• All known archaeal viruses have genomes made of deoxyribonucleic acid (DNA), but some may contain ribonucleic acid (RNA) genomes. (wikipedia.org)
  • We propose to classify the viruses into five genera within the Pleolipoviridae family, with one new genus represented only by virus genomes retrieved in this study. (bvsalud.org)
  • Homology-based reconstruction of regulatory networks for bacterial and archaeal genomes. (openwetware.org)
  • Characterization of promoters in archaeal genomes based on DNA structural parameters. (openwetware.org)
  • Here we characterize a group of marine dsDNA non-tailed viruses with short 10-kb genomes isolated during a study that quantified the diversity of viruses infecting Vibrionaceae bacteria. (elsevierpure.com)
  • We identify DJR viruses in the genomes of diverse major bacterial and archaeal phyla, and in marine water column and sediment metagenomes, and find that their diversity greatly exceeds the diversity that is currently captured by the three recognized families of such viruses. (elsevierpure.com)
  • Assembly is complicated by sequences that may occur repeatedly within strains ("repeats") or shared among similar strains of bacterial and archaeal species, creating "branches" in the assembly graph that precludes accurate representation of individual component genomes, particularly when multiple closely related strains of a species are present in the environment [ 3 ]. (biomedcentral.com)
  • It was worth noting that our study revealed a high abundance of antibiotic resistance genes (ARGs) in viral genomes, suggesting that viruses were key reservoirs of ARGs in AS systems. (biomedcentral.com)
  • With shotgun metagenomic datasets covering an ever widening range of biomes, multiple studies have been conducted with the aim of recovering the genomes of prokaryotes, viruses and more recently eukaryotes 7 . (researchsquare.com)
  • The former includes viruses found in the realms Duplodnaviria and Varidnaviria, which likely have ancient origins preceding the LACA, and the latter includes the realm Adnaviria and all archaeal virus families unassigned to higher taxa, which are thought to have more recent origins from non-viral mobile genetic elements such as plasmids. (wikipedia.org)
  • Archaeal pleomorphic viruses belonging to the Pleolipoviridae family represent an enigmatic group as they exhibit unique genomic features and are thought to have evolved through recombination with different archaeal plasmids. (bvsalud.org)
  • We show that the proposed genus Epsilonpleolipovirus has evolutionary ties to pRN1-like plasmids from Sulfolobus, suggesting that this group could be infecting other archaeal phyla. (bvsalud.org)
  • An archaeal virus is a virus that infects and replicates in archaea, a domain of unicellular, prokaryotic organisms. (wikipedia.org)
  • Some environments, such as acidic hot springs, are almost exclusively populated by archaea, so these environments are highly useful for studying how archaeal viruses interact with their hosts. (wikipedia.org)
  • Since 1990, "archaeal virus" has been the dominant term when describing viruses that infect archaea. (wikipedia.org)
  • More specifically, no archaeal presence was reported with universal bacterial primers, whereas a significant archaea presence and also a wider variety of bacterial species were reported. (bvsalud.org)
  • Overall, these data suggest that viruses of the non-tailed dsDNA DJR lineage are important but often overlooked predators of bacteria and archaea that impose fundamentally different predation and gene transfer regimes on microbial systems than on tailed viruses, which form the basis of all environmental models of bacteria-virus interactions. (elsevierpure.com)
  • iPHoP: A Matchmaker for Phages and their Hosts Building on existing virus-host prediction approaches, a new tool combines and evaluates multiple predictions to reliably match viruses with their archaea and bacteria hosts. (doe.gov)
  • The Biochemical Characterization of Protein DE and Its Interaction with Rat Epididymal Sperm. (ncsu.edu)
  • These limitations include a lack of available tools for biochemical characterization of enzymes involved in glycosylation. (biorxiv.org)
  • Archaeal viruses were originally referred to as "bacteriophages" or simply "phages", terms shared with bacterial viruses. (wikipedia.org)
  • At around the same time as the adoption of archaebacteria as a name, though, archaeal viruses began to be referred to as viruses, not phages. (wikipedia.org)
  • Notably, PD patients had fewer gut viruses, including bacterial and archaeal phages. (alzforum.org)
