Literatura académica sobre el tema "Nucleocytoviricota"
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Artículos de revistas sobre el tema "Nucleocytoviricota"
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Aylward, Frank O., Mohammad Moniruzzaman, Anh D. Ha y Eugene V. Koonin. "A phylogenomic framework for charting the diversity and evolution of giant viruses". PLOS Biology 19, n.º 10 (27 de octubre de 2021): e3001430. http://dx.doi.org/10.1371/journal.pbio.3001430.
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Large DNA viruses of the phylum Nucleocytoviricota have recently emerged as important members of ecosystems around the globe that challenge traditional views of viral complexity. Numerous members of this phylum that cannot be classified within established families have recently been reported, and there is presently a strong need for a robust phylogenomic and taxonomic framework for these viruses. Here, we report a comprehensive phylogenomic analysis of the Nucleocytoviricota, present a set of giant virus orthologous groups (GVOGs) together with a benchmarked reference phylogeny, and delineate a hierarchical taxonomy within this phylum. We show that the majority of Nucleocytoviricota diversity can be partitioned into 6 orders, 32 families, and 344 genera, substantially expanding the number of currently recognized taxonomic ranks for these viruses. We integrate our results within a taxonomy that has been adopted for all viruses to establish a unifying framework for the study of Nucleocytoviricota diversity, evolution, and environmental distribution.
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Gaïa, Morgan y Patrick Forterre. "From Mimivirus to Mirusvirus: The Quest for Hidden Giants". Viruses 15, n.º 8 (17 de agosto de 2023): 1758. http://dx.doi.org/10.3390/v15081758.
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Our perception of viruses has been drastically evolving since the inception of the field of virology over a century ago. In particular, the discovery of giant viruses from the Nucleocytoviricota phylum marked a pivotal moment. Their previously concealed diversity and abundance unearthed an unprecedented complexity in the virus world, a complexity that called for new definitions and concepts. These giant viruses underscore the intricate interactions that unfold over time between viruses and their hosts, and are themselves suspected to have played a significant role as a driving force in the evolution of eukaryotes since the dawn of this cellular domain. Whether they possess exceptional relationships with their hosts or whether they unveil the actual depths of evolutionary connections between viruses and cells otherwise hidden in smaller viruses, the attraction giant viruses exert on the scientific community and beyond continues to grow. Yet, they still hold surprises. Indeed, the recent identification of mirusviruses connects giant viruses to herpesviruses, each belonging to distinct viral realms. This discovery substantially broadens the evolutionary landscape of Nucleocytoviricota. Undoubtedly, the years to come will reveal their share of surprises.
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de Souza, Fernanda Gil, Jônatas Santos Abrahão y Rodrigo Araújo Lima Rodrigues. "Comparative Analysis of Transcriptional Regulation Patterns: Understanding the Gene Expression Profile in Nucleocytoviricota". Pathogens 10, n.º 8 (24 de julio de 2021): 935. http://dx.doi.org/10.3390/pathogens10080935.
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The nucleocytoplasmic large DNA viruses (NCLDV) possess unique characteristics that have drawn the attention of the scientific community, and they are now classified in the phylum Nucleocytoviricota. They are characterized by sharing many genes and have their own transcriptional apparatus, which provides certain independence from their host’s machinery. Thus, the presence of a robust transcriptional apparatus has raised much discussion about the evolutionary aspects of these viruses and their genomes. Understanding the transcriptional process in NCLDV would provide information regarding their evolutionary history and a better comprehension of the biology of these viruses and their interaction with hosts. In this work, we reviewed NCLDV transcription and performed a comparative functional analysis of the groups of genes expressed at different times of infection of representatives of six different viral families of giant viruses. With this analysis, it was possible to observe a temporal profile of their gene expression and set of genes activated in specific phases throughout the multiplication cycle as a common characteristic of this group. Due to the lack of information regarding the transcriptional regulation process of this group of pathogens, we sought to provide information that contributes to and opens up the field for transcriptional studies of other viruses belonging to Nucleocytoviricota.
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Rodrigues, Rodrigo AL, Fernanda G. de Souza, Bruna L. de Azevedo, Lorena CF da Silva y Jônatas S. Abrahão. "The morphogenesis of different giant viruses as additional evidence for a common origin of Nucleocytoviricota". Current Opinion in Virology 49 (agosto de 2021): 102–10. http://dx.doi.org/10.1016/j.coviro.2021.05.004.
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Ruiz Martínez, Eliana, Dean A. Mckeown, Declan C. Schroeder, Gunnar Thuestad, Kjersti Sjøtun, Ruth-Anne Sandaa, Aud Larsen y Ingunn Alne Hoell. "Phaeoviruses Present in Cultured and Natural Kelp Species, Saccharina latissima and Laminaria hyperborea (Phaeophyceae, Laminariales), in Norway". Viruses 15, n.º 12 (28 de noviembre de 2023): 2331. http://dx.doi.org/10.3390/v15122331.
