Retroviral integration: Site matters

Natural polymorphism S119R of HIV-1 integrase enhances primary INSTI resistance

(2015) Atsuko Hachiya et al.   ANTIVIRAL RESEARCH

A Hardwired HIV Latency Program

(2015) Brandon S. Razooky et al.   CELL

An Evolutionary Role for HIV Latency in Enhancing Viral Transmission

(2015) Igor M. Rouzine et al.   CELL

HIV-1 Integration Landscape during Latent and Active Infection

(2015) Lillian B. Cohn et al.   CELL

Nucleosome adaptability conferred by sequence and structural variations in histone H2A–H2B dimers

(2015) Alexey K Shaytan et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Structural basis for retroviral integration into nucleosomes

(2015) Daniel P. Maskell et al.   NATURE

Nuclear architecture dictates HIV-1 integration site selection

(2015) Bruna Marini et al.   NATURE

Intasome architecture and chromatin density modulate retroviral integration into nucleosome

(2015) Mohamed Benleulmi et al.   Retrovirology

The Tat Inhibitor Didehydro-Cortistatin A Prevents HIV-1 Reactivation from Latency

(2015) Guillaume Mousseau et al.   mBio

3D hotspots of recurrent retroviral insertions reveal long-range interactions with cancer genes

(2015) Sepideh Babaei et al.   Nature Communications

Chromatin organization at the nuclear pore favours HIV replication

(2015) Mickaël Lelek et al.   Nature Communications

The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma

(2014) L. B. Cook et al.   BLOOD

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

HIV-1 Integrase Variants Retarget Viral Integration and Are Associated with Disease Progression in a Chronic Infection Cohort

(2014) Jonas Demeulemeester et al.   Cell Host & Microbe

Nuclear pores as versatile platforms for gene regulation

(2014) Pau Pascual-Garcia et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Nuclear pore interactions with the genome

(2014) Varun Sood et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Enhancers Are Major Targets for Murine Leukemia Virus Vector Integration

(2014) S. S. De Ravin et al.   JOURNAL OF VIROLOGY

Altering murine leukemia virus integration through disruption of the integrase and BET protein family interaction

(2014) Sriram Aiyer et al.   NUCLEIC ACIDS RESEARCH

MLV integration site selection is driven by strong enhancers and active promoters

(2014) Matthew C. LaFave et al.   NUCLEIC ACIDS RESEARCH

Bimodal high-affinity association of Brd4 with murine leukemia virus integrase and mononucleosomes

(2014) Ross C. Larue et al.   NUCLEIC ACIDS RESEARCH

Integrase residues that determine nucleotide preferences at sites of HIV-1 integration: implications for the mechanism of target DNA binding

(2014) Erik Serrao et al.   NUCLEIC ACIDS RESEARCH

Direct non-productive HIV-1 infection in a T-cell line is driven by cellular activation state and NFκB

(2014) Matthew S Dahabieh et al.   Retrovirology

Proliferation of cells with HIV integrated into cancer genes contributes to persistent infection

(2014) T. A. Wagner et al.   SCIENCE

Specific HIV integration sites are linked to clonal expansion and persistence of infected cells

(2014) F. Maldarelli et al.   SCIENCE

Structure and function of the nucleosome-binding PWWP domain

(2014) Su Qin et al.   TRENDS IN BIOCHEMICAL SCIENCES

Integration Site and Clonal Expansion in Human Chronic Retroviral Infection and Gene Therapy

(2014) Heather Niederer et al.   Viruses-Basel

Host Cofactors and Pharmacologic Ligands Share an Essential Interface in HIV-1 Capsid That Is Lost upon Disassembly

(2014) Amanda J. Price et al.   PLoS Pathogens

The N-Terminus of Murine Leukaemia Virus p12 Protein Is Required for Mature Core Stability

(2014) Darren J. Wight et al.   PLoS Pathogens

Lack of Detectable HIV-1 Molecular Evolution during Suppressive Antiretroviral Therapy

(2014) Mary F. Kearney et al.   PLoS Pathogens

BET-independent MLV-based Vectors Target Away From Promoters and Regulatory Elements

(2014) Sara El Ashkar et al.   Molecular Therapy-Nucleic Acids

Chromatin Position Effects Assayed by Thousands of Reporters Integrated in Parallel

(2013) Waseem Akhtar et al.   CELL

Proximity to PML Nuclear Bodies Regulates HIV-1 Latency in CD4+ T Cells

(2013) Marina Lusic et al.   Cell Host & Microbe

Bromo- and Extraterminal Domain Chromatin Regulators Serve as Cofactors for Murine Leukemia Virus Integration

(2013) Saumya Shree Gupta et al.   JOURNAL OF VIROLOGY

Phospho Switch Triggers Brd4 Chromatin Binding and Activator Recruitment for Gene-Specific Targeting

