PhD A.C. van der Kuyl publications

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Publications PhD A.C. van der Kuyl

Position
Research Associate
Main activities
Education, Research
Specialisation
Virology, especially retroviruses
Focus of research

The major focus of my research is HIV-1 pathogenesis, more specific the effect of dual HIV-1 infections. This research line started with the description of the first patient with a double HIV-1 superinfection, resulting in a triple infection with different virus subtypes: B-B'-AE (van der Kuyl et al, NEJM 2005 352: 2557-9). Longitudinal analysis of the patient's samples showed that all three strains remained present both in blood and seminal plasma for years, and that recombinant virus strains were formed.
Studies using RNA- or retroviruses have indicated that superinfections and especially co-infections lead to an increase in viral fitness. We speculated that HIV-1 co- or superinfection, contributes to the process of HIV-1 fitness gain and possibly to the higher virulence of the virus observed in contemporary cohorts in the western world.

2018

  • van der Kuyl Antoinette C., Vink Monique, Zorgdrager Fokla, Bakker Margreet, Wymant Chris, Hall Matthew, Gall Astrid, Blanquart François, Berkhout Ben, Fraser Christophe, Cornelissen Marion The evolution of subtype B HIV-1 tat in the Netherlands during 1985–2012 Virus research 2018;250:51-64 [PubMed]

2017

  • Cornelissen Marion, Gall Astrid, Vink Monique, Zorgdrager Fokla, Binter Špela, Edwards Stephanie, Jurriaans Suzanne, Bakker Margreet, Ong Swee Hoe, Gras Luuk, van Sighem Ard, Bezemer Daniela, de Wolf Frank, Reiss Peter, Kellam Paul, Berkhout Ben, Fraser Christophe, van der Kuyl Antoinette C. From clinical sample to complete genome: Comparing methods for the extraction of HIV-1 RNA for high-throughput deep sequencing Virus research 2017;239:10-16 [PubMed]
  • Klaver Bep, van der Velden Yme, van Hemert Formijn, van der Kuyl Antoinette C., Berkhout Ben HIV-1 tolerates changes in A-count in a small segment of the pol gene Retrovirology 2017;14 (1):43 [PubMed]

2016

  • van Hemert Formijn, van der Kuyl Antoinette C., Berkhout Ben Impact of the biased nucleotide composition of viral RNA genomes on RNA structure and codon usage Journal of general virology 2016;97 (10):2608-2619 [PubMed]
  • Cornelissen Marion, Euler Zelda, van den Kerkhof Tom L. G. M., van Gils Marit J., Boeser-Nunnink Brigitte D. M., Kootstra Neeltje A., Zorgdrager Fokla, Schuitemaker Hanneke, Prins Jan M., Sanders Rogier W., van der Kuyl Antoinette C. The Neutralizing Antibody Response in an Individual with Triple HIV-1 Infection Remains Directed at the First Infecting Subtype AIDS research and human retroviruses 2016;32 (10-11):1135-1142 [PubMed]
  • Cornelissen Marion, Zorgdrager Fokla, Bruisten Sylvia M., Bakker Margreet, Berkhout Ben, van der Kuyl Antoinette C. Widespread hepatitis B virus genotype G (HBV-G) infection during the early years of the HIV epidemic in the Netherlands among men who have sex with men BMC infectious diseases 2016;16 (1):268 [PubMed]

2015

  • Canuti Marta, van Beveren Nico J. M., Jazaeri Farsani Seyed Mohammad, de Vries Michel, Deijs Martin, Jebbink Maarten F., Zaaijer Hans L., van Schaik Barbera D. C., van Kampen Antoine H. C., van der Kuyl Antoinette C., de Haan Lieuwe, Storosum Jitschak G., van der Hoek Lia Viral metagenomics in drug-naïve, first-onset schizophrenia patients with prominent negative symptoms Psychiatry research 2015;229 (3):678-684 [PubMed]

2014

  • van Hemert Formijn, van der Kuyl Antoinette C., Berkhout Ben On the nucleotide composition and structure of retroviral RNA genomes Virus research 2014;193:16-23 [PubMed]