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Phaeoviruses (Phycodnaviridae) are large icosahedral viruses in the phylum Nucleocytoviricota with dsDNA genomes ranging from 160 to 560 kb, infecting multicellular brown algae (Phaeophyceae). The phaeoviral host range is broader than expected, not only infecting algae from the Ectocarpales but also from the Laminariales order. However, despite phaeoviral infections being reported globally, Norwegian kelp species have not been screened. A molecular analysis of cultured and wild samples of two economically important kelp species in Norway (Saccharina latissima and Laminaria hyperborea) revealed that phaeoviruses are recurrently present along the Norwegian coast. We found the viral prevalence in S. latissima to be significantly higher at the present time compared to four years ago. We also observed regional differences within older samples, in which infections were significantly lower in northern areas than in the south or the fjords. Moreover, up to three different viral sequences were found in the same algal individual, one of which does not belong to the Phaeovirus genus and has never been reported before. This master variant therefore represents a putative new member of an unclassified phycodnavirus genus.
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de Oliveira, Ellen Gonçalves, João Victor Rodrigues Pessoa Carvalho, Bruna Barbosa Botelho, Clécio Alonso da Costa Filho, Lethícia Ribeiro Henriques, Bruna Luiza de Azevedo y Rodrigo Araújo Lima Rodrigues. "Giant Viruses as a Source of Novel Enzymes for Biotechnological Application". Pathogens 11, n.º 12 (1 de diciembre de 2022): 1453. http://dx.doi.org/10.3390/pathogens11121453.
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The global demand for industrial enzymes has been increasing in recent years, and the search for new sources of these biological products is intense, especially in microorganisms. Most known viruses have limited genetic machinery and, thus, have been overlooked by the enzyme industry for years. However, a peculiar group of viruses breaks this paradigm. Giant viruses of the phylum Nucleocytoviricota infect protists (i.e., algae and amoebae) and have complex genomes, reaching up to 2.7 Mb in length and encoding hundreds of genes. Different giant viruses have robust metabolic machinery, especially those in the Phycodnaviridae and Mimiviridae families. In this review, we present some peculiarities of giant viruses that infect protists and discuss why they should be seen as an outstanding source of new enzymes. We revisited the genomes of representatives of different groups of giant viruses and put together information about their enzymatic machinery, highlighting several genes to be explored in biotechnology involved in carbohydrate metabolism, DNA replication, and RNA processing, among others. Finally, we present additional evidence based on structural biology using chitinase as a model to reinforce the role of giant viruses as a source of novel enzymes for biotechnological application.
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Claverie, Jean-Michel. "Fundamental Difficulties Prevent the Reconstruction of the Deep Phylogeny of Viruses". Viruses 12, n.º 10 (6 de octubre de 2020): 1130. http://dx.doi.org/10.3390/v12101130.
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The extension of virology beyond its traditional medical, veterinary, or agricultural applications, now called environmental virology, has shown that viruses are both the most numerous and diverse biological entities on Earth. In particular, virus isolations from unicellular eukaryotic hosts (heterotrophic and photosynthetic protozoans) revealed numerous viral types previously unexpected in terms of virion structure, gene content, or mode of replication. Complemented by large-scale metagenomic analyses, these discoveries have rekindled interest in the enigma of the origin of viruses, for which a description encompassing all their diversity remains not available. Several laboratories have repeatedly tackled the deep reconstruction of the evolutionary history of viruses, using various methods of molecular phylogeny applied to the few shared “core” genes detected in certain virus groups (e.g., the Nucleocytoviricota). Beyond the practical difficulties of establishing reliable homology relationships from extremely divergent sequences, I present here conceptual arguments highlighting several fundamental limitations plaguing the reconstruction of the deep evolutionary history of viruses, and even more the identification of their unique or multiple origin(s). These arguments also underline the risk of establishing premature high level viral taxonomic classifications. Those limitations are direct consequences of the random mechanisms governing the reductive/retrogressive evolution of all obligate intracellular parasites.
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Kukovetz, Kerri, Brigitte Hertel, Christopher R. Schvarcz, Andrea Saponaro, Mirja Manthey, Ulrike Burk, Timo Greiner et al. "A Functional K+ Channel from Tetraselmis Virus 1, a Member of the Mimiviridae". Viruses 12, n.º 10 (29 de septiembre de 2020): 1107. http://dx.doi.org/10.3390/v12101107.