  • It encodes an extremely large virion-associated RNA polymerase unique for bacterial viruses that became characteristic for this group. (mdpi.com)
  • Little is known about their biological processes, such as how they replicate, but they are believed to have many independent origins, some of which likely predate the last archaeal common ancestor (LACA). (wikipedia.org)
  • The virus capsid serves multiple biological functions including: to protect the viral genome during transit between host cells, and to facilitate attachment and entry of the viral genome to a new host cell. (montana.edu)
  • We demonstrate novel techniques that work synergistically to improve characterization of biological features in a highly complex rumen microbial community. (biomedcentral.com)
  • Virus resistance and intrinsic biocontainment - biological barriers limiting the spread and survival of microorganisms in natural environments - are among today's major unsolved problems in biotechnology. (dissertation.com)
  • This study reveals a new mechanism for the fluid gain of beneficial mutations in genetic regions undergoing active recombination in viruses and illustrates the value of long read sequencing technologies for investigating complex genome dynamics in diverse biological systems. (elifesciences.org)
  • Sulfolobus turreted icosahedral virus (STIV) is well characterized for an archaeal virus. (montana.edu)
  • One of these HDPs has been identified in human 11-hydroxysteroid dehydrogenase-1 β-like, the other represents the first HDP from an archaeal protein, the transcription factor Stf76 encoded by the hybrid plasmid-virus pSSVx from Sulfolobus islandicus. (unina.it)
  • Research areas in archaeal virology include gaining a better understanding of their diversity and learning about their means of replication. (wikipedia.org)
  • Based on this data, a model is proposed for the maturation of the virus capsid from a noninfectious to an infectious form, by dissociation of accessory proteins. (montana.edu)
  • The TSPV1 virion has numerous fibrous extensions from the capsid, of varying length, that are the first observed for any virus. (montana.edu)
  • The capsid 2-3nm fibers likely serve to extend the effective surface area of the virus, facilitating attachment to host cells. (montana.edu)
  • Characterization of this new virus was conducted, including genome sequencing and determination of the protein identity for the capsid fibers. (montana.edu)
  • A large portion of the genes encoded by archaeal viruses have no known function or homology to any other genes. (wikipedia.org)
  • Most yeast ribosomal protein genes are duplicated and their characterization has led to hypotheses regarding the existence of specialized ribosomes with different subunit composition or specifically-tailored functions. (prolekarniky.cz)
  • Carrying and disseminating auxiliary metabolic genes (AMGs) associated with the degradation of polysaccharides, sulfate reduction, denitrification, and organic phosphoester hydrolysis, as well as the lysis of crucial functional microbes that govern biogeochemical cycles were two major ways by which viruses could regulate AS functions. (biomedcentral.com)
  • In addition, viruses have been shown to regulate the metabolic processes of ecosystems by encoding auxiliary metabolic genes (AMGs) [ 11 ]. (biomedcentral.com)
  • Viruses are also considered to be potential reservoirs of antibiotic resistance genes (ARGs) and the delivery agents for horizontal gene transfer (HGT) of ARGs in the environment [ 7 , 12 ]. (biomedcentral.com)
  • By examining environmental samples from the same source, but from locations with different temperatures, bioinformatic analysis revealed dramatic changes in microbial diversity and archaeal abundance. (bvsalud.org)
  • This more comprehensive "metagenomics" approach allows quantification of microbial inhabitants down to the species level, and also accounts for bugs such as viruses and fungi. (alzforum.org)
  • Matters Microbial #18: The Perfect Predator: Why Phage is Rage November 30, 2023 Today Dr. Steffanie Strathdee, Associate Dean of Global Health Sciences at UC San Diego and Co-Director at the Center for Innovative Phage Applications and Therapeutics, will chat with us about how bacteriophages-viruses that attack bacteria-changed her life and are becoming part of our future. (microbe.tv)
  • Activated sludge (AS) systems in wastewater treatment plants (WWTPs) harbor enormous viruses that regulate microbial metabolism and nutrient cycling, significantly influencing the stability of AS systems. (biomedcentral.com)