2013

  • van der Kuyl Antoinette C., Zorgdrager Fokla, Hogema Boris, Bakker Margreet, Jurriaans Suzanne, Back Nicole K. T., Berkhout Ben, Zaaijer Hans L., Cornelissen Marion High prevalence of hepatitis B virus dual infection with genotypes A and G in HIV-1 infected men in Amsterdam, the Netherlands, during 2000-2011 BMC infectious diseases 2013;13 (1):540 [PubMed]
  • van Hemert Formijn J., van der Kuyl Antoinette C., Berkhout Ben The A-nucleotide preference of HIV-1 in the context of its structured RNA genome RNA biology 2013;10 (2):211-215 [PubMed]
  • van der Kuyl Antoinette C., Bakker Margreet, Jurriaans Suzanne, Back Nicole K. T., Pasternak Alexander O., Cornelissen Marion, Berkhout Ben Translational HIV-1 research: from routine diagnostics to new virology insights in Amsterdam, the Netherlands during 1983-2013 Retrovirology 2013;10 (1):93 [PubMed]

2012

  • Cornelissen Marion, Pasternak Alexander O., Grijsen Marlous L., Zorgdrager Fokla, Bakker Margreet, Blom Petra, Prins Jan M., Jurriaans Suzanne, van der Kuyl Antoinette C. HIV-1 Dual Infection Is Associated With Faster CD4(+) T-Cell Decline in a Cohort of Men With Primary HIV Infection Clinical infectious diseases 2012;54 (4):539-547 [PubMed]
  • van der Kuyl Antoinette C. HIV infection and HERV expression: a review Retrovirology 2012;9 (1):6 [PubMed]
  • van der Kuyl Antoinette C., Berkhout Ben The biased nucleotide composition of the HIV genome: a constant factor in a highly variable virus Retrovirology 2012;9 (1):92 [PubMed]

2011

  • van der Kuyl Antoinette C. Characterization of a full-length endogenous beta-retrovirus, EqERV-beta1, in the genome of the horse (Equus caballus) Viruses 2011;3 (6):620-628 [PubMed]
  • Hoogmoed Danielle, Cornelissen Marion, van der Kuyl Antoinette C. Clinical relevance of HIV-1 superinfectionin: Theresa L. Chang, editors. HIV-host interactions. Rijeka, Croatia: InTech; 2011. p. 79-96, ISBN 9789533074429
  • van der Kuyl Antoinette Cornelia, Cornelissen Marion, Berkhout Ben Of Mice and Men: On the Origin of XMRV Frontiers in microbiology 2011;1:147 [PubMed]
  • van der Kuyl Antoinette C., Jurriaans Suzanne, Back Nicole K. T., Sprenger Herman G., van der Werf Tjip S., Zorgdrager Fokla, Berkhout Ben, Cornelissen Marion Unusual Cluster of HIV Type 1 Dual Infections in Groningen, The Netherlands AIDS research and human retroviruses 2011;27 (4):429-433 [PubMed]
  • van der Kuyl Antoinette C., Berkhout Ben XMRV: not a mousy virus Journal of the Formosan Medical Association = Taiwan yi zhi 2011;110 (5):273-274 [PubMed]

2010

  • van der Kuyl Antoinette C., Kozaczynska Karolina, Arien Kevin K., Gali Youssef, Balazs Victoria R., Dekker Stefan J., Zorgdrager Fokla, Vanham Guido, Berkhout Ben, Cornelissen Marion Analysis of infectious virus clones from two HIV-1 superinfection cases suggests that the primary strains have lower fitness Retrovirology 2010;7 (1):60 [PubMed]
  • Cornelissen Marion, Heeregrave Edwin J., Zorgdrager Fokla, Pollakis Georgios, Paxton William A., van der Kuyl Antoinette C. Generation of representative primary virus isolates from blood plasma after isolation of HIV-1 with CD44 MicroBeads Archives of virology 2010;155 (12):2017-2022 [PubMed]
  • van der Kuyl Antoinette C., Jurriaans Suzanne, Pollakis Georgios, Bakker Margreet, Cornelissen Marion HIV RNA levels in transmission sources only weakly predict plasma viral load in recipients AIDS (London, England) 2010;24 (10):1607-1608 [PubMed]
  • Cornelissen Marion, Zorgdrager Fokla, Blom Petra, Jurriaans Suzanne, Repping Sjoerd, van Leeuwen Elisabeth, Bakker Margreet, Berkhout Ben, van der Kuyl Antoinette C. Lack of Detection of XMRV in Seminal Plasma from HIV-1 Infected Men in The Netherlands PLoS ONE 2010;5 (8):e12040 [PubMed]

