4.4 Article

Evolutionary potential of the monkeypox genome arising from interactions with human APOBEC3 enzymes

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Virology

Inverted repeats in the monkeypox virus genome are hot spots for mutation

Michaela Dobrovolna et al.

Summary: The 2022 monkeypox virus strain shows significant differences from the 2018 strain, with over 50 single nucleotide polymorphisms (SNPs) and a faster mutation rate. The study found that inverted repeat sequences (IRs) within the monkeypox virus genomes were hotspots for mutation, with a large proportion of SNPs arising within these regions. This evidence supports the hypothesis that APOBEC drives the mutation of monkeypox virus and emphasizes the need for enhanced surveillance of IRs to detect new mutations.

JOURNAL OF MEDICAL VIROLOGY (2023)

Article Infectious Diseases

The end of the mpox pandemic?

Talha Burki

LANCET INFECTIOUS DISEASES (2023)

Article Microbiology

An APOBEC3 Mutational Signature in the Genomes of Human-Infecting Orthopoxviruses

Diego Forni et al.

Summary: The ongoing monkeypox outbreak is caused by viral lineages related to but distinct from Nigerian MPXV viruses. APOBEC-mediated editing might be responsible for the high number of mutations observed in hMPXV1 genomes. Mutation analysis revealed a prevalence of C-to-T and G-to-A mutations, consistent with the preferences of human APOBEC3 enzymes. The impact of APOBEC3 enzymes on the evolution of different orthopoxviruses was also demonstrated.

MSPHERE (2023)

Review Immunology

How can imported monkeypox break the borders? A rapid systematic review

Ramy Mohamed Ghazy et al.

Summary: This review focuses on imported cases of monkeypox in order to prevent further spread of the disease. A total of 113 imported cases were confirmed worldwide, with the virus originating from West Africa. Infection sources include sexual contact, contact with individuals displaying monkeypox symptoms, nosocomial infection, consumption of barbecued bushmeat, and contact with rodent carcasses. Establishing surveillance systems, implementing point-of-entry screening, and promoting effective health communication are crucial for preventing and controlling monkeypox.

COMPARATIVE IMMUNOLOGY MICROBIOLOGY AND INFECTIOUS DISEASES (2023)

Article Immunology

Exportation of Monkeypox Virus From the African Continent

Matthew R. Mauldin et al.

Summary: There is no direct linkage between the individuals who exported the monkeypox cases from Nigeria, but there is limited genetic variation among the viruses, suggesting a possible common source or independent infections within a small geographic area.

JOURNAL OF INFECTIOUS DISEASES (2022)

Editorial Material Multidisciplinary Sciences

When viruses become more virulent

Joel O. Wertheim

SCIENCE (2022)

Article Microbiology

Tecovirimat is effective against human monkeypox virus in vitro at nanomolar concentrations

Gaële Frenois-Veyrat et al.

Summary: The largest monkeypox virus outbreak ever recorded outside of Africa has been reported. Researchers have isolated and sequenced a virus from the first diagnosed MPXV case in France (May 2022). The study found that tecovirimat, an approved drug by the US Food and Drug Administration, is effective against this virus at nanomolar concentrations, while cidofovir only works at micromolar concentrations. These results support the use of tecovirimat in ongoing human clinical trials.

NATURE MICROBIOLOGY (2022)

Article Biochemistry & Molecular Biology

Phylogenomic characterization and signs of microevolution in the 2022 multi-country outbreak of monkeypox virus

Joana Isidro et al.

Summary: In this study, shotgun metagenomics were used to rapidly reconstruct and characterize the genome sequences of the largest monkeypox virus outbreak in non-endemic countries so far. The findings indicate that the outbreak most likely has a single origin and that the virus belongs to clade 3. Furthermore, the study suggests the involvement of host APOBEC3 in viral evolution and reveals signs of ongoing microevolution in the virus.

NATURE MEDICINE (2022)

Article Immunology

Tecovirimat for the Treatment of Human Monkeypox: An Initial Series From Massachusetts, United States

Wilfredo R. Matias et al.