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Potassium ion (K+) channels have been observed in diverse viruses that infect eukaryotic marine and freshwater algae. However, experimental evidence for functional K+ channels among these alga-infecting viruses has thus far been restricted to members of the family Phycodnaviridae, which are large, double-stranded DNA viruses within the phylum Nucleocytoviricota. Recent sequencing projects revealed that alga-infecting members of Mimiviridae, another family within this phylum, may also contain genes encoding K+ channels. Here we examine the structural features and the functional properties of putative K+ channels from four cultivated members of Mimiviridae. While all four proteins contain variations of the conserved selectivity filter sequence of K+ channels, structural prediction algorithms suggest that only two of them have the required number and position of two transmembrane domains that are present in all K+ channels. After in vitro translation and reconstitution of the four proteins in planar lipid bilayers, we confirmed that one of them, a 79 amino acid protein from the virus Tetraselmis virus 1 (TetV-1), forms a functional ion channel with a distinct selectivity for K+ over Na+ and a sensitivity to Ba2+. Thus, virus-encoded K+ channels are not limited to Phycodnaviridae but also occur in the members of Mimiviridae. The large sequence diversity among the viral K+ channels implies multiple events of lateral gene transfer.
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Kyndt, Elliot C. y John A. Kyndt. "Illumina Short-Read Sequencing of the Mitogenomes of Novel Scarites subterraneus Isolates Allows for Taxonomic Refinement of the Genus Scarites Fabricius 1775, within the Carabidae Family". Insects 13, n.º 2 (11 de febrero de 2022): 190. http://dx.doi.org/10.3390/insects13020190.
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We sequenced the complete mitogenomes, 18S and 28S rRNA of two new Scarites isolates, collected in Eastern Nebraska and Northern Arkansas (US). Based on molecular sequence data comparison and morphological characteristics, the new isolates were identified as a subspecies of Scarites subterraneus Fabricius 1775, for which we propose the subspecies names ‘nebraskensis’ and ‘arkansensis’. The new 18S and 28S rRNA sequences were found to be 99% and 98% identical to Scarites subterraneus. There are no other Scarites 18S or 28S rRNA sequences in the Genbank database, however, phylogenetic analysis of the Cox1 genes showed S. vicinus Chaudoir, 1843, and S. aterrimus Morawitz, 1863, as the closest relatives. This is the first report of a mitogenome for S. subterraneus, and only the second mitogenome for that genus. The nucleotide sequence identity between the mitogenomes of the two isolates is 98.8%, while the earlier sequenced S. buparius Forster 1771 mitogenome is more distantly related, with only 90% (to ssp. nebraskensis) and 89% (to ssp. arkansensis) overall nucleotide sequence identity. These new mitogenomes, and their phylogenetic analysis, firmly establish the position of Scarites on the Carabidae family tree and further refine the genus. In addition to the molecular data provided for the Scarites species, this approach also allowed us to identify bacterial and viral signatures for Providencia, Myroides, Spiroplasma, and a giant Nucleocytoviricota virus, associated with the Scarites species. We hereby present a simple and efficient protocol for identification and phylogenetic analysis of Scarites, that is applicable to other Coleoptera, based on total DNA extraction and Illumina short-read Next-Gen sequencing.
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Bernadus, Janno Berty Bradly, Jantje Pelealu, Grace Debbie Kandou, Arthur Gehart Pinaria, Juliet Merry Eva Mamahit y Trina Ekawati Tallei. "Metagenomic Insight into the Microbiome and Virome Associated with Aedes aegypti Mosquitoes in Manado (North Sulawesi, Indonesia)". Infectious Disease Reports 15, n.º 5 (11 de septiembre de 2023): 549–63. http://dx.doi.org/10.3390/idr15050054.