  • By infecting and lysing host cells, viruses can affect the composition of microbial populations and facilitate the transfer of organic matter from cells to the dissolved organic matter pool via the "viral shunt" [ 9 ], and when consumed by small phagotrophs, viruses facilitate the movement of organic matter into the classical food web, which is called the "viral sweep" [ 10 ]. (biomedcentral.com)
  • Evaluation of 16S rRNA Gene Primer Pairs for Monitoring Microbial Community Structures Showed High Reproducibility within and Low Comparability between Datasets Generated with Multiple Archaeal and Bacterial Primer Pairs. (cdc.gov)
  • Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms. (openwetware.org)
  • Viruses, a group of non-cellular organisms, are the most abundant living entity on Earth, but depend on host cells for their own propagation [ 7 ]. (biomedcentral.com)
  • The first known archaeal virus was described in 1974 and since then, a large diversity of archaeal viruses have been discovered, many possessing unique characteristics not found in other viruses. (wikipedia.org)
  • Much of the diversity observed in archaeal viruses is their morphology. (wikipedia.org)
  • We perform a comprehensive analysis on the diversity and evolutionary relationships of the newly discovered viruses and previously described pleolipoviruses. (bvsalud.org)
  • However, tailed bacterial dsDNA viruses (Caudovirales), which dominate sequence and culture collections, are not representative of the environmental diversity of viruses. (elsevierpure.com)
  • A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks Researchers combed through more than 5,000 data sets of RNA sequences generated from diverse environmental samples around the world, resulting in a five-fold increase of RNA virus diversity. (doe.gov)
  • TWiEVO 95: Watering the viruses until they bloom November 14, 2023 Nels and Vincent discuss how the rewetting of seasonally dried soils, a critical event in Mediterranean grasslands that reactivates dormant soil microorganisms, leading to pulses of carbon and nitrogen mineralization, and is accompanied by a bloom of viral diversity, followed by extensive viral community turnover. (microbe.tv)
  • However, the roles of viruses and the diversity of the viral community are just beginning to be understood in WWTPs. (biomedcentral.com)
  • In order to expand our understanding of how recombination might influence virus variation during the course of adaptation, we focused on large DNA viruses, in which rapidly evolving populations can simultaneously harbor both adaptive gene copy number variation and beneficial single nucleotide variants (SNVs) at the same locus. (elifesciences.org)
  • TWiV 1045: Less Lassa, CRISPR RNA viruses September 17, 2023 TWiV reviews a Lassa virus mRNA vaccine that confers protection against disease without inducing neutralizing antibodies, and a CRISPR-based method for engineering the genome of RNA viruses. (microbe.tv)
  • Genome condensation and packaging are essential processes in the life cycle of viruses. (mdpi.com)
  • Genome Sequence of a Candidate World Health Organization Reference Strain of Zika Virus for Nucleic Acid Testing. (cdc.gov)
  • A simpler alternative to zinc fingers emerged with the characterisation of transcription activator-like effectors (TALEs) in plant pathogenic bacteria of the genus Xanthomonas. (ddw-online.com)
  • Analyses of the host range revealed that all but one virus exhibit an extremely narrow range, and we show that the predicted tertiary structure of the spike protein is strongly associated with the host family, suggesting a specific adaptation to the host S-layer glycoprotein organization. (bvsalud.org)
  • Soil Virus Offers Insight into Maintaining Microorganisms Through a collaborative effort, researchers have identified a protein in soil viruses that may promote soil health. (doe.gov)
  • Characterization of DNA binding, transcriptional activation, and regulated nuclear association of recombinant human NFATp. (colorado.edu)
  • The most abundant viruses on Earth are thought to be double-stranded DNA (dsDNA) viruses that infect bacteria. (elsevierpure.com)
  • In oceans, archaeal viruses are believed to play a major role in recycling nutrients, especially at the bottom of the ocean where they are a major cause of death. (wikipedia.org)
  • Ecologically, members of the Autolykiviridae have a broad host range, killing on average 34 hosts in four Vibrio species, in contrast to tailed viruses which kill on average only two hosts in one species. (elsevierpure.com)