Summary: Three patients with monkeypox were treated with tecovirimat, a pan-Orthopoxvirus inhibitor, and the results showed the potential efficacy of this drug in treating monkeypox.

OPEN FORUM INFECTIOUS DISEASES (2022)

Letter Medicine, General & Internal

Evolutionary consequences of delaying intervention for monkeypox

Philip L. F. Johnson et al.

LANCET (2022)

News Item Biochemistry & Molecular Biology

The unknown efficacy of tecovirimat against monkeypox

Thiago Carvalho

NATURE MEDICINE (2022)

Article Multidisciplinary Sciences

Multiple lineages of monkeypox virus detected in the United States, 2021-2022

Crystal M. Gigante et al.

Summary: Monkeypox, a viral zoonotic disease endemic in Central and West Africa, has recently been reported in non-endemic countries. A study found two lineages of monkeypox virus (MPXV) in US cases, with one being the major variant of the 2022 outbreak and the other being a minor variant. Analysis suggests that APOBEC3 gene activity may be a dominant driver of MPXV evolution in the current outbreak.

SCIENCE (2022)

Article Virology

Potential APOBEC-mediated RNA editing of the genomes of SARS-CoV-2 and other coronaviruses and its impact on their longer term evolution

Jeremy Ratcliff et al.

Summary: Members of the APOBEC family exhibit antiviral activities in mammalian cells through lethal editing of the genomes of various viruses, including RNA viruses like coronaviruses. APOBEC-like C-*U transitions are significantly overrepresented in the SARS-CoV-2 genome sequences during the COVID-19 pandemic, which may leave evolutionary imprints on coronavirus genomes. This process may lead to homoplasy and amino acid sequence changes in viral proteins, potentially explaining global depletion of C and excess of U bases in human seasonal coronavirus genomes.

VIROLOGY (2021)

Article Multidisciplinary Sciences

An extended APOBEC3A mutation signature in cancer

Adam Langenbucher et al.

Summary: APOBEC mutagenesis, a major driver of cancer evolution, targets TpC sites in DNA. Recent research indicates that DNA secondary structure influences A3A substrate optimality and can override TpC sequence preference. VpC sites in optimal hairpins can outperform TpC sites as mutational hotspots, shedding light on the genomic Twin Paradox in cancer genomes.

NATURE COMMUNICATIONS (2021)

Article Evolutionary Biology

Transcription, mRNA Export, and Immune Evasion Shape the Codon Usage of Viruses

Christine Mordstein et al.

Summary: The codon usage of viruses is influenced by various selective and mutational pressures, including GC content, dinucleotide content, and sequence motifs related to gene regulation. The effects of these factors on gene expression vary depending on whether the genetic material is DNA or RNA, how it is transcribed, and where transcription occurs.

GENOME BIOLOGY AND EVOLUTION (2021)

Article Microbiology

Mutational pressure by host APOBEC3s more strongly affects genes expressed early in the lytic phase of herpes simplex virus-1 (HSV-1) and human polyomavirus (HPyV) infection

Maxwell Shapiro et al.

Summary: The study found that IE and E genes are more vulnerable to A3 mutations during the lytic cycle of HSV-1. This model also applies to human Polyomaviruses, indicating that genes expressed early during infection are more susceptible to mutations.

PLOS PATHOGENS (2021)

Article Microbiology

Extensive C->U transition biases in the genomes of a wide range of mammalian RNA viruses; potential associations with transcriptional mutations, damage- or host-mediated editing of viral RNA

Peter Simmonds et al.

Summary: The study found a preponderance of C->U transitions in diverse mammalian RNA viruses, suggesting a potential RNA editing process driving this phenomenon. The presence of genome scale RNA secondary structure was significantly associated with C->U/U->C transition asymmetries, indicating a possible RNA structure dependence of sites targeted for C->U mutations. These C->U mutations accounted for a significant portion of standing sequence variability of structured viruses, potentially driving their sequence diversification and longer-term evolution.

PLOS PATHOGENS (2021)

Article Multidisciplinary Sciences

Quantification of ongoing APOBEC3A activity in tumor cells by monitoring RNA editing at hotspots

Pegah Jalili et al.