(2013) Shwu-Yuan Wu et al.   MOLECULAR CELL

Structural basis for high-affinity binding of LEDGF PWWP to mononucleosomes

(2013) Jocelyn O. Eidahl et al.   NUCLEIC ACIDS RESEARCH

BET proteins promote efficient murine leukemia virus integration at transcription start sites

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

Nuclear import of APOBEC3F-labeled HIV-1 preintegration complexes

(2013) R. C. Burdick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Viral DNA tethering domains complement replication-defective mutations in the p12 protein of MuLV Gag

(2013) William M. Schneider et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single-Cell Imaging of HIV-1 Provirus (SCIP)

(2013) C. Di Primio et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HIV latency and integration site placement in five cell-based models

(2013) Scott Sherrill-Mix et al.   Retrovirology

Are gene loops the cause of transcriptional noise?

(2013) Daniel Hebenstreit   TRENDS IN GENETICS

Nup153 and Nup98 bind the HIV-1 core and contribute to the early steps of HIV-1 replication

(2013) Francesca Di Nunzio et al.   VIROLOGY

Nucleosomal DNA binding drives the recognition of H3K36-methylated nucleosomes by the PSIP1-PWWP domain

(2013) Rick van Nuland et al.   Epigenetics & Chromatin

The BET Family of Proteins Targets Moloney Murine Leukemia Virus Integration near Transcription Start Sites

(2013) Jan De Rijck et al.   Cell Reports

p12 Tethers the Murine Leukemia Virus Pre-integration Complex to Mitotic Chromosomes

(2013) Efrat Elis et al.   PLoS Pathogens

Nucleoporin NUP153 Phenylalanine-Glycine Motifs Engage a Common Binding Pocket within the HIV-1 Capsid Protein to Mediate Lentiviral Infectivity

(2013) Kenneth A. Matreyek et al.   PLoS Pathogens

Genome-wide Determinants of Proviral Targeting, Clonal Abundance and Expression in Natural HTLV-1 Infection

(2013) Anat Melamed et al.   PLoS Pathogens

Histone Recognition and Large-Scale Structural Analysis of the Human Bromodomain Family

(2012) Panagis Filippakopoulos et al.   CELL

An Analog of the Natural Steroidal Alkaloid Cortistatin A Potently Suppresses Tat-Dependent HIV Transcription

(2012) Guillaume Mousseau et al.   Cell Host & Microbe

3′-Processing and strand transfer catalysed by retroviral integrasein crystallo

(2012) Stephen Hare et al.   EMBO JOURNAL

Chromatin accessibility at the HIV LTR promoter sets a threshold for NF-κB mediated viral gene expression

(2012) Kathryn Miller-Jensen et al.   Integrative Biology

Study of Genotypic and Phenotypic HIV-1 Dynamics of Integrase Mutations During Raltegravir Treatment: A Refined Analysis by Ultra-Deep 454 Pyrosequencing

(2012) Daniele Armenia et al.   JOURNAL OF INFECTIOUS DISEASES

Differential Effects of Human Immunodeficiency Virus Type 1 Capsid and Cellular Factors Nucleoporin 153 and LEDGF/p75 on the Efficiency and Specificity of Viral DNA Integration

(2012) Y. Koh et al.   JOURNAL OF VIROLOGY

Uncommon Pathways of Immune Escape Attenuate HIV-1 Integrase Replication Capacity

(2012) M. A. Brockman et al.   JOURNAL OF VIROLOGY

HRP2 determines the efficiency and specificity of HIV-1 integration in LEDGF/p75 knockout cells but does not contribute to the antiviral activity of a potent LEDGF/p75-binding site integrase inhibitor

(2012) Hao Wang et al.   NUCLEIC ACIDS RESEARCH

Transcriptional burst frequency and burst size are equally modulated across the human genome

(2012) R. D. Dar et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HRP-2 determines HIV-1 integration site selection in LEDGF/p75 depleted cells

(2012) Rik Schrijvers et al.   Retrovirology

The Gammaretroviral p12 protein has multiple domains that function during the early stages of replication

(2012) Darren J Wight et al.   Retrovirology

LEDGF/p75-Independent HIV-1 Replication Demonstrates a Role for HRP-2 and Remains Sensitive to Inhibition by LEDGINs

(2012) Rik Schrijvers et al.   PLoS Pathogens

Proteogenomic characterization and mapping of nucleosomes decoded by Brd and HP1 proteins

(2012) Gary LeRoy et al.   GENOME BIOLOGY

The host genomic environment of the provirus determines the abundance of HTLV-1-infected T-cell clones

(2011) N. A. Gillet et al.   BLOOD

Structural insights into the retroviral DNA integration apparatus

(2011) Peter Cherepanov et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Gammaretroviral Integration into Nucleosomal Target DNA In Vivo

(2011) S. L. Roth et al.   JOURNAL OF VIROLOGY

Why do RNA viruses recombine?

