Impact of endogenous viral elements on glioma clinical phenotypes by inducing OCT4 in the host

Authors: Shirong Li, Shuai He, Haoyu Xue, Yi He

Source: Frontiers in Cellular and Infection Microbiology, Vol 14 (2024)

Subject Terms: endogenous viral elements, RNA, transcription factors, OCT4, glioblastoma, glioblastoma stem cells, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fcimb.2024.1474492/full; https://doaj.org/toc/2235-2988

Access URL: https://doaj.org/article/2e9c1309fcb848ffaa576c62575253a9

Untangling an insect’s virome from its endogenous viral elements

Authors: Paula Rozo-Lopez, William Brewer, Simon Käfer, McKayla M. Martin, Benjamin J. Parker

Source: BMC Genomics, Vol 24, Iss 1, Pp 1-13 (2023)

Subject Terms: Viral discovery, RNAseq, Insects, Aphids, Endogenous viral elements, Biotechnology, TP248.13-248.65, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1471-2164

Access URL: https://doaj.org/article/babbf912ffcf4c70b44c8907164327d3

Advances in Parvovirus Research 2022

Contributors: Gallinella, Giorgio

Subject Terms: parvovirus B19, synthetic genome, genetic engineering, replicon unit, functional complementation, B19V, VP1u, VP1uR, receptor, tropism, primate erythroparvovirus, simian erythroparvovirus, rhesus erythroparvovirus, pig-tailed erythroparvovirus, Benzonase®, acute infection, persistent infection, viral DNA load, oncolytic virus immunotherapy, protoparvovirus H-1PV, virus host interactions, virus cell entry, galectin-1, laminin γ1, adeno-associated virus, AAV, classification, genotype, serotype, intraspecies, pairwise genetic distance, recombination, porcine parvovirus, virus-like particles, diagnostic, I-ELISA, parvovirus, capsid, AMDV, PARV4, cryo-EM, Amdoparvovirus, Tetraparvovirus, pathogen, CPV-2, FPV, illegal trade, companion animals, wildlife, spillover, porcine parvovirus 1, Africa, epidemiology, phylogeography, phylogeny, VP2, H1-PV, infection, oncolytic virus, anticancer gene, cancer gene therapy, cancer, Parvovirus B19, genetic diversity, viral quasispecies, Next Generation Sequencing, Shannon Entropy, cluster analysis, skunk amdoparvovirus, striped skunk, next generation sequencing, virus surveillance, HIV infection, hemolysis, hereditary spherocytosis, parvoviruses, DNA damage response, Minute Virus of Mice, immunity, evolution, paleovirology, endogenous viral elements, bocavirus, CnMV, PBoV, RBoV, canine parvovirus type 2, molecular epidemiology, Protoparvovirus carnivoran1, virus evolution, Parvoviridae, international workshop, conference report, Medicine and Nursing, Epidemiology and Medical statistics

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Access URL: https://directory.doabooks.org/handle/20.500.12854/128799
https://mdpi.com/books/pdfview/book/8266

Adaptive Evolution Signatures in Prochlorococcus: Open Reading Frame (ORF)eome Resources and Insights from Comparative Genomics

Authors: Sarah Daakour, David R. Nelson, Weiqi Fu, Ashish Jaiswal, Bushra Dohai, Amnah Salem Alzahmi, Joseph Koussa, Xiaoluo Huang, Yue Shen, Jean-Claude Twizere, Kourosh Salehi-Ashtiani

Source: Microorganisms, Vol 12, Iss 8, p 1720 (2024)

Subject Terms: Prochlorococcus, comparative genomics, light adaptations, deep learning, endogenous viral elements, MED4, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.mdpi.com/2076-2607/12/8/1720; https://doaj.org/toc/2076-2607

Access URL: https://doaj.org/article/c34530cf23c84305aebadd0bb030bfdd

Study of Endogenous Viruses in the Strawberry Plants

Authors: Zongneng Wang, Jian Liu, Xingyang Qi, Daifa Su, Junyu Yang, Xiaolong Cui

Source: Viruses, Vol 16, Iss 8, p 1306 (2024)

Subject Terms: plant virus, endogenous viral elements (EVEs), endogenous pararetroviruses (EPRVs), Caulimoviridae, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4915/16/8/1306; https://doaj.org/toc/1999-4915

