-; Ossowski, Stephan; Schaefer, Martin H. (BioMed Central, 2018)
    Background: Natural selection shapes cancer genomes. Previous studies used signatures of positive selection to identify genes driving malignant transformation. However, the contribution of negative selection against somatic ...
  • Söylemez, Onuralp, 1985- (Universitat Pompeu Fabra, 2015-10-09)
    The role of epistasis – inter-dependent contributions of alleles to fitness – in shaping genetic variation within and between populations is an important question in evolutionary biology with significant implications for ...
  • Kondrashov, Alexey S.; Povolotskaya, Inna, 1986-; Ivankov, Dmitry N.; Kondrashov, Fyodor A., 1979- (BioMed Central, 2010)
    BACKGROUND: Divergence of two independently evolving sequences that originated from a common ancestor can be described by two parameters, the asymptotic level of divergence E and the rate r at which this level of divergence ...
  • Arkhipova, Oksana V.; Meer, Margarita V., 1986-; Mikoulinskaia, Galina V.; Zakharova, Marina V.; Galushko, Alexander S.; Akimenko, Vasilii K.; Kondrashov, Fyodor A., 1979- (Public Library of Science (PLoS), 2015)
    The origin and evolution of novel biochemical functions remains one of the key questions in molecular evolution. We study recently emerged methacrylate reductase function that is thought to have emerged in the last century ...
  • Saint-Léger, Adélaïde; Bello Cabrera, Carla; Dans, Pablo D.; Gabriel Torres, Adrian; Novoa, Eva Maria; Camacho, Noelia; Orozco, Modesto; Kondrashov, Fyodor A., 1979-; Ribas de Pouplana, Lluís (American Association for the Advancement of Science (AAAS), 2016)
    Understanding the principles that led to the current complexity of the genetic code is a central question in evolution. Expansion of the genetic code required the selection of new transfer RNAs (tRNAs) with specific ...
  • Usmanova, Dinara R.; Bogatyreva, Natalya S.; Ariño Bernad, Joan; Eremina, Aleksandra A.; Gorshkova, Anastasiya A.; Kanevskiy, German M.; Lonishin, Lyubov R.; Meister, Alexander V.; Yakupova, Alisa G.; Kondrashov, Fyodor A., 1979-; Ivankov, Dmitry N. (Oxford University Press, 2018)
    Motivation: Computational prediction of the effect of mutations on protein stability is used by researchers in many fields. The utility of the prediction methods is affected by their accuracy and bias. Bias, a systematic ...
  • Povolotskaya, Inna, 1986-; Kondrashov, Fyodor A., 1979-; Ledda, Alice; Vlasov, Peter K. (BioMed Central, 2012)
    Background: The evolution and genomic stop codon frequencies have not been rigorously studied with the exception of coding of non-canonical amino acids. Here we study the rate of evolution and frequency distribution of ...
  • Howe, Kerstin; Schiffer, Philipp H.; Zielinski, Julia; Wiehe, Thomas; Laird, Gavin K.; Marioni, John C.; Söylemez, Onuralp, 1985-; Kondrashov, Fyodor A., 1979-; Leptin, Maria (Royal Society, 2016)
    Multicellular eukaryotes have evolved a range of mechanisms for immune recognition. A widespread family involved in innate immunity are the NACHT-domain and leucine-rich-repeat-containing (NLR) proteins. Mammals have small ...
  • Moroz, Leonid L.; Povolotskaya, Inna, 1986-; Derelle, Romain; Kondrashov, Fyodor A., 1979-; Kohn, Andrea B. (Nature Publishing Group, 2014)
    The origins of neural systems remain unresolved. In contrast to other basal metazoans, ctenophores (comb jellies) have both complex nervous and mesoderm-derived muscular systems. These holoplanktonic predators also have ...
  • Antipov, Sergey S.; Tutukina, Maria; Preobrazhenskaya, Elena V.; Kondrashov, Fyodor A., 1979-; Patrushev, Maksim Vladimirovich; Toshchakov, Stepan; Dominova, Irina N.; Shvyreva, Uliana S.; Vrublevskaya, Veronika V.; Morenkov, Oleg S.; Sukharicheva, Natalya A.; Panyukov, Valeriy V.; Ozoline, Olga N. (Public Library of Science (PLoS), 2017)
    Dps is a multifunctional homododecameric protein that oxidizes Fe2+ ions accumulating them in the form of Fe2O3 within its protein cavity, interacts with DNA tightly condensing bacterial nucleoid upon starvation and performs ...
  • Krivushin, Kirill; Kondrashov, Fyodor A., 1979-; Shmakova, Lyubov; Tutukina, Maria; Petrovskaya, Lada; Rivkina, Elizaveta (American Society for Microbiology, 2015)
    The present study reports metagenomic shotgun sequencing of microbial communities of two ancient permafrost horizons of the Russian Arctic. Results demonstrate a significant difference in microbial community structure of ...