2009

  • Kozaczynska Karolina HIV-1 superinfection 2009. 148p. ISBN 9789490371036. [UvA Dissertations Online] University of Amsterdam. (Supervisor: Berkhout B.; Co-supervisors: Cornelissen M. T. E., van der Kuyl A. C.)
  • van der Kuyl Antoinette C., Zorgdrager Fokla, Jurriaans Suzanne, Back Nicole K. T., Prins Jan M., Brinkman Kees, van Eeden Arne, Bakker Margreet, Cornelissen Marion Incidence of Human Immunodeficiency Virus Type 1 Dual Infections in Amsterdam, The Netherlands, during 2003-2007 Clinical infectious diseases 2009;48 (7):973-978 [PubMed]
  • Cornelissen Marion, Hoogland Frederik M., Back Nicole Kt, Jurriaans Suzanne, Zorgdrager Fokla, Bakker Margreet, Brinkman Kees, Prins Maria, van der Kuyl Antoinette C. Multiple transmissions of a stable human leucocyte antigen-B27 cytotoxic T-cell-escape strain of HIV-1 in The Netherlands AIDS (London, England) 2009;23 (12):1495-1500 [PubMed]

2008

  • Jurriaans Suzanne, Kozaczynska Karolina, Zorgdrager Fokla, Steingrover Radjin, Prins Jan M., van der Kuyl Antoinette C., Cornelissen Marion A sudden rise in viral load is infrequently associated with HIV-1 superinfection JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES 2008;47 (1):69-73 [PubMed]
  • Bezemer Daniela, van Sighem Ard, de Wolf Frank, Cornelissen Marion, van der Kuyl Antoinette C., Jurriaans Suzanne, van der Hoek Lia, Prins Maria, Coutinho Roel A., Lukashov Vladimir V. Combination antiretroviral therapy failure and HIV super-infection AIDS (London, England) 2008;22 (2):309-311 [PubMed]
  • Calis Job C. J., Rotteveel Hellen P., van der Kuyl Antoinette C., Zorgdrager Fokla, Kachala David, Boele van Hensbroek Michael, Cornelissen Marion Severe anaemia is not associated with HIV-1 env gene characteristics in Malawian children BMC infectious diseases 2008;8:26 [PubMed]

2007

  • Kozaczynska Karolina, Cornelissen Marion, Reiss Peter, Zorgdrager Fokla, van der Kuyl Antoinette C. HIV-1 sequence evolution in vivo after superinfection with three viral strains Retrovirology 2007;4 (1):59 [PubMed]
  • van der Kuyl Antoinette C., Cornelissen Marion Identifying HIV-1 dual infections Retrovirology 2007;4:67 [PubMed]
  • Cornelissen Marion, Jurriaans Suzanne, Kozaczynska Karolina, Prins Jan M., Hamidjaja Raditijo A., Zorgdrager Fokla, Bakker Margreet, Back Nicole, van der Kuyl Antoinette C. Routine HIV-1 genotyping as a tool to identify dual infections AIDS (London, England) 2007;21 (7):807-811 [PubMed]
  • van der Kuyl Antoinette C., van den Burg Remco, Zorgdrager Fokla, Groot Fedde, Berkhout Ben, Cornelissen Marion Sialoadhesin (CD169) expression in CD14+ cells is upregulated early after HIV-1 infection and increases during disease progression PLoS ONE 2007;2 (2):e257 [PubMed]

2006

  • Cornelissen Marion, Jurriaans Suzanne, Prins Jan M., Bakker Margreet, van der Kuyl Antoinette C. Absence of seroreversion in 80 HAART-treated HIV-1 seropositive patients with at least five-years undetectable plasma HIV-1 viral load AIDS research and therapy 2006;3:3 [PubMed]