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The aim of this study was to investigate the microbial diversity encompassing bacteria, fungi, and viruses within the composite microbial community associated with Aedes aegypti mosquitoes in Manado, Indonesia, using a whole-genome shotgun metagenomics approach. Female mosquitoes were collected and grouped into pools of 50 individuals, from which genomic DNA (gDNA) and RNA were extracted separately. Whole-genome shotgun metagenomics were performed on gDNA samples. The bioinformatics analysis encompassed quality assessment, taxonomic classification, and visualization. The evaluation of the microbial community entailed an assessment of taxa abundance and diversity using Kraken version 2.1.2. The study delineated the prevalence of dominant bacterial phyla, including Proteobacteria, with varying abundance of Firmicutes, Bacteroidota, and Actinobacteria, and notable occurrence of Tenericutes. Furthermore, the presence of the fungal phylum Ascomycota was also detected. Among the identified barcodes, Barcode04 emerged as the most abundant and diverse, while Barcode06 exhibited greater evenness. Barcode03, 05, and 07 displayed moderate richness and diversity. Through an analysis of the relative abundance, a spectrum of viruses within Ae. aegypti populations was unveiled, with Negarnaviricota constituting the most prevalent phylum, followed by Nucleocytoviricota, Uroviricota, Artverviricota, Kitrinoviricota, Peploviricota, Phixviricota, and Cossaviricota. The presence of Negarnaviricota viruses raises pertinent public health concerns. The presence of other viral phyla underscores the intricate nature of virus–mosquito interactions. The analysis of viral diversity provides valuable insights into the range of viruses carried by Ae. aegypti. The community exhibits low biodiversity, with a few dominant species significantly influencing its composition. This has implications for healthcare and ecological management, potentially simplifying control measures but also posing risks if the dominant species are harmful. This study enriches our comprehension of the microbiome and virome associated with Ae. aegypti mosquitoes, emphasizing the importance of further research to fully comprehend their ecological significance and impact on public health. The findings shed light on the microbial ecology of Ae. aegypti, offering potential insights into mosquito biology, disease transmission, and strategies for vector control. Future studies should endeavor to establish specific associations with Ae. aegypti, elucidate the functional roles of the identified microbial and viral species, and investigate their ecological implications.
Tesis sobre el tema "Nucleocytoviricota"
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Chase, Emily. "PHYCOVIR : diversity and dynamics of viruses in a high-density microalgae culture". Electronic Thesis or Diss., Aix-Marseille, 2021. http://www.theses.fr/2021AIXM0554.
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Ce travail de thèse a été consacrée à l'étude d'un bassin de culture de microalgues (HRAP) avec l'objectif d'examiner les épisodes de mortalité massive, dont la cause est inconnue. Nous avons testé l'hypothèse que des virus de microalgues pourraient être responsables. Cette étude représente la première tentative d'exploration de la diversité virale dans un HRAP, en même temps que la collecte de données des hôtes potentiels grâce au métabarcodage 18S. L’analyse bioinformatique de métagénomes a permis d’identifier des virus présents dans le HRAP, et la dynamique de leurs populations a été suivie par (RT)-qPCR sur une série d'échantillons d'eau prélevés sur deux ans de culture. Ces virus appartiennent à la famille Marnaviridae (Ordre des Picornavirales ; virus à ARN), les Nucleocytoviricota de la famille Phycodnaviridae et de la famille Mimiviridae, un membre de la famille Lavidaviridae (virophage), et les « polinton-like viruses » (PLVs), tous ayant des associations connues avec les microalgues. Le dernier chapitre de la thèse décrit une étude bioinfomatique des séquences génomiques d’algues vertes unicellulaires du genre Tetraselmis qui a permis d’identifier et de caractériser des formes virales intégrées (i.e., ADN viral inséré dans les chromosomes de l’algue) apparentées au virus Tsv-N1, aux PLVs mis en évidence dans le HRAP, ainsi qu’au virus géant TetV-1. Cette analyse étend nos connaissances sur la diversité des virus des Tetraselmis et la complexité des interactions biologiques et évolutives entre ces partenairesThis thesis is devoted to the study of an industrial scale microalgae culturing system, called a high rate algal pond (HRAP), situated in Palavas-les-Flots, France. The objective of the study was to investigate culture crashes (i.e. microalgae die-offs) occurring in the HRAP, of which the source is unknown. We hypothesized that microalgal viruses were contained within the culture, and could potentially cause or contribute to the microalgae die-offs. We assessed the viral diversity by sequencing both RNA and DNA viromes. Using in silico analyses, putative viruses were identified in the HRAP, and tracked over a series of water samples taken over two years of culturing by (RT)-qPCR methods. A number of putative viruses of microalgae were uncovered. These include key players such as family Marnaviridae, families Phycodnaviridae and Mimiviridae (so-called “giant viruses”), a member of family Lavidaviridae (i.e. a virophage), and polinton-like viruses (PLVs), all with known associations to microalgae. An in-depth exploration of these key players was conducted, and host inferences were made using 18S metabarcoding, coupled with dynamics data from our (RT)-qPCR approach. The results are a comprehensive look at HRAP viruses. Finally, the thesis describes a bioinformatic study of the genomic sequences of unicellular green algae of the genus Tetraselmis to identify and characterize integrated viral forms related to the Tsv-N1 virus, to the PLVs identified in the HRAP, and to the giant TetV-1 virus. This analysis extends our knowledge on the diversity of Tetraselmis viruses
Capítulos de libros sobre el tema "Nucleocytoviricota"
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Xian, Yuejiao y Chuan Xiao. "Current capsid assembly models of icosahedral nucleocytoviricota viruses". En Virus Assembly and Exit Pathways, 275–313. Elsevier, 2020. http://dx.doi.org/10.1016/bs.aivir.2020.09.006.
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