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

A new coronavirus associated with human respiratory disease in China

(2020) Fan Wu et al.   NATURE

A pneumonia outbreak associated with a new coronavirus of probable bat origin

(2020) Peng Zhou et al.   NATURE

A Novel Coronavirus from Patients with Pneumonia in China, 2019

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Imbalanced Host Response to SARS-CoV-2 Drives Development of COVID-19

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Characterization and functional analysis of chicken APOBEC4

(2020) Mengyu Shi et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19

(2020) Mingfeng Liao et al.   NATURE MEDICINE

Structural Insights into APOBEC3-Mediated Lentiviral Restriction

(2020) Krista A. Delviks-Frankenberry et al.   Viruses-Basel

Evidence for host-dependent RNA editing in the transcriptome of SARS-CoV-2

(2020) Salvatore Di Giorgio et al.   Science Advances

Rampant C→U Hypermutation in the Genomes of SARS-CoV-2 and Other Coronaviruses: Causes and Consequences for Their Short- and Long-Term Evolutionary Trajectories

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Emergence of genomic diversity and recurrent mutations in SARS-CoV-2

(2020) Lucy van Dorp et al.   INFECTION GENETICS AND EVOLUTION

Similarity between mutation spectra in hypermutated genomes of rubella virus and in SARS-CoV-2 genomes accumulated during the COVID-19 pandemic

(2020) Leszek J. Klimczak et al.   PLoS One

The Role of APOBECs in Viral Replication

(2020) Wendy Kaichun Xu et al.   Microorganisms

CAEV Vif Hijacks ElonginB/C, CYPA and Cullin5 to Assemble the E3 Ubiquitin Ligase Complex Stepwise to Degrade oaA3Z2-Z3

(2019) Zhilei Zhao et al.   Frontiers in Microbiology

Infectious vaccine-derived rubella viruses emerge, persist, and evolve in cutaneous granulomas of children with primary immunodeficiencies

(2019) Ludmila Perelygina et al.   PLoS Pathogens

Deamination hotspots among APOBEC3 family members are defined by both target site sequence context and ssDNA secondary structure

(2019) Yumeng Z McDaniel et al.   NUCLEIC ACIDS RESEARCH

Retroviruses drive the rapid evolution of mammalianAPOBEC3genes

(2019) Jumpei Ito et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Simian Immunodeficiency Virus Vif and Human APOBEC3B Interactions Resemble Those between HIV-1 Vif and Human APOBEC3G

(2018) Jiayi Wang et al.   JOURNAL OF VIROLOGY

Differential Evolution of Antiretroviral Restriction Factors in Pteropid Bats as Revealed by APOBEC3 Gene Complexity

(2018) Joshua A Hayward et al.   MOLECULAR BIOLOGY AND EVOLUTION

Diversification of AID/APOBEC-like deaminases in metazoa: multiplicity of clades and widespread roles in immunity

(2018) Arunkumar Krishnan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Feline APOBEC3s, Barriers to Cross-Species Transmission of FIV?

(2018) Zeli Zhang et al.   Viruses-Basel

AID/APOBEC-like cytidine deaminases are ancient innate immune mediators in invertebrates

(2018) Mei-Chen Liu et al.   Nature Communications

APOBEC3-mediated restriction of RNA virus replication

(2018) Aleksandra Milewska et al.   Scientific Reports

Enterovirus 71 antagonizes the inhibition of the host intrinsic antiviral factor A3G

(2018) Zhaolong Li et al.   NUCLEIC ACIDS RESEARCH

A conflict of interest: the evolutionary arms race between mammalian APOBEC3 and lentiviral Vif

(2017) Yusuke Nakano et al.   Retrovirology

APOBEC3A damages the cellular genome during DNA replication

(2016) Abby M. Green et al.   CELL CYCLE

Assembly and Expression of Shark Ig Genes

(2016) Ellen Hsu   JOURNAL OF IMMUNOLOGY

Defective proviruses rapidly accumulate during acute HIV-1 infection

(2016) Katherine M Bruner et al.   NATURE MEDICINE

RNA binding to APOBEC deaminases; Not simply a substrate for C to U editing

(2016) Harold C. Smith   RNA Biology

The APOBEC Protein Family: United by Structure, Divergent in Function

(2016) Jason D. Salter et al.   TRENDS IN BIOCHEMICAL SCIENCES

The double-domain cytidine deaminase APOBEC3G is a cellular site-specific RNA editing enzyme

(2016) Shraddha Sharma et al.   Scientific Reports

An APOBEC3A hypermutation signature is distinguishable from the signature of background mutagenesis by APOBEC3B in human cancers