2005

  • van der Kuyl Antoinette C., Polstra Abeltje M., van den Burg Remco, Jan Weverling Gerrit, Goudsmit Jaap, Cornelissen Marion Cytomegalovirus and human herpesvirus 8 DNA detection in peripheral blood monocytic cells of AIDS patients: Correlations with the presence of Kaposi's sarcoma and CMV disease Journal of medical virology 2005;76 (4):541-546 [PubMed]
  • Livoreil B., van der Kuyl A. C. Genetic analysis of mitochondrial DNA variation in Eastern and Western African spurred tortoises, Geochelone sulcata CHELONIAN CONSERVATION AND BIOLOGY 2005;4 (4):951-954
  • van der Kuyl Antoinette C., Ballasina Donato L. P., Zorgdrager Fokla Mitochondrial haplotype diversity in the tortoise species Testudo graeca from North Africa and the Middle East BMC evolutionary biology 2005;5 (1):29 [PubMed]
  • Nethe Micha, Berkhout Ben, van der Kuyl Antoinette C. Retroviral superinfection resistance Retrovirology 2005;2 (52):52 [PubMed]
  • van der Kuyl Antoinette C., Kozaczynska Karolina, van den Burg Remco, Zorgdrager Fokla, Back Nicole, Jurriaans Suzanne, Berkhout Ben, Reiss Peter, Cornelissen Marion Triple HIV-1 infection New England journal of medicine 2005;352 (24):2557-2559 [PubMed]

2004

  • van der Kuyl Antoinette C., Polstra Abeltje M., Weverling Gerrit Jan, Zorgdrager Fokla, van den Burg Remco, Cornelissen Marion An IL-8 gene promoter polymorphism is associated with the risk of the development of AIDS-related Kaposi's sarcoma: a case-control study AIDS (London, England) 2004;18 (8):1206-1208 [PubMed]
  • Jurriaans Suzanne, Sankatsing Sanjay U. C., Prins Jan M., Schuitemaker Hanneke, Lange Joep, van der Kuyl Antoinette C., Cornelissen Marion HIV-1 seroreversion in an HIV-1-seropositive patient treated during acute infection with highly active antiretroviral therapy and mycophenolate mofetil AIDS (London, England) 2004;18 (11):1607-1608 [PubMed]
  • Polstra Abeltje M., Cornelissen Marion, Goudsmit Jaap, van der Kuyl Antoinette C. Retrospective, longitudinal analysis of serum human herpesvirus-8 viral DNA load in AIDS-related Kaposi's sarcoma patients before and after diagnosis Journal of medical virology 2004;74 (3):390-396 [PubMed]
  • van der Kuyl Antoinette C., van den Burg Remco, Hoyer Mark J., Gruters Rob A., Osterhaus Albert D. M. E., Berkhout Ben SIVdrl detection in captive mandrills: are mandrills infected with a third strain of simian immunodeficiency virus? Retrovirology 2004;1 (1):36 [PubMed]

2003

  • Cornelissen Marion, van der Kuyl Antoinette C., van den Burg Remco, Zorgdrager Fokla, van Noesel Carel J. M., Goudsmit Jaap Gene expression profile of AIDS-related Kaposi's sarcoma BMC cancer 2003;3:7 [PubMed]
  • Bollen J. M., Polstra A. M., van der Kuyl A. C., Weel J. F., Noorduyn L. A., van Oers M. H. J., Cornelissen M. Multicentric Castleman's disease and Kaposi's sarcoma in a cyclosporin treated, HIV-1 negative patient: case report BMC blood disorders 2003;3 (1):3 [PubMed]

2002

  • Chen Xianghong, Goudsmit Jaap, van der Kuyl Antoinette C. Lack of correlation between length variation in the DNA polymerase gamma gene CAG repeat and lactic acidosis or neuropathy during antiretroviral treatment AIDS research and human retroviruses 2002;18 (8):531-534 [PubMed]
  • van der Kuyl Antoinette C., Ph Ballasina Donato L., Dekker John T., Maas Jolanda, Willemsen Ronald E., Goudsmit Jaap Phylogenetic relationships among the species of the genus testudo (Testudines : Testudinidae) inferred from mitochondrial 12S rRNA gene sequences Molecular phylogenetics and evolution 2002;22 (2):174-183 [PubMed]
  • van der Kuyl Antoinette C., van den Burg Remco, Zorgdrager Fokla, Dekker John T., Maas Jolanda, van Noesel Carel J. M., Goudsmit Jaap, Cornelissen Marion Primary effect of chemotherapy on the transcription profile of AIDS-related Kaposi's sarcoma BMC cancer 2002;2:21 [PubMed]