Access URL: https://doaj.org/article/acc9c28fb10c4c3b9f07723b7241a2b2

Characterization of Caulimovirid-like Sequences from Upland Cotton (Gossypium hirsutum L.) Exhibiting Terminal Abortion in Georgia, USA

Authors: Surendra R. Edula, Lavesta C. Hand, Phillip M. Roberts, Edward Beasley, John L. Snider, Robert C. Kemerait, Peng W. Chee, Sudeep Bag

Source: Viruses, Vol 16, Iss 7, p 1111 (2024)

Subject Terms: endogenous viral elements, terminal abortion, upland cotton, lncRNA, small RNA, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4915/16/7/1111; https://doaj.org/toc/1999-4915

Access URL: https://doaj.org/article/20b2a6abc07442fdaf0bcaa343de596f

Endogenous Bornavirus-like Elements in Bats: Evolutionary Insights from the Conserved Riboviral L-Gene in Microbats and Its Antisense Transcription in Myotis daubentonii

Authors: Muriel Ritsch, Tom Eulenfeld, Kevin Lamkiewicz, Andreas Schoen, Friedemann Weber, Martin Hölzer, Manja Marz

Source: Viruses, Vol 16, Iss 8, p 1210 (2024)

Subject Terms: bat, viruses, endogenous viral elements, EVEs, endogenous bornavirus-like L element, EBLL, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4915/16/8/1210; https://doaj.org/toc/1999-4915

Access URL: https://doaj.org/article/747fc5792ba9450ca69ec9e5ca2ab8b9

Integrase-associated niche differentiation of endogenous large DNA viruses in crustaceans

Authors: Satoshi Kawato, Reiko Nozaki, Hidehiro Kondo, Ikuo Hirono

Source: Microbiology Spectrum, Vol 12, Iss 1 (2024)

Subject Terms: WSSV, Nimaviridae, endogenous viral elements, transposable elements, tyrosine recombinase, integrase, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2165-0497

Access URL: https://doaj.org/article/f9eec50b46a848b690734fe09ab66883

Current trends in RNA virus detection through metatranscriptome sequencing data

Authors: So Nakagawa, Shoichi Sakaguchi, Atsushi Ogura, Katsuhiko Mineta, Toshinori Endo, Yoshiyuki Suzuki, Takashi Gojobori

Source: FEBS Open Bio, Vol 13, Iss 6, Pp 992-1000 (2023)

Subject Terms: endogenous viral elements, metatranscriptome, RNA virome, RNA‐dependent RNA polymerase, SARS‐CoV‐2, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/2211-5463

Access URL: https://doaj.org/article/735bb6e028f846c2bf3ea45866360fae

CAULIFINDER: a pipeline for the automated detection and annotation of caulimovirid endogenous viral elements in plant genomes

Authors: Héléna Vassilieff, Sana Haddad, Véronique Jamilloux, Nathalie Choisne, Vikas Sharma, Delphine Giraud, Mariène Wan, Saad Serfraz, Andrew D. W. Geering, Pierre-Yves Teycheney, Florian Maumus

Source: Mobile DNA, Vol 13, Iss 1, Pp 1-12 (2022)

Subject Terms: Endogenous viral elements, Plant genomes, Paleovirology, Caulimoviridae, Repetitive elements, Bioinformatics, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1759-8753

Access URL: https://doaj.org/article/7d097e0eba2b4ef99e70393cf6425ba4

Editorial: Advances in host-pathogen interactions for diseases in animals and birds

Authors: Mrigendra Rajput, Neelu Thakur

Source: Frontiers in Veterinary Science, Vol 10 (2023)

Subject Terms: host-virus interaction, virome, antiviral protein, endogenous viral elements, virus symbiosis, Veterinary medicine, SF600-1100

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fvets.2023.1282110/full; https://doaj.org/toc/2297-1769