(2011) Etienne Simon-Loriere et al.   NATURE REVIEWS MICROBIOLOGY

Majority of CD4+ T cells from peripheral blood of HIV-1-infected individuals contain only one HIV DNA molecule

(2011) L. Josefsson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HIV-1 Capsid-Cyclophilin Interactions Determine Nuclear Import Pathway, Integration Targeting and Replication Efficiency

(2011) Torsten Schaller et al.   PLoS Pathogens

HIV Integration Targeting: A Pathway Involving Transportin-3 and the Nuclear Pore Protein RanBP2

(2011) Karen E. Ocwieja et al.   PLoS Pathogens

Transcriptional Bursting from the HIV-1 Promoter Is a Significant Source of Stochastic Noise in HIV-1 Gene Expression

(2010) Abhyudai Singh et al.   BIOPHYSICAL JOURNAL

Effects of Alu elements on global nucleosome positioning in the human genome

(2010) Yoshiaki Tanaka et al.   BMC GENOMICS

Protein Tpr is required for establishing nuclear pore-associated zones of heterochromatin exclusion

(2010) Sandra Krull et al.   EMBO JOURNAL

Specific HIV-1 integrase polymorphisms change their prevalence in untreated versus antiretroviral-treated HIV-1-infected patients, all naive to integrase inhibitors

(2010) Francesca Ceccherini-Silberstein et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

LEDGF Hybrids Efficiently Retarget Lentiviral Integration Into Heterochromatin

(2010) Rik Gijsbers et al.   MOLECULAR THERAPY

Retroviral intasome assembly and inhibition of DNA strand transfer

(2010) Stephen Hare et al.   NATURE

The mechanism of retroviral integration from X-ray structures of its key intermediates

(2010) Goedele N. Maertens et al.   NATURE

High-resolution profiling of the LEDGF/p75 chromatin interaction in the ENCODE region

(2010) Jan De Rijck et al.   NUCLEIC ACIDS RESEARCH

Lens epithelium-derived growth factor fusion proteins redirect HIV-1 DNA integration

(2010) A. L. Ferris et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptional competence of the integrated HIV-1 provirus at the nuclear periphery

(2009) Mariacarolina Dieudonné et al.   EMBO JOURNAL

Modification of Integration Site Preferences of an HIV-1-Based Vector by Expression of a Novel Synthetic Protein

(2009) Robert M. Silvers et al.   HUMAN GENE THERAPY

Functions of Tat: the versatile protein of human immunodeficiency virus type 1

(2009) B. Romani et al.   JOURNAL OF GENERAL VIROLOGY

Cooperative binding of two acetylation marks on a histone tail by a single bromodomain

(2009) Jeanne Morinière et al.   NATURE

HIV reservoir size and persistence are driven by T cell survival and homeostatic proliferation

(2009) Nicolas Chomont et al.   NATURE MEDICINE

Control of Stochastic Gene Expression by Host Factors at the HIV Promoter

(2009) John C. Burnett et al.   PLoS Pathogens

A Novel Co-Crystal Structure Affords the Design of Gain-of-Function Lentiviral Integrase Mutants in the Presence of Modified PSIP1/LEDGF/p75

(2009) Stephen Hare et al.   PLoS Pathogens

Orientation-Dependent Regulation of Integrated HIV-1 Expression by Host Gene Transcriptional Readthrough

(2008) Yefei Han et al.   Cell Host & Microbe

Transcriptional Interference Antagonizes Proviral Gene Expression to Promote HIV Latency

(2008) Tina Lenasi et al.   Cell Host & Microbe

Transportin-SR2 Imports HIV into the Nucleus

(2008) Frauke Christ et al.   CURRENT BIOLOGY

Chromodomains direct integration of retrotransposons to heterochromatin

(2008) X. Gao et al.   GENOME RESEARCH

Insertional oncogenesis in 4 patients after retrovirus-mediated gene therapy of SCID-X1

(2008) Salima Hacein-Bey-Abina et al.   JOURNAL OF CLINICAL INVESTIGATION

Transcription-Dependent Gene Looping of the HIV-1 Provirus Is Dictated by Recognition of Pre-mRNA Processing Signals

(2008) Kelly J. Perkins et al.   MOLECULAR CELL

Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions

(2008) Lars Guelen et al.   NATURE

Transient-mediated fate determination in a transcriptional circuit of HIV

(2008) Leor S Weinberger et al.   NATURE GENETICS

HIV-1 Pre-Integration Complexes Selectively Target Decondensed Chromatin in the Nuclear Periphery

(2008) Alberto Albanese et al.   PLoS One

Host proteins interacting with the Moloney murine leukemia virus integrase: Multiple transcriptional regulators and chromatin binding factors

(2008) Barbara Studamire et al.   Retrovirology