(2015) Kin Chan et al.   NATURE GENETICS

Tissue-based map of the human proteome

(2015) M. Uhlen et al.   SCIENCE

APOBEC3 genes: retroviral restriction factors to cancer drivers

(2015) Stephen Henderson et al.   TRENDS IN MOLECULAR MEDICINE

APOBECs and virus restriction

(2015) Reuben S. Harris et al.   VIROLOGY

On the biased nucleotide composition of the human coronavirus RNA genome

(2015) Ben Berkhout et al.   VIRUS RESEARCH

APOBEC3A cytidine deaminase induces RNA editing in monocytes and macrophages

(2015) Shraddha Sharma et al.   Nature Communications

APOBEC3B: Pathological consequences of an innate immune DNA mutator

(2015) ReubenS Harris et al.   Biomedical Journal

C to U RNA editing mediated by APOBEC1 requires RNA-binding protein RBM47

(2014) N. Fossat et al.   EMBO REPORTS

APOBEC3A Functions as a Restriction Factor of Human Papillomavirus

(2014) Cody J. Warren et al.   JOURNAL OF VIROLOGY

Core Binding Factor Beta Plays a Critical Role by Facilitating the Assembly of the Vif-Cullin 5 E3 Ubiquitin Ligase

(2014) J. L. Fribourgh et al.   JOURNAL OF VIROLOGY

Cellular Requirements for Bovine Immunodeficiency Virus Vif-Mediated Inactivation of Bovine APOBEC3 Proteins

(2014) W. Zhang et al.   JOURNAL OF VIROLOGY

Structural basis for hijacking CBF-β and CUL5 E3 ligase complex by HIV-1 Vif

(2014) Yingying Guo et al.   NATURE

Structure-Guided Analysis of the Human APOBEC3-HIV Restrictome

(2014) Halil Aydin et al.   STRUCTURE

APOBEC3A deaminates transiently exposed single-strand DNA during LINE-1 retrotransposition

(2014) Sandra R Richardson et al.   eLife

AID and APOBECs span the gap between innate and adaptive immunity

(2014) Arnaud Moris et al.   Frontiers in Microbiology

Genome-wide identification and functional analysis of Apobec-1-mediated C-to-U RNA editing in mouse small intestine and liver

(2014) Valerie Blanc et al.   GENOME BIOLOGY

Multiple APOBEC3 Restriction Factors for HIV-1 and One Vif to Rule Them All

(2013) Belete A. Desimmie et al.   JOURNAL OF MOLECULAR BIOLOGY

Prototype Foamy Virus Bet Impairs the Dimerization and Cytosolic Solubility of Human APOBEC3G

(2013) A. A. Jaguva Vasudevan et al.   JOURNAL OF VIROLOGY

Footprint of APOBEC3 on the Genome of Human Retroelements

(2013) F. Anwar et al.   JOURNAL OF VIROLOGY

An APOBEC cytidine deaminase mutagenesis pattern is widespread in human cancers

(2013) Steven A Roberts et al.   NATURE GENETICS

RNA editing of hepatitis B virus transcripts by activation-induced cytidine deaminase

(2013) G. Liang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Uracil DNA glycosylase initiates degradation of HIV-1 cDNA containing misincorporated dUTP and prevents viral integration

(2013) A. F. Weil et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coronaviruses Lacking Exoribonuclease Activity Are Susceptible to Lethal Mutagenesis: Evidence for Proofreading and Potential Therapeutics

(2013) Everett Clinton Smith et al.   PLoS Pathogens

DNA deaminases induce break-associated mutation showers with implication of APOBEC3B and 3A in breast cancer kataegis

(2013) Benjamin JM Taylor et al.   eLife

An ancient history of gene duplications, fusions and losses in the evolution of APOBEC3 mutators in mammals

(2012) Carsten Münk et al.   BMC EVOLUTIONARY BIOLOGY

Isolation of a Novel Coronavirus from a Man with Pneumonia in Saudi Arabia

(2012) Ali M. Zaki et al.   NEW ENGLAND JOURNAL OF MEDICINE

Antiviral Immune Responses of Bats: A Review

(2012) M. L. Baker et al.   Zoonoses and Public Health

Excessive activity of apolipoprotein B mRNA editing enzyme catalytic polypeptide 2 (APOBEC2) contributes to liver and lung tumorigenesis

(2011) Shunsuke Okuyama et al.   INTERNATIONAL JOURNAL OF CANCER

The innate antiviral factor APOBEC3G targets replication of measles, mumps and respiratory syncytial viruses