NATURE COMMUNICATIONS (2020)

Article Microbiology

Footprint of the host restriction factors APOBEC3 on the genome of human viruses

Florian Poulain et al.

PLOS PATHOGENS (2020)

Review Virology

Mouse APOBEC3 Restriction of Retroviruses

Karen Salas-Briceno et al.

VIRUSES-BASEL (2020)

Article Multidisciplinary Sciences

Diverse variola virus (smallpox) strains were widespread in northern Europe in the Viking Age

Barbara Muehlemann et al.

SCIENCE (2020)

Article Biochemistry & Molecular Biology

APOBEC3B Nuclear Localization Requires Two Distinct N-Terminal Domain Surfaces

Daniel J. Salamango et al.

JOURNAL OF MOLECULAR BIOLOGY (2018)

Article Virology

Re-Assembly and Analysis of an Ancient Variola Virus Genome

Chad Smithson et al.

VIRUSES-BASEL (2017)

Review Biochemistry & Molecular Biology

Mechanisms of viral mutation

Rafael Sanjuan et al.

CELLULAR AND MOLECULAR LIFE SCIENCES (2016)

Article Biochemistry & Molecular Biology

17th Century Variola Virus Reveals the Recent History of Smallpox

Ana T. Duggan et al.

CURRENT BIOLOGY (2016)

Review Virology

APOBEC3 Interference during Replication of Viral Genomes

Luc Willems et al.

VIRUSES-BASEL (2015)

Article Biochemistry & Molecular Biology

Poxviruses Deploy Genomic Accordions to Adapt Rapidly against Host Antiviral Defenses

Nels C. Elde et al.

Article Immunology

IFN-α and Lipopolysaccharide Upregulate APOBEC3 mRNA through Different Signaling Pathways

Harshini V. Mehta et al.

JOURNAL OF IMMUNOLOGY (2012)

Article Biochemistry & Molecular Biology

APOBEC3B and AID Have Similar Nuclear Import Mechanisms

Lela Lackey et al.

JOURNAL OF MOLECULAR BIOLOGY (2012)

Article Biochemistry & Molecular Biology

ViralZone: a knowledge resource to understand virus diversity

Chantal Hulo et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Virology

Viral Mutation Rates

Rafael Sanjuan et al.

JOURNAL OF VIROLOGY (2010)

Article Virology

Orthopoxvirus Genome Evolution: The Role of Gene Loss

Robert Curtis Hendrickson et al.

VIRUSES-BASEL (2010)

Article Virology

Defining APOBEC3 Expression Patterns in Human Tissues and Hematopoietic Cell Subsets

Fransje A. Koning et al.

JOURNAL OF VIROLOGY (2009)

Article Biotechnology & Applied Microbiology

Functions, structure, and read-through alternative splicing of feline APOBEC3 genes

Carsten Muenk et al.

GENOME BIOLOGY (2008)

Article Biochemistry & Molecular Biology

Properties of the recombinant TNF-binding proteins from variola, monkeypox, and cowpox viruses are different

Irina P. Gileva et al.

BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS (2006)

Article Virology

Vaccinia virus replication is not affected by APOBEC3 family members

Melanie Kremer et al.

VIROLOGY JOURNAL (2006)

Article Biochemistry & Molecular Biology

Twin gradients in APOBEC3 edited HIV-1 DNA reflect the dynamics of lentiviral replication

Rodolphe Suspene et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Biochemistry & Molecular Biology

APOBEC3A and APOBEC3B are potent inhibitors of LTR-retrotransposon function in human cells

HP Bogerd et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Biochemistry & Molecular Biology

Poxvirus genome evolution by gene gain and loss

AL Hughes et al.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2005)

Review Microbiology

Poxvirus tropism

G McFadden

NATURE REVIEWS MICROBIOLOGY (2005)

Article Biotechnology & Applied Microbiology

Poxvirus genomes: a phylogenetic analysis

C Gubser et al.

JOURNAL OF GENERAL VIROLOGY (2004)

Article Multidisciplinary Sciences

Extensive gene gain associated with adaptive evolution of poxviruses

A McLysaght et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)