2001

  • Mang R., Maas J., Chen X., Goudsmit J., van der Kuyl A. C. Identification of a novel type C porcine endogenous retrovirus: evidence that copy number of endogenous retroviruses increases during host inbreeding Journal of general virology 2001;82 (Part 8):1829-1834 [PubMed]

2000

  • Papio cynocephalus endogenous retrovirus among old world monkeys: evidence for coevolution and ancient cross-species transmissions Journal of virology 2000;74 (3):1578-1586 [PubMed]
  • Primate genus Miopithecus: evidence for the existence of species and subspecies of dwarf guenons based on cellular and endogenous viral sequences Molecular phylogenetics and evolution 2000;14 (3):403-413 [PubMed]
  • Routine DNA analysis based on 12S rRNA gene sequencing as a tool in the management of captive primates Journal of medical primatology 2000;29 (5):309-317 [PubMed]

1999

  • Discovery of a new endogenous type C retrovirus (FcEV) in cats: evidence for RD-114 being an FcEV(Gag-Pol)/baboon endogenous virus BaEV(Env) recombinant Journal of virology 1999;73 (10):7994-8002 [PubMed]
  • Novel endogenous type C retrovirus in baboons: complete sequence, providing evidence for baboon endogenous virus gag-pol ancestry Journal of virology 1999;73 (8):7021-7026 [PubMed]

1998

  • Xenotransplantation: about baboon hearts and pig livers Trends in microbiology 1998;6 (11):431-432 [PubMed]

1997

  • Complete nucleotide sequence of simian endogenous type D retrovirus with intact genome organization: evidence for ancestry to simian retrovirus and baboon endogenous virus Journal of virology 1997;71 (5):3666-3676 [PubMed]
  • Endogenous retrovirus sequences and their usefulness to the host Trends in microbiology 1997;5 (9):339 [PubMed]

1996

  • Baboon endogenous virus evolution and ecology Trends in microbiology 1996;4 (11):455-459 [PubMed]

1995

  • Detecting dinosaur DNA Science 1995;268 (5214):1192-3; author reply 1194 [PubMed]
  • Distribution of baboon endogenous virus among species of African monkeys suggests multiple ancient cross-species transmissions in shared habitats Journal of virology 1995;69 (12):7877-7887 [PubMed]
  • Full-length proviruses of baboon endogenous virus (BaEV) and dispersed BaEV reverse transcriptase retroelements in the genome of baboon species Journal of virology 1995;69 (9):5917-5924 [PubMed]
  • Nuclear counterparts of the cytoplasmic mitochondrial 12S rRNA gene: a problem of ancient DNA and molecular phylogenies Journal of molecular evolution 1995;40 (6):652-657 [PubMed]
  • Phylogeny of African monkeys based upon mitochondrial 12S rRNA sequences Journal of molecular evolution 1995;40 (2):173-180 [PubMed]

1991

  • Complementation and recombination between alfalfa mosaic virus RNA3 mutants in tobacco plants Virology 1991;183 (2):731-738 [PubMed]
  • Deletion analysis of cis- and trans-acting elements involved in replication of alfalfa mosaic virus RNA 3 in vivo Virology 1991;183 (2):687-694 [PubMed]
  • Replication of an incomplete alfalfa mosaic virus genome in plants transformed with viral replicase genes Virology 1991;181 (2):445-450 [PubMed]
  • Role of alfalfa mosaic virus coat protein gene in symptom formation Virology 1991;181 (2):687-693 [PubMed]
  • Role of alfalfa mosaic virus coat protein in regulation of the balance between viral plus and minus strand RNA synthesis Virology 1991;185 (1):496-499 [PubMed]

1990

  • cis-acting elements involved in replication of alfalfa mosaic virus RNAs in vitro Virology 1990;176 (2):346-354 [PubMed]

1987

  • Analysis of upstream activation sites of yeast ribosomal protein genes Nucleic acids research 1987;15 (15):6037-6048 [PubMed]