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References from High-fidelity long-read sequencing of an avian herpesvirus reveals extensive intrapopulation diversity in tandem repeat regions. Local targets link to admitted publications; unresolved targets remain external evidence.
Marek’s disease virus: from miasma to model
10.1038/nrmicro1382 · 2006 · External reference
Multiple Nervenentzündung (Polyneuritis) bei Hühnern
1907 · External reference
Characterisation of two highly oncogenic strains of Marek’s disease virus
10.1080/03079458208436134 · 1982 · External reference
Increased virulence of Marek’s disease virus field isolates
10.2307/1592455 · 1997 · External reference
Classification of Marek’s disease viruses according to pathotype: philosophy and methodology
10.1080/03079450500059255 · 2005 · External reference
Control of Marek’s disease in the Netherlands. I. Isolation of an avirulent Marek’s disease virus (strain CVI 988) and its use in laboratory vaccination trials
10.2307/1588905 · 1972 · External reference
Marek’s disease vaccines: Current status, and strategies for improvement and development of vector vaccines
10.1016/j.vetmic.2016.11.024 · 2017 · External reference
Pathogenic characteristics of Marek’s disease virus field strains prevalent in China and the effectiveness of existing vaccines against them
10.1016/j.vetmic.2014.12.020 · 2015 · External reference
A Chinese Variant Marek’s Disease Virus Strain with Divergence between Virulence and Vaccine Resistance
10.3390/v9040071 · 2017 · External reference
Emerging Hypervirulent Marek’s Disease Virus Variants Significantly Overcome Protection Conferred by Commercial Vaccines
10.3390/v15071434 · 2023 · External reference
Marek’s disease vaccines: a solution for today but a worry for tomorrow?
10.1016/j.vaccine.2008.04.009 · 2008 · External reference
Vaccinal control of Marek’s disease: current challenges, and future strategies to maximize protection
10.1016/j.vetimm.2006.03.014 · 2006 · External reference
Imperfect Vaccination Can Enhance the Transmission of Highly Virulent Pathogens
2015 · External reference
Comparative full-length sequence analysis of oncogenic and vaccine (Rispens) strains of Marek’s disease virus
10.1099/vir.0.82600-0 · 2007 · External reference
Sequence determination of variable regions within the genomes of gallid herpesvirus-2 pathotypes
10.1007/s00705-007-0992-3 · 2007 · External reference
Unresolved reference
2009 · External reference
Bioinformatics challenges of new sequencing technology
10.1016/j.tig.2007.12.006 · 2008 · External reference
Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases
10.1093/nar/gkz841 · 2019 · External reference
Repetitive DNA and next-generation sequencing: computational challenges and solutions
10.1038/nrg3117 · 2011 · External reference
Sequencing of long stretches of repetitive DNA
10.1038/srep36665 · 2016 · External reference
Polymorphisms in the repeat long regions of oncogenic and attenuated pathotypes of Marek’s disease virus 1
10.1007/s11262-006-0024-5 · 2007 · External reference
Tandem repeats in the long-read sequencing era
10.1038/s41576-024-00751-9 · 2024 · External reference
Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution
10.1186/gb-2013-14-1-r10 · 2013 · External reference
PacBio Sequencing and Its Applications
10.1016/j.gpb.2015.08.002 · 2015 · External reference
Nanopore sequencing technology, bioinformatics and applications
10.1038/s41587-021-01108-x · 2021 · External reference
A comprehensive evaluation of long read error correction methods
10.1186/s12864-020-07227-0 · 2020 · External reference
Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome
10.1038/s41587-019-0217-9 · 2019 · External reference
Molecular epidemiology of Marek’s disease virus in central Pennsylvania, USA
2019 · External reference
DNA from dust: comparative genomics of large DNA viruses in field surveillance samples
10.1128/msphere.00132-16 · 2016 · External reference
Viral forensic genomics reveals the relatedness of classic herpes simplex virus strains KOS, KOS63, and KOS79
10.1016/j.virol.2016.02.013 · 2016 · External reference
Real-time PCR for differential quantification of CVI988 vaccine virus and virulent strains of Marek’s disease virus
10.1016/j.jviromet.2016.03.002 · 2016 · External reference
A phylogenomic analysis of Marek’s disease virus reveals independent paths to virulence in Eurasia and North America
10.1111/eva.12515 · 2017 · External reference
Improved metagenomic analysis with Kraken 2
10.1186/s13059-019-1891-0 · 2019 · External reference
10.1128/mbio.02213-14
10.1128/mbio.02213-14 · External reference
metaSPAdes: a new versatile metagenomic assembler
10.1101/gr.213959.116 · 2017 · External reference
Minimap2: pairwise alignment for nucleotide sequences