Access URL: https://doaj.org/article/5301681cbccb4454b98823e32721c56b

New Insights into Parvovirus Research

Authors: Gallinella, Giorgio

Subject Terms: R5-920, RC109-216, antivirals, Bombyx mori bidensovirus, Bocaparvovirus, human bocavirus 1, equine parvovirus-hepatitis, NS2, NS1, X-ray crystallography, BIRC3 (cIAP-2), glycans, children, antibody interactions, new viruses, alpaca, cidofovir, rodent protoparvoviruses, clinical trials, structural biology, DNA virus, human bocavirus, caspase-3, viral communities, uncoating, PLA2, phospholipase-A2, oncolytic virus immune therapy, Parvoviridae, viral ecology, Cryo-EM, AAV, metagenomics, phylogeny, oncolytic viruses, mite, parvovirus evolution, Carnivore protoparvovirus 1, adeno-associated virus, telbivudine, capsid stability, virus, homology modeling, human airway epithelia, sequence analysis, acute gastroenteritis, bisulfite PCR, next-generation sequencing, single stranded DNA virus, overlapping promoters, virus diversity, prognosis, oncolytic activity, genome, hydroxyurea, Lepidoptera, genome externalization, antiviral compounds, circulating angiogenic cells, tumor microenvironment, coumarin derivatives, nuclear targeting, densovirus, receptor interactions, cell cycle arrest, transcription profile, brincidofovir, canine parvovirus, endogenous viral elements, inflammatory cardiomyopathy, erythroid progenitor cells, RNA-seq, insect, chapparvovirus, RT-qPCR, trafficking, AAV2, agricultural pests, Adeno-associated virus, myocarditis, diagnosis, parvovirus, feline panleukopenia virus, chitin, B19V, transcription mapping, flavonoids, immunomodulation, erythrovirus, apoptosis, adenoviral vector, anti-cancer, divalent cations, protease, genetics, preclinical, arthropod, peritrophins, biocontrol, dilated cardiomyopathy, insect parvovirus, combination therapies, intravenous immunoglobulin (IVIG), virus phylogeny, evolution, second generation parvovirus treatments, commercial horse serum, parvovirus B19, canine chapparvovirus, CpG methylation, RACE, H-1PV, viral metagenomics, horses, Medicine and Nursing

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Access URL: https://directory.doabooks.org/handle/20.500.12854/54592
https://mdpi.com/books/pdfview/book/2193

Virus Bioinformatics

Authors: Robertson, David, Hufsky, Franziska, Ibrahim, Bashar, Marz, Manja

Subject Terms: QH301-705.5, Q1-390, BBB, recombination, software, APMV, AquaDiva, horizontal gene transfer, sequence interpretation, structurally homogenous, CVI988/Rispens, DFT, eukaryogenesis, fluorescent reporter protein, parallel reaction monitoring, transcriptomics, splicing, Rickettsia, minor capsid protein, flavivirus, DWT, RNA viruses, data compression, DNA replication, influenza A, virus diagnostics, quasispecies, mRNA structure, systems virology, virus bioinformatics, metagenomics, drug resistance, nasopharynx, image quantification, infection, primary B cells, non-coding RNA, transcriptome, RB1B, virus, interferon-stimulated genes (ISG), pandoravirus, virus-host interaction, secondary structure, bivalve, ICP0, assembly, MSA, variant calling, translation machinery, gram-positive bacteria, virosphere, viral mRNA, NCLDV, sncRNA, structurally related, cellular immunity, Amebae viruses, genome evolution, groundwater, capsid protein, HPV58, RNA structure, polyomavirus, Mimivirus, PAA, honey bees, Hepatitis C virus, compressive genomics, Yellow Fever Virus, poxvirus, ADAR, virome, endogenous viral elements, giant virus, structure database, RNA-seq, deep sequencing, viral evolution, bovine soft palate, deformed wing virus, virus-to-host gene transfer, ASFV, virus proteomics, RNAi, polycistronic viral transcripts, complex networks analysis, mimivirus, TLR agonist, time series, mRNA families, foot-and-mouth disease virus (FMDV), comparative genomics, virus dynamics modeling, viral metagenome, subVOG, bioinformatics, viral taxonomy, sequencing library preparation, virus classification, alignment, targeted proteomics, prophylaxis, bacteriophage, dsdna viruses, taxonomic classification, Marek’s disease virus (MDV), Coxsackievirus B4, hepatitis C virus, mass spectrometry, data transformation, Base-By-Base, data analysis, peptide selection, proteomics, mitochondria, Drosophila, ori, HMM, codon frequency distribution, RNAseq, protein domains, innate immune system, tobacco mosaic virus, apiary pests, virology, virus genomics, chemical organization theory, aquifer, Biology, life sciences

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Access URL: https://directory.doabooks.org/handle/20.500.12854/62248
https://mdpi.com/books/pdfview/book/2043

Endogenous Viral Elements in Ixodid Tick Genomes

Authors: Miranda Barnes, Dana C. Price

Source: Viruses, Vol 15, Iss 11, p 2201 (2023)

Subject Terms: endogenous viral elements, ticks, Ixodes, paleovirology, arthropod viruses, Bunyavirales, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4915/15/11/2201; https://doaj.org/toc/1999-4915

Access URL: https://doaj.org/article/5d28c8dd54cc48d3bcd6dafd178653c9

Genome-wide identification of endogenous viral sequences in alfalfa (Medicago sativa L.)

