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Recombination in Enteroviruses, a Multi-Step Modular Evolutionary Process

Muslin, Kain, Bessaud, Blondel, Delpeyroux
2019 Viruses  
Homologous intertypic recombinant enteroviruses that were observed in nature would be the final products of a multi-step process, during which precursor nonhomologous recombinant genomes are generated  ...  through an initial inter-genomic RNA recombination event and can then evolve into a diversity of fitter homologous recombinant genomes over subsequent intra-genomic rearrangements.  ...  RNA recombination allows for the exchange of genetic information and incorporates viral RNA fragments into new genomic contexts.  ... 
doi:10.3390/v11090859 pmid:31540135 pmcid:PMC6784155 fatcat:tzv5vh7u7bb4xegktc6lbqasmm

Extensive Gene Remodeling in the Viral World: New Evidence for Nongradual Evolution in the Mobilome Network

Pierre-Alain Jachiet, Philippe Colson, Philippe Lopez, Eric Bapteste
2014 Genome Biology and Evolution  
) functionally biased, 2) involved in key aspects of the arm race between cells and viruses, and 3) can be classified into two distinct types of composite genes in all viral classes.  ...  Applying methods from graph theory to inclusive similarity networks, and using data from more than 3,000 complete viral genomes, we provide the first demonstration that composite genes in viruses are 1  ...  with the machinery of cellular hosts, or alternatively because the functions encoded by some genetic fragments and compatible with any genome type may trace back to a profound connection between some  ... 
doi:10.1093/gbe/evu168 pmid:25104113 pmcid:PMC4202312 fatcat:wyg33zrwwnb25j4lbityyu7tkq

Pseudorabies virus protein homologous to herpes simplex virus type 1 ICP18.5 is necessary for capsid maturation

T C Mettenleiter, A Saalmüller, F Weiland
1993 Journal of Virology  
We conclude that the ICP18.5(PrV) protein is necessary for viral replication and plays an essential role in the process of mature capsid formation.  ...  In pseudorabies virus (PrV), an open reading frame that partially overlaps the gene for the essential glycoprotein gIl has been shown to encode a protein homologous to the ICP18.5 polypeptide of herpes  ...  We also thank reviewer 1 for pointing out the nature of the 65-kDa glll breakdown product.  ... 
doi:10.1128/jvi.67.3.1236-1245.1993 fatcat:7bz5zn5pljgmlcz5xuvxiv75bm

Pseudorabies virus protein homologous to herpes simplex virus type 1 ICP18.5 is necessary for capsid maturation

T C Mettenleiter, A Saalmüller, F Weiland
1993 Journal of Virology  
We conclude that the ICP18.5(PrV) protein is necessary for viral replication and plays an essential role in the process of mature capsid formation.  ...  In pseudorabies virus (PrV), an open reading frame that partially overlaps the gene for the essential glycoprotein gII has been shown to encode a protein homologous to the ICP18.5 polypeptide of herpes  ...  We also thank reviewer 1 for pointing out the nature of the 65-kDa glll breakdown product.  ... 
pmid:8382292 pmcid:PMC237489 fatcat:ytkybff67ff4zcwlmwk6h477za

Limitations on Geminivirus Genome Size Imposed by Plasmodesmata and Virus-Encoded Movement Protein: Insights into DNA Trafficking

R. L. Gilbertson
2003 The Plant Cell  
Size-increased viral genome components underwent homologous and nonhomologous recombination to overcome this strict limitation.  ...  The combined properties of the geminivirusencoded movement protein and plasmodesmata were shown to impose a strict limitation on the size of the viral genome at the level of cell-to-cell movement.  ...  ACKNOWLEDGMENTS This research was supported in part by grants from the U.S.  ... 
doi:10.1105/tpc.015057 pmid:14555695 pmcid:PMC280562 fatcat:63nwyindofgydgdrtpzj5qacem