10.1093/bioinformatics/bty191 · 2018 · External reference
Integrative genomics viewer
10.1038/nbt.1754 · 2011 · External reference
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
10.1093/bioinformatics/bts199 · 2012 · External reference
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
10.1093/nar/gkf436 · 2002 · External reference
IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
10.1093/molbev/msaa015 · 2020 · External reference
Stability of Marek’s disease virus 132-bp repeats during serial in vitro passages
10.1007/s00705-006-0724-0 · 2006 · External reference
Viral proteogenomic and expression profiling during productive replication of a skin-tropic herpesvirus in the natural host
10.1371/journal.ppat.1011204 · 2023 · External reference
Understanding and identifying amino acid repeats
10.1093/bib/bbt003 · 2014 · External reference
Marek’s disease virus latency-associated transcripts belong to a family of spliced RNAs that are antisense to the ICP4 homolog gene
10.1128/jvi.71.2.1353-1361.1997 · 1997 · External reference
Marek’s disease virus encodes MicroRNAs that map to meq and the latency-associated transcript
10.1128/jvi.00831-06 · 2006 · External reference
A p53-dependent promoter associated with polymorphic tandem repeats controls the expression of a viral transcript encoding clustered microRNAs
10.1261/rna.2121210 · 2010 · External reference
Marek’s Disease Virus Virulence Genes Encode Circular RNAs
10.1128/jvi.00321-22 · 2022 · External reference
Marek’s disease herpesvirus: a model of vaccine-dependent adaptation
2016 · External reference
Vaccine and oncogenic strains of gallid herpesvirus 2 contain specific subtype variations in the 5’ region of the latency-associated transcript that evolve in vitro and in vivo
10.1007/s00705-014-2248-3 · 2015 · External reference
mdv1-miR-M7-5p, located in the newly identified first intron of the latency-associated transcript of Marek’s disease virus, targets the immediate-early genes ICP4 and ICP27
10.1099/vir.0.043109-0 · 2012 · External reference
Deletion of miR-M8 and miR-M13 eliminates the bursa atrophy induced by Marek’s disease virus infection
10.1016/j.vetmic.2022.109409 · 2022 · External reference
Identification and characterization of the genomic termini and cleavage/packaging signals of gallid herpesvirus type 2
10.1637/10410-100312-reg.1 · 2013 · External reference
Inverted repeat regions of Marek’s disease virus DNA possess a structure similar to that of the a sequence of herpes simplex virus DNA and contain host cell telomere sequences
10.1128/jvi.65.6.2791-2797.1991 · 1991 · External reference
Herpesvirus Genome Integration into Telomeric Repeats of Host Cell Chromosomes
10.1146/annurev-virology-031413-085422 · 2014 · External reference
Characterization of integrated Marek’s disease virus genomes supports a model of integration by homology-directed recombination and telomere-loop-driven excision
2023 · External reference
Role of the short telomeric repeat region in Marek’s disease virus replication, genomic integration, and lymphomagenesis
10.1128/jvi.02437-14 · 2014 · External reference
Herpesvirus telomeric repeats facilitate genomic integration into host telomeres and mobilization of viral DNA during reactivation
10.1084/jem.20101402 · 2011 · External reference
Virus and host genomic, molecular, and cellular interactions during Marek’s disease pathogenesis and oncogenesis
10.3382/ps/pev369 · 2016 · External reference
Marek’s disease virus Meq transforms chicken cells via the v-Jun transcriptional cascade: a converging transforming pathway for avian oncoviruses
10.1073/pnas.0506849102 · 2005 · External reference
Marek’s disease virus-encoded Meq gene is involved in transformation of lymphocytes but is dispensable for replication
10.1073/pnas.0404508101 · 2004 · External reference
Distinct polymorphisms in a single herpesvirus gene are capable of enhancing virulence and mediating vaccinal resistance
10.1371/journal.ppat.1009104 · 2020 · External reference
Difference in the meq gene between oncogenic and attenuated strains of Marek’s disease virus serotype 1
10.1292/jvms.62.287 · 2000 · External reference
Research note: Characterization of S-Meq containing the deletion in Meq protein’s transactivation domain in a Marek’s disease virus strain in Japan
10.1016/j.psj.2021.101461 · 2021 · External reference
Molecular characterization of the meq gene of Marek’s disease viruses detected in unvaccinated backyard chickens reveals the circulation of low- and high-virulence strains
10.3382/ps/pez095 · 2019 · External reference
Report of a new meq gene size: The first study on genetic characterisation of Marek’s disease viruses circulating in Iranian commercial layer and backyard chicken
