Literature DB >> 25502524

Accurate quantification of episomal HIV-1 two-long terminal repeat circles by use of optimized DNA isolation and droplet digital PCR.

Eva Malatinkova1, Maja Kiselinova1, Pawel Bonczkowski1, Wim Trypsteen1, Peter Messiaen1, Jolien Vermeire2, Bruno Verhasselt2, Karen Vervisch1, Linos Vandekerckhove3, Ward De Spiegelaere1.   

Abstract

Episomal HIV-1 two-long terminal repeat (2-LTR) circles are considered markers for ongoing viral replication. Two sample processing procedures were compared to accurately quantify 2-LTR in patients by using droplet digital PCR (ddPCR). Here, we show that plasmid isolation with a spiked non-HIV plasmid for normalization enables more accurate 2-LTR quantification than genomic DNA isolation.
Copyright © 2015, American Society for Microbiology. All Rights Reserved.

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Year:  2014        PMID： 25502524      PMCID： PMC4298544          DOI： 10.1128/JCM.03087-14

Source DB:  PubMed          Journal:  J Clin Microbiol        ISSN： 0095-1137            Impact factor:   5.948


  13 in total

1.  Low-level detection and quantitation of cellular HIV-1 DNA and 2-LTR circles using droplet digital PCR.

Authors:  Timothy J Henrich; Sebastien Gallien; Jonathan Z Li; Florencia Pereyra; Daniel R Kuritzkes
Journal:  J Virol Methods       Date:  2012-09-04       Impact factor: 2.014

Review 2.  Redefining the viral reservoirs that prevent HIV-1 eradication.

Authors:  Evelyn Eisele; Robert F Siliciano
Journal:  Immunity       Date:  2012-09-21       Impact factor: 31.745

3.  HIV-1 replication and immune dynamics are affected by raltegravir intensification of HAART-suppressed subjects.

Authors:  Maria J Buzón; Marta Massanella; Josep M Llibre; Anna Esteve; Viktor Dahl; Maria C Puertas; Josep M Gatell; Pere Domingo; Roger Paredes; Mark Sharkey; Sarah Palmer; Mario Stevenson; Bonaventura Clotet; Julià Blanco; Javier Martinez-Picado
Journal:  Nat Med       Date:  2010-03-14       Impact factor: 53.440

4.  Integrated HIV DNA accumulates prior to treatment while episomal HIV DNA records ongoing transmission afterwards.

Authors:  John M Murray; Kristin McBride; Christoph Boesecke; Michelle Bailey; Janaki Amin; Kazuo Suzuki; David Baker; John J Zaunders; Sean Emery; David A Cooper; Kersten K Koelsch; Anthony D Kelleher
Journal:  AIDS       Date:  2012-03-13       Impact factor: 4.177

Review 5.  New assays for monitoring residual HIV burden in effectively treated individuals.

Authors:  Matthew C Strain; Douglas D Richman
Journal:  Curr Opin HIV AIDS       Date:  2013-03       Impact factor: 4.283

6.  Episomal viral cDNAs identify a reservoir that fuels viral rebound after treatment interruption and that contributes to treatment failure.

Authors:  Mark Sharkey; Dunja Z Babic; Thomas Greenough; Roy Gulick; Daniel R Kuritzkes; Mario Stevenson
Journal:  PLoS Pathog       Date:  2011-02-24       Impact factor: 6.823

7.  Elite suppressors harbor low levels of integrated HIV DNA and high levels of 2-LTR circular HIV DNA compared to HIV+ patients on and off HAART.

Authors:  Erin H Graf; Angela M Mexas; Jianqing J Yu; Farida Shaheen; Megan K Liszewski; Michele Di Mascio; Stephen A Migueles; Mark Connors; Una O'Doherty
Journal:  PLoS Pathog       Date:  2011-02-24       Impact factor: 6.823

8.  Highly precise measurement of HIV DNA by droplet digital PCR.

Authors:  Matthew C Strain; Steven M Lada; Tiffany Luong; Steffney E Rought; Sara Gianella; Valeri H Terry; Celsa A Spina; Christopher H Woelk; Douglas D Richman
Journal:  PLoS One       Date:  2013-04-03       Impact factor: 3.240

9.  Characterization of LEDGF/p75 genetic variants and association with HIV-1 disease progression.

Authors:  Peter Messiaen; Ward De Spiegelaere; Jose Alcami; Karen Vervisch; Petra Van Acker; Bruno Verhasselt; Pieter Meuwissen; Esther Calonge; Nuria Gonzalez; Felix Gutierrez-Rodero; Carmen Rodriguez-Martín; Erica Sermijn; Bruce Poppe; Dirk Vogelaers; Chris Verhofstede; Linos Vandekerckhove
Journal:  PLoS One       Date:  2012-11-30       Impact factor: 3.240

10.  Comparison of droplet digital PCR and seminested real-time PCR for quantification of cell-associated HIV-1 RNA.

Authors:  Maja Kiselinova; Alexander O Pasternak; Ward De Spiegelaere; Dirk Vogelaers; Ben Berkhout; Linos Vandekerckhove
Journal:  PLoS One       Date:  2014-01-21       Impact factor: 3.240
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  12 in total

Review 1.  The Future of Digital Polymerase Chain Reaction in Virology.