The Complete DNA Sequence of Lymphocystis Disease Virus

Christian A. Tidona, Gholamreza Darai
1997 Virology  
subunits of the viral DNA-dependent RNA polymerase, DNA polymerase, several protein kinases, two subunits of the ribonucleoside diphosphate reductase, DNA methyltransferase, the viral major capsid protein  ...  Computerassisted analyses of the deduced amino acid sequences led to the identification of several putative gene products with significant homologies to entries in protein data banks, such as the two major  ...  The search for homologous proteins in the (data not shown).  ... 
doi:10.1006/viro.1997.8456 pmid:9143276 fatcat:oh7dkd5fjncv5eyahjggjbstfu

Comparative analysis of the molecular mechanisms of recombination in hepatitis C virus

Andrea Galli, Jens Bukh
2014 Trends in Microbiology  
Replicon system: a cell system in which a sub-genomic or, less commonly, fulllength viral RNA is transfected into permissive cells and leads to viral RNA replication and production of viral proteins.  ...  The significance of this phenomenon for hepatitis C virus (HCV) has recently become evident, with the identification of circulating recombinant forms in HCV-infected individuals and by novel data from  ...  A limited number of genomes will be able to produce functional proteins upon translation and replicate in the cell.  ... 
doi:10.1016/j.tim.2014.02.005 pmid:24636243 fatcat:kohzrtlp4rgbvowougbf4upr5m

Characterization of fossilized relatives of the White Spot Syndrome Virus in genomes of decapod crustaceans

Andrey Rozenberg, Philipp Brand, Nicole Rivera, Florian Leese, Christoph D. Schubart
2015 BMC Evolutionary Biology  
The genome includes at least 68 putative open reading frames with homology in WSSV, most of which are intact.  ...  Among these, twelve orthologs of WSSV genes coding for non-structural proteins and nine genes known to code for the major components of the WSSV virion were discovered.  ...  This project was supported in part by a grant of the Dinter-Foundation to F.L. and DFG project LE 2323/2. Author  ... 
doi:10.1186/s12862-015-0380-7 pmid:26187050 pmcid:PMC4506587 fatcat:a7ncytdtwjdvrjnjutykyd2ru4

The Epstein-Barr Virus Alkaline Exonuclease BGLF5 Serves Pleiotropic Functions in Virus Replication

R. Feederle, H. Bannert, H. Lips, N. Muller-Lantzsch, H.-J. Delecluse
2009 Journal of Virology  
Similar nuclear abnormalities were previously observed in cells transfected with BFLF2 and BFRF1, two viral proteins crucial for EBV nuclear egress.  ...  ⌬BGLF5 phenotypic traits were reminiscent of those previously identified in a mutant devoid of UL12, BGLF5's homolog in herpes simplex virus type 1, and indeed UL12 was found to partially complement the  ...  ACKNOWLEDGMENTS We thank Birgit Hub for expert help with the electron micrographs and Charles Knopf for providing the HSV-1 BAC.  ... 
doi:10.1128/jvi.00170-09 pmid:19264771 pmcid:PMC2682060 fatcat:2c27lf6vdzbnllypxmehehv7vi

Viral Coat Protein Peptides with Limited Sequence Homology Bind Similar Domains of Alfalfa Mosaic Virus and Tobacco Streak Virus RNAs

Maud M. Swanson, Patricia Ansel-McKinney, Felicia Houser-Scott, Vidadi Yusibov, L. Sue Loesch-Fries, Lee Gehrke
1998 Journal of Virology  
AMV-TSV coat protein homology is limited; however, they are functionally interchangeable in activating virus replication.  ...  The data suggest that RNA binding and genome activation functions may reside in the consensus RNA binding sequence that is apparently unique to AMV and ilarvirus coat proteins.  ...  The coat proteins of alfalfa mosaic virus (AMV) and the ilarviruses (type member, tobacco streak virus) bind to the 3Ј termini of the genomic viral RNAs (23, 28, 29) .  ... 
doi:10.1128/jvi.72.4.3227-3234.1998 fatcat:v5izd2ov6vfjzdyiyrgv7t3qm4

Viral coat protein peptides with limited sequence homology bind similar domains of alfalfa mosaic virus and tobacco streak virus RNAs