10.1080/00071668.2021.1963677 · 2022 · External reference
Marek disease virus encodes a basic-leucine zipper gene resembling the fos/jun oncogenes that is highly expressed in lymphoblastoid tumors
10.1073/pnas.89.9.4042 · 1992 · External reference
Transactivation activity of Meq, a Marek’s disease herpesvirus bZIP protein persistently expressed in latently infected transformed T cells
10.1128/jvi.69.7.4037-4044.1995 · 1995 · External reference
The detection of the meq gene in chicken infected with Marek’s disease virus serotype 1
10.1292/jvms.64.413 · 2002 · External reference
Diversity (polymorphism) of the meq gene in the attenuated Marek’s disease virus (MDV) serotype 1 and MDV-transformed cell lines
10.1292/jvms.64.1097 · 2002 · External reference
Repetitive DNA: genomic dark matter matters
10.1038/s41576-021-00354-8 · 2021 · External reference
Comparative analysis of multiple consensus genomes of the same strain of Marek’s disease virus reveals intrastrain variation
10.1093/ve/veae047 · 2024 · External reference
De Novo Assembly of Human Herpes Virus Type 1 (HHV-1) Genome, Mining of Non-Canonical Structures and Detection of Novel Drug-Resistance Mutations Using Short- and Long-Read Next Generation Sequencing Technologies
10.1371/journal.pone.0157600 · 2016 · External reference
Complete Genome Sequence of Herpes Simplex Virus 2 Strain 333
2018 · External reference
Rapid CRISPR/Cas9-Mediated Cloning of Full-Length Epstein-Barr Virus Genomes from Latently Infected Cells
10.3390/v10040171 · 2018 · External reference
Nanopore sequencing and full genome de novo assembly of human cytomegalovirus TB40/E reveals clonal diversity and structural variations
10.1186/s12864-018-4949-6 · 2018 · External reference
Complete Genome Sequence of Herpes Simplex Virus 1 Strain MacIntyre
10.1128/mra.00895-19 · 2019 · External reference
Combination of long- and short-read sequencing fully resolves complex repeats of herpes simplex virus 2 strain MS complete genome
2021 · External reference
Genome evolution of Kaposi sarcoma-associated herpesvirus (KSHV)
10.1128/jvi.01950-24 · 2025 · External reference
Genomic cartography of varicella-zoster virus: a complete genome-based analysis of strain variability with implications for attenuation and phenotypic differences
10.1016/j.virol.2006.09.037 · 2007 · External reference
Evolution and diversity in human herpes simplex virus genomes
10.1128/jvi.01987-13 · 2014 · External reference
Copy Number Heterogeneity, Large Origin Tandem Repeats, and Interspecies Recombination in Human Herpesvirus 6A (HHV-6A) and HHV-6B Reference Strains
10.1128/jvi.00135-18 · 2018 · External reference
Analysis of the reiteration regions (R1 to R5) of varicella-zoster virus
10.1016/j.virol.2020.03.008 · 2020 · External reference
Significantly improving the quality of genome assemblies through curation
10.1093/gigascience/giaa153 · 2021 · External reference
A beginner’s guide to manual curation of transposable elements
10.1186/s13100-021-00259-7 · 2022 · External reference
Benchmarking of next and third generation sequencing technologies and their associated algorithms for de novo genome assembly
10.3892/mmr.2021.11890 · 2021 · External reference
Reiterated sequences of herpes simplex virus type 1 (HSV-1) genome can serve as physical markers for the differentiation of HSV-1 strains
10.1007/bf01313958 · 1989 · External reference
Towards complete and error-free genome assemblies of all vertebrate species
10.1038/s41586-021-03451-0 · 2021 · External reference
Embracing complexity: what novel sequencing methods are teaching us about herpesvirus genomic diversity
10.1146/annurev-virology-100422-010336 · 2024 · External reference
Ground truth
10.4056/sigs.50595 · 2009 · External reference
High-throughput method for the hybridisation-based targeted enrichment of long genomic fragments for PacBio third-generation sequencing
10.1093/nargab/lqac051 · 2022 · External reference
Genomic expansion of Marek’s disease virus DNA is associated with serial in vitro passage
10.1128/jvi.54.3.690-696.1985 · 1985 · External reference
Expansion of a unique region in the Marek’s disease virus genome occurs concomitantly with attenuation but is not sufficient to cause attenuation
10.1128/jvi.78.2.733-740.2004 · 2004 · External reference
Characterizing the molecular basis of attenuation of Marek’s disease virus via in vitro serial passage identifies de novo mutations in the helicase-primase subunit gene UL5 and other candidates associated with reduced virulence
10.1128/jvi.03869-13 · 2014 · External reference
PCR detection of amplified 132 bp repeats in Marek’s disease virus type 1 (MDV-1) DNA can serve as an indicator for critical genomic rearrangement leading to the attenuation of virus virulence
10.1007/bf01702588 · 1993 · External reference