(2011) M. Fehrholz et al.   JOURNAL OF GENERAL VIROLOGY

Genetic Editing of Herpes Simplex Virus 1 and Epstein-Barr Herpesvirus Genomes by Human APOBEC3 Cytidine Deaminases in Culture and In Vivo

(2011) R. Suspene et al.   JOURNAL OF VIROLOGY

T-cell differentiation factor CBF-β regulates HIV-1 Vif-mediated evasion of host restriction

(2011) Wenyan Zhang et al.   NATURE

Vif hijacks CBF-β to degrade APOBEC3G and promote HIV-1 infection

(2011) Stefanie Jäger et al.   NATURE

Transcriptome-wide sequencing reveals numerous APOBEC1 mRNA-editing targets in transcript 3′ UTRs

(2011) Brad R Rosenberg et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems

(2011) Lakshminarayan M. Iyer et al.   NUCLEIC ACIDS RESEARCH

Intrinsic restriction activity by apolipoprotein B mRNA editing enzyme APOBEC1 against the mobility of autonomous retrotransposons

(2011) Terumasa Ikeda et al.   NUCLEIC ACIDS RESEARCH

APOBEC2, a selective inhibitor of TGFβ signaling, regulates left–right axis specification during early embryogenesis

(2010) Alin Vonica et al.   DEVELOPMENTAL BIOLOGY

Lack of Apobec2-related proteins causes a dystrophic muscle phenotype in zebrafish embryos

(2010) Christelle Etard et al.   JOURNAL OF CELL BIOLOGY

Epidemiology and Clinical Presentations of the Four Human Coronaviruses 229E, HKU1, NL63, and OC43 Detected over 3 Years Using a Novel Multiplex Real-Time PCR Method

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APOBEC1 and APOBEC3 Cytidine Deaminases as Restriction Factors for Hepadnaviral Genomes in Non-Humans In Vivo

(2010) Myrtille Renard et al.   JOURNAL OF MOLECULAR BIOLOGY

Vif of Feline Immunodeficiency Virus from Domestic Cats Protects against APOBEC3 Restriction Factors from Many Felids

(2010) J. Zielonka et al.   JOURNAL OF VIROLOGY

G to A hypermutation of TT virus

(2010) Masataka Tsuge et al.   VIRUS RESEARCH

Infidelity of SARS-CoV Nsp14-Exonuclease Mutant Virus Replication Is Revealed by Complete Genome Sequencing

(2010) Lance D. Eckerle et al.   PLoS Pathogens

AID splice variants lack deaminase activity

(2009) F. van Maldegem et al.   BLOOD

Deficiency in APOBEC2 Leads to a Shift in Muscle Fiber Type, Diminished Body Mass, and Myopathy

(2009) Yusuke Sato et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

AID can restrict L1 retrotransposition suggesting a dual role in innate and adaptive immunity

(2009) Donna A. MacDuff et al.   NUCLEIC ACIDS RESEARCH

Human APOBEC1 cytidine deaminase edits HBV DNA

(2009) Minerva Gonzalez et al.   Retrovirology

High level expression of the anti-retroviral protein APOBEC3G is induced by influenza A virus but does not confer antiviral activity

(2009) Eva-K Pauli et al.   Retrovirology

APOBEC3G cytidine deaminase association with coronavirus nucleocapsid protein

(2009) Shui-Mei Wang et al.   VIROLOGY

Deaminase-Independent Inhibition of Parvoviruses by the APOBEC3A Cytidine Deaminase

(2009) Iñigo Narvaiza et al.   PLoS Pathogens

The artiodactyl APOBEC3 innate immune repertoire shows evidence for a multi-functional domain organization that existed in the ancestor of placental mammals

(2008) Rebecca S LaRue et al.   BMC MOLECULAR BIOLOGY

Human APOBEC3G Can Restrict Retroviral Infection in Avian Cells and Acts Independently of both UNG and SMUG1

(2008) M.-A. Langlois et al.   JOURNAL OF VIROLOGY

Polymorphisms and Splice Variants Influence the Antiretroviral Activity of Human APOBEC3H

(2008) A. Harari et al.   JOURNAL OF VIROLOGY

Guidelines for Naming Nonprimate APOBEC3 Genes and Proteins

(2008) R. S. LaRue et al.   JOURNAL OF VIROLOGY

Genome analysis of the platypus reveals unique signatures of evolution

(2008) Wesley C. Warren et al.   NATURE

Evidence for Editing of Human Papillomavirus DNA by APOBEC3 in Benign and Precancerous Lesions

(2008) J.-P. Vartanian et al.   SCIENCE