Authors: Alexander M. Boutanaev, Lev G. Nemchinov

Source: Virology Journal, Vol 18, Iss 1, Pp 1-5 (2021)

Subject Terms: Alfalfa, Medicago sativa L., Endogenous viral elements, Soybean chlorotic mottle virus, Figwort mosaic virus, Infectious and parasitic diseases, RC109-216

File Description: electronic resource

Relation: https://doaj.org/toc/1743-422X

Access URL: https://doaj.org/article/63df57599cea450d8f93ccf20366eb4e

Endogenous Caulimovirids: Fossils, Zombies, and Living in Plant Genomes

Authors: Héléna Vassilieff, Andrew D. W. Geering, Nathalie Choisne, Pierre-Yves Teycheney, Florian Maumus

Source: Biomolecules, Vol 13, Iss 7, p 1069 (2023)

Subject Terms: Caulimoviridae, pararetrovirus, endogenous viral elements, plant genomes, repetitive elements, centromeres, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/2218-273X/13/7/1069; https://doaj.org/toc/2218-273X

Access URL: https://doaj.org/article/4f735c1ae9fd41d8b95893063480c5c8

Antiviral Activity of an Endogenous Parvoviral Element

Authors: Angelica Bravo, Leandro Fernández-García, Rodrigo Ibarra-Karmy, Gonzalo A. Mardones, Luis Mercado, Fernando J. Bustos, Robert J. Gifford, Gloria Arriagada

Source: Viruses, Vol 15, Iss 7, p 1420 (2023)

Subject Terms: parvovirus, immunity, evolution, paleovirology, endogenous viral elements, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4915/15/7/1420; https://doaj.org/toc/1999-4915

Access URL: https://doaj.org/article/636ee7f74f754bdd9c5586123cdaab2d

The Metagenomic Analysis of Viral Diversity in Colorado Potato Beetle Public NGS Data

Authors: Maria Starchevskaya, Ekaterina Kamanova, Yuri Vyatkin, Tatyana Tregubchak, Tatyana Bauer, Sergei Bodnev, Ulyana Rotskaya, Olga Polenogova, Vadim Kryukov, Denis Antonets

Source: Viruses, Vol 15, Iss 2, p 395 (2023)

Subject Terms: Leptinotarsa decemlineata, insect viruses, metagenomic analysis, NGS, endogenous viral elements, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.mdpi.com/1999-4915/15/2/395; https://doaj.org/toc/1999-4915

Access URL: https://doaj.org/article/5ab43255ffc44ad6885d7b7404aba063

Shrimp Parvovirus Circular DNA Fragments Arise From Both Endogenous Viral Elements and the Infecting Virus

Authors: Suparat Taengchaiyaphum, Phasini Buathongkam, Suchitraporn Sukthaworn, Prapatsorn Wongkhaluang, Kallaya Sritunyalucksana, Timothy William Flegel

Source: Frontiers in Immunology, Vol 12 (2021)

Subject Terms: shrimp, immunity, viral accommodation, circular viral copy DNA (cvcDNA), endogenous viral elements, EVE, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fimmu.2021.729528/full; https://doaj.org/toc/1664-3224

Access URL: https://doaj.org/article/3f021ecf92e0441b8195cfc5c6ba6df8

Insertion of Badnaviral DNA in the Late Blight Resistance Gene (R1a) of Brinjal Eggplant (Solanum melongena)

Authors: Saad Serfraz, Vikas Sharma, Florian Maumus, Xavier Aubriot, Andrew D. W. Geering, Pierre-Yves Teycheney

Source: Frontiers in Plant Science, Vol 12 (2021)

Subject Terms: Endogenous viral elements, badnavirus, Solanum melongena, R1 gene, co-transcripts, phylogeny, Plant culture, SB1-1110

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fpls.2021.683681/full; https://doaj.org/toc/1664-462X

Access URL: https://doaj.org/article/ea4aa7a32835409988b90672f27a5d54