  • Viral lysis of host microbes and virus-mediated HGT can regulate the biogeochemical and nutrient cycles, thus affecting the performance of AS systems. (biomedcentral.com)
  • Further molecular characterization determined that these isolates all contained staphylococcal cassette chromosome (SCC) mec V, were negative for Panton-Valentine leukocidin, and were closely related by macrorestriction analysis with the restriction enzyme Cfr91 . (cdc.gov)
  • We performed experimental evolution with vaccinia virus populations harboring a SNV in a gene actively undergoing copy number amplification. (elifesciences.org)
  • Biochemical and physical characterization of autolykiviruses reveals multiple virion features that cause systematic loss of DJR viruses in sequencing and culture-based studies, and we describe simple procedural adjustments to recover them. (elsevierpure.com)
  • Archaeal viruses, like their hosts, are found worldwide, including in extreme environments inhospitable to most life such as acidic hot springs, highly saline bodies of water, and at the bottom of the ocean. (wikipedia.org)
  • How archaeal viruses interact with their hosts and the environment is largely unknown. (wikipedia.org)
  • El grupo investiga las interacciones que se establecen a nivel molecular entre las plantas y algunos de sus patógenos, como los virus y los viroides. (upv.es)
  • El grupo contribuye al avance del conocimiento de la biología molecular de las plantas y de sus patógenos, así como al desarrollo de herramientas biotecnológicas para la protección, mejora e innovación en los cultivos. (upv.es)
  • J.A. Darós es Licenciado en Ciencias Biológicas, especialidad Bioquímica y Biología Molecular (1985-1990). (upv.es)
  • A continuación realizó una estancia postdoctoral en los EE UU durante tres años y medio (Enero 1995-Junio 1998) en el grupo del Prof. James C. Carrington en la Texas A&M University (College Station, Texas) y la Washington State University (Pullman, Washington), donde estudió distintos aspectos de la biología molecular de los potyvirus. (upv.es)
  • En Agosto 1998 se reincorporó como investigador postdoctoral al grupo del Prof. Ricardo Flores en el IBMCP donde investigó la biología molecular de los viroides, primero con un contrato de reincorporación del Ministerio y, posteriormente (Noviembre 2001-Junio 2004), mediante un contrato del Programa Ramón y Cajal . (upv.es)
  • Además ha actuado como revisor en multitud de revistas del ámbito de la biología molecular, virología, fitopatología y biología de plantas. (upv.es)
  • The isolation of a new archaeal virus, Thermoproteus Piliferous Virus 1 (TSPV1), is also presented here. (montana.edu)
  • TWiV 1047: Long COVID and avian flu in ferrets September 24, 2023 TWiV explains a study of postacute sequelae of COVID-19 at 2 years, and airborne transmission of human-isolated avian H3N8 influenza virus between ferrets. (microbe.tv)
  • Still, there is a substantial interest in generating assemblies derived from longer reads to enable better characterization of environmental and complex metagenomic communities [ 10 ]. (biomedcentral.com)
  • Instead, virus particles depend on diffusion for transportation and attachment from one host cell to another. (montana.edu)
  • Bioinformatic analysis of Chikungunya virus B-cell epitopes with high antigenic potential for vaccine development. (openwetware.org)
  • Our results demonstrated the highly diverse taxonomic groups and functional traits of viruses in AS systems. (biomedcentral.com)
  • Furthermore, combining the previously determined atomic model for the virus, with cryo-electron tomography, a pseudo-atomic model of the interaction between the host pilus and virus was determined. (montana.edu)
  • Dual-RNAseq Analysis Unravels Virus-Host Interactions of MetSV and Methanosarcina mazei . (spp2330.de)
  • Genetically encoded phosphoserine incorporation programmed by the UAG codon was achieved by addition of an orthogonal translation system (OTS) consisting of an engineered elongation factor and archaeal aminoacyl-tRNA synthetase (aaRS)/tRNA pair to the normal E. coli translation machinery ( 16 ). (dissertation.com)
  • Despite this, those that have been studied are highly diverse and classified to more than 20 families, many of which show no relation to any other known viruses. (wikipedia.org)
  • Little is known regarding the attachment and entry process for any archaeal virus. (montana.edu)
  • Arbovirus Entry and Characterization of a new Insect Virus. (ncsu.edu)