Oncogenic Marek’s disease viruses lacking the 132 base pair repeats can still be attenuated by serial in vitro cell culture passages
10.1007/s11262-006-0022-7 · 2007 · External reference
The structure and function of proline-rich regions in proteins
10.1042/bj2970249 · 1994 · External reference
Natural recombination in alphaherpesviruses: Insights into viral evolution through full genome sequencing and sequence analysis
10.1016/j.meegid.2016.12.022 · 2017 · External reference
Impacts of genome-wide analyses on our understanding of human herpesvirus diversity and evolution
10.1128/jvi.00908-17 · 2018 · External reference
Marek’s disease virus (MDV) ubiquitin-specific protease (USP) performs critical functions beyond its enzymatic activity during virus replication
10.1016/j.virol.2013.01.003 · 2013 · External reference
UL36 encoded by Marek’s disease virus exhibits linkage-specific deubiquitinase activity
10.3390/ijms21051783 · 2020 · External reference
Genetic characterization of a Marek’s disease virus strain isolated in Japan
10.1186/s12985-020-01456-1 · 2020 · External reference
Emerging natural recombinant Marek’s disease virus between vaccine and virulence strains and their pathogenicity
10.1111/tbed.14506 · 2022 · External reference
Genomic analysis of a Chinese MDV strain derived from vaccine strain CVI988 through recombination
10.1016/j.meegid.2019.104045 · 2020 · External reference
Phylogenetic and molecular epidemiological studies reveal evidence of recombination among Marek’s disease viruses
10.1016/j.virol.2018.01.019 · 2018 · External reference
Effect of Insertion and Deletion in the Meq Protein Encoded by Highly Oncogenic Marek’s Disease Virus on Transactivation Activity and Virulence
10.3390/v14020382 · 20224 · External reference
A Common Live-Attenuated Avian Herpesvirus Vaccine Expresses a Very Potent Oncogene
10.1128/msphere.00658-19 · 2019 · External reference
Comparative analysis of Marek’s disease virus (MDV) glycoprotein-, lytic antigen pp38- and transformation antigen Meq-encoding genes: association of meq mutations with MDVs of high virulence
10.1016/j.vetmic.2004.06.007 · 2004 · External reference
Application of CRISPR/Cas9 Gene Editing System on MDV-1 Genome for the Study of Gene Function
10.3390/v10060279 · 2018 · External reference
Differential Replication and Cytokine Response between Vaccine and Very Virulent Marek’s Disease Viruses in Spleens and Bursas during Latency and Reactivation
10.3390/v15010006 · 2022 · External reference
How sequence alterations enhance the stability and delay expansion of DNA triplet repeat domains
10.1017/qrd.2023.6 · 2023 · External reference
Characterization of Marek’s disease virus insertion and deletion mutants that lack US1 (ICP22 homolog), US10, and/or US2 and neighboring short-component open reading frames
10.1128/jvi.68.12.8239-8253.1994 · 1994 · External reference
Retention of oncogenicity by a Marek’s disease virus mutant lacking six unique short region genes
10.1128/jvi.69.12.7888-7898.1995 · 1995 · External reference
Defective viral genomes: advances in understanding their generation, function, and impact on infection outcomes
10.1128/mbio.00692-24 · 2024 · External reference
Defective interfering particles from poliovirus vaccine and vaccine reference strains
10.1016/0042-6822(74)90352-3 · 1974 · External reference
Low infectivity of HSV-1 DNA caused by defective-interfering genomes
10.1099/0022-1317-63-2-307 · 1982 · External reference
Molecular basis for interference of defective interfering particles of pseudorabies virus with replication of standard virus
10.1128/jvi.59.2.308-317.1986 · 1986 · External reference
Generation of measles virus defective interfering particles and their presence in a preparation of attenuated live-virus vaccine
10.1128/jvi.62.8.2859-2866.1988 · 1988 · External reference
Wide occurrence of measles virus subgenomic RNAs in attenuated live-virus vaccines
10.1016/1045-1056(90)90039-3 · 1990 · External reference
Live Attenuated Influenza Vaccine Contains Substantial and Unexpected Amounts of Defective Viral Genomic RNA
10.3390/v9100269 · 2017 · External reference
Suspension culture of Marek’s disease virus and evaluation of its immunological effects
10.1080/03079457.2018.1556385 · 2019 · External reference
Repetitive DNA and next-generation sequencing: computational challenges and solutions
10.1038/nrg3117 · 2011 · External reference
Human Pangenomics: Promises and Challenges of a Distributed Genomic Reference
2023 · External reference
A gentle introduction to pangenomics
10.1093/bib/bbae588 · 2024 · External reference
GenBank
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The NCI Genomic Data Commons as an Engine for Precision Medicine
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