Authors:  Matthijs Vynck; Wim Trypsteen; Olivier Thas; Linos Vandekerckhove; Ward De Spiegelaere
Journal:  Mol Diagn Ther       Date:  2016-10       Impact factor: 4.074

2.  Impact of a decade of successful antiretroviral therapy initiated at HIV-1 seroconversion on blood and rectal reservoirs.

Authors:  Eva Malatinkova; Ward De Spiegelaere; Pawel Bonczkowski; Maja Kiselinova; Karen Vervisch; Wim Trypsteen; Margaret Johnson; Chris Verhofstede; Danny de Looze; Charles Murray; Sabine Kinloch-de Loes; Linos Vandekerckhove
Journal:  Elife       Date:  2015-10-06       Impact factor: 8.140

3.  Protein expression from unintegrated HIV-1 DNA introduces bias in primary in vitro post-integration latency models.

Authors:  Pawel Bonczkowski; Marie-Angélique De Scheerder; Eva Malatinkova; Alexandra Borch; Zora Melkova; Renate Koenig; Ward De Spiegelaere; Linos Vandekerckhove
Journal:  Sci Rep       Date:  2016-12-02       Impact factor: 4.379

4.  A comparative analysis of unintegrated HIV-1 DNA measurement as a potential biomarker of the cellular reservoir in the blood of patients controlling and non-controlling viral replication.

Authors:  Chiara Orlandi; Benedetta Canovari; Federica Bozzano; Francesco Marras; Zeno Pasquini; Francesco Barchiesi; Andrea De Maria; Mauro Magnani; Anna Casabianca
Journal:  J Transl Med       Date:  2020-05-19       Impact factor: 5.531

5.  Aviremia 10 Years Postdiscontinuation of Antiretroviral Therapy Initiated During Primary Human Immunodeficiency Virus-1 Infection and Association With Gag-Specific T-Cell Responses.

Authors:  Sabine Kinloch-de Loes; Lucy Dorrell; Hongbing Yang; Gareth A D Hardy; Sabine Yerly; Cristina Cellerai; Linos Vandekerckhove; Ward De Spielgelaere; Eva Malatinkova; Willie Wee Lee Koh; Margaret A Johnson
Journal:  Open Forum Infect Dis       Date:  2015-11-23       Impact factor: 3.835

6.  Virion encapsidated HIV-1 Vpr induces NFAT to prime non-activated T cells for productive infection.

Authors:  Kristin Höhne; Ramona Businger; Anouk van Nuffel; Sebastian Bolduan; Herwig Koppensteiner; Ann Baeyens; Jolien Vermeire; Eva Malatinkova; Bruno Verhasselt; Michael Schindler
Journal:  Open Biol       Date:  2016-07       Impact factor: 6.411

7.  Integrated and Total HIV-1 DNA Predict Ex Vivo Viral Outgrowth.

Authors:  Maja Kiselinova; Ward De Spiegelaere; Maria Jose Buzon; Eva Malatinkova; Mathias Lichterfeld; Linos Vandekerckhove
Journal:  PLoS Pathog       Date:  2016-03-03       Impact factor: 6.823

Review 8.  Digital PCR as a tool to measure HIV persistence.

Authors:  Sofie Rutsaert; Kobus Bosman; Wim Trypsteen; Monique Nijhuis; Linos Vandekerckhove
Journal:  Retrovirology       Date:  2018-01-30       Impact factor: 4.602

9.  Development of sensitive ddPCR assays to reliably quantify the proviral DNA reservoir in all common circulating HIV subtypes and recombinant forms.

Authors:  Kobus J Bosman; Annemarie Mj Wensing; Aster E Pijning; Wilco J van Snippenberg; Petra M van Ham; Dorien Mc de Jong; Andy Im Hoepelman; Monique Nijhuis
Journal:  J Int AIDS Soc       Date:  2018-09       Impact factor: 5.396

10.  Impact of the time to achieve viral control on the dynamics of circulating HIV-1 reservoir in vertically infected children with long-term sustained virological suppression: A longitudinal study.

Authors:  Matías Moragas; Maximiliano Distefano; Debora Mecikovsky; Solange Arazi Caillaud; Carolina Cernadas; Rosa Bologna; Paula Aulicino; Andrea Mangano
Journal:  PLoS One       Date:  2018-10-23       Impact factor: 3.240
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