M M Swanson, P Ansel-McKinney, F Houser-Scott, V Yusibov, L S Loesch-Fries, L Gehrke
1998 Journal of Virology  
AMV-TSV coat protein homology is limited; however, they are functionally interchangeable in activating virus replication.  ...  The data suggest that RNA binding and genome activation functions may reside in the consensus RNA binding sequence that is apparently unique to AMV and ilarvirus coat proteins.  ...  The coat proteins of alfalfa mosaic virus (AMV) and the ilarviruses (type member, tobacco streak virus) bind to the 3Ј termini of the genomic viral RNAs (23, 28, 29) .  ... 
pmid:9525649 pmcid:PMC109790 fatcat:7fwn6izj5vgn7ckvlwhqlaccnu

Bovine adenovirus type 3 virions cannot be rescued in vivo after full-length viral genome transfection in the absence of detectable polypeptide IX

Peng Zhang, Qinghong Xue, Jing Ma, Jingjing Ren, Shuili Xia, Lu Zhang, Wenbin Wang, Suresh K. Tikoo, Enqi Du
2017 Journal of Veterinary Science  
Bovine adenovirus type 3 (BAdV3) is being used in the development of potential vehicles for gene therapy and vectored vaccine.  ...  In this study, we focused on the role of pIX in BAdV3 virion rescue after full-length BAdV3 genome transfection.  ...  (C) The genome plasmids in panel B were transfected into VIDO DT1 cells for viral genome rescue, respectively.  ... 
doi:10.4142/jvs.2017.18.2.217 pmid:27586461 pmcid:PMC5489469 fatcat:lmxddbqp6zg7ngiyocecg6yhuu

A cysteine protease encoded by the baculovirus Bombyx mori nuclear polyhedrosis virus

T Ohkawa, K Majima, S Maeda
1994 Journal of Virology  
Previously described viral proteases show a remarkable specificity for sites where precursor cleavage will generate mature proteins and have not been found to play a role in protein turnover or degradation  ...  Sequence analysis of the BamHI F fragment of the genome of Bombyx mona nuclear polyhedrosis virus (BmNPV) revealed an open reading frame whose deduced amino acid sequence had homology to those of cysteine  ...  as a source of amino acids for viral protein production.  ... 
doi:10.1128/jvi.68.10.6619-6625.1994 fatcat:p3625y2eyzg4zcitmngxlhejiy

Analysis of the First Complete DNA Sequence of an Invertebrate Iridovirus: Coding Strategy of the Genome of Chilo Iridescent Virus

Nurith J Jakob, Kristin Müller, Udo Bahr, Gholamreza Darai
2001 Virology  
The comparison of the deduced amino acid sequences to entries in protein data banks led to the identification of several genes with significant homologies, such as the two major subunits of the DNA-dependent  ...  Chilo iridescent virus (CIV), the type species of the genus Iridovirus, a member of the Iridoviridae family, is highly pathogenic for a variety of insect larvae.  ...  The DNA nucleotide sequence of Chilo iridescent virus has been deposited in the GenBank Data Library (Accession No. AF303741).  ... 
doi:10.1006/viro.2001.0963 pmid:11448171 fatcat:7od4yztvpvejncf2dvdeo2uqz4

CRIPSR Case System: Biological Role in Bacterial Virulence, Genome Editing and in Antimicrobial Resistance

Muhamamd Rizwan, Muhammad Arshad, Muhammad Kashif, Aneela Zameer Durrani, Asghar Abbas, Tanveer Ahmad, Muhammad Nadeem, Kinza Khan
2021 Punjab University Journal of Zoology  
When bacteria recognize viral DNA inside it, bacteria incorporate small fragment of viral DNA into its genome at specific site termed as CRISPR locus.  ...  CRISPR Cas system is sustainable to combate with the mutation developed in viral genome that help viruses to escape from bacterial CRISPR Cas based immune system.  ...  In HR method a donor DNA fragment that is homologous to the flanking sequences is used as template for repairing of DSBs (Cai and Fisher, 2016) .  ... 
doi:10.17582/journal.pujz/2021.36.1.111.118 fatcat:zsmrfnwahvgw5oxrppvdjqyxwq
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