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Authenticity of XMRV integration sites

2 March 2011 by Vincent Racaniello

retroviral integrationIntegration of retroviral DNA into the cellular genome is essential for the production of new infectious particles. A strong argument that the novel human retrovirus XMRV is not a laboratory contaminant is the finding that viral DNA is integrated in chromosomal DNA of prostate tumors. Nucleotide sequence analyses of 14 integration sites in prostate tumor DNAs from 9 different patients previously revealed the expected viral sequences linked to human DNA. But two of these integration sites are identical to those found in a prostate tumor cell line infected with XMRV.

A search of the nucleotide sequence database with the previously identified XMRV integration site sequences revealed that 2 of the 14 sequences (from 2 patients) were identical to two XMRV integration sites in DU145 cells. This cell line was established in 1978 from the brain metastasis of a human prostate tumor. In early 2010 2007 DU145 cells were infected with XMRV, and sequences of two integration sites were determined (the database entries can be found here and here).

Identical retroviral integration sites have never been reported in independently infected cells. Furthermore, XMRV infection of DU145 cells was done in the same laboratory in which the XMRV integration sites were identified in prostate tumor DNA. The conclusion is that two of the 14 XMRV integration sites in prostate tumor DNA are likely to be the result of contamination. These prostate tumor DNA samples were probably contaminated with DNA from XMRV-infected DU145 cells.

These observations do not directly impugn the veracity of the other 12 XMRV integration sites identified in prostate tumor DNA. However, when DNA contamination occurs it is often ubiquitous. Hence the authors write:

Whilst it is conceivable that the other 12 integration sites apparently derived from prostatic tumor tissues are genuine patient-derived sequences, we suspect that some or all of them may also be the result of contamination with DNA from experimentally infected DU145 cells.

This possibility can and must be addressed experimentally.

Update: While writing this post I received an abstract from the 2011 Conference on Retroviruses and Other Opportunistic Infections (CROI) entitled “XMRV probably originated through recombination between two endogenous murine retroviruses during passage of a human prostate tumor in nude mice”. As usual I will await publication of this story in a peer-reviewed journal before discussing it further.

Garson JA, Kellam P, & Towers GJ (2011). Analysis of XMRV integration sites from human prostate cancer tissues suggests PCR contamination rather than genuine human infection. Retrovirology, 8 (1) PMID: 21352548

Stone, K., Mickey, D., Wunderli, H., Mickey, G., & Paulson, D. (1978). Isolation of a human prostate carcinoma cell line (DU 145) International Journal of Cancer, 21 (3), 274-281 DOI: 10.1002/ijc.2910210305

Dong B, Kim S, Hong S, Das Gupta J, Malathi K, Klein EA, Ganem D, Derisi JL, Chow SA, & Silverman RH (2007). An infectious retrovirus susceptible to an IFN antiviral pathway from human prostate tumors. Proceedings of the National Academy of Sciences of the United States of America, 104 (5), 1655-60 PMID: 17234809

Filed Under: Information Tagged With: du145 cells, integration, mecfs, prostate cancer, retrovirus, viral, virology, virus, xmrv

XMRV infection of Rhesus macaques

17 February 2011 by Vincent Racaniello

rhesus macaqueThe first detailed study of infection of nonhuman primates with the retrovirus XMRV reveals that the virus establishes a persistent infection characterized by infection of multiple tissues. Viremia (virus in the blood) is low and transient, with proviral DNA detectable in blood lymphocytes. The results show that the Rhesus macaque can be used to study XMRV infection, transmission, vaccines, and antiviral drugs.

The subject of this study, the Rhesus macaque (Macaca mulatta), was selected because of its evolutionary proximity to humans and a comparable immune system. The monkeys used did not have antibodies to the capsid protein p30 of XMRV, indicating that they were not previously infected. Animals were inoculated intravenously with 3.6 million TCID50 of purified XMRV – a good amount of virus, to ensure infection. The virus used, VP62, was produced by transfecting cells with cloned viral DNA isolated from human prostate.

Virus in the plasma fraction of blood was assayed by quantitative RT-PCR. Of three animals infected, virus was detected in one animal at day 4 and not after day 14; and in a second animal from days 14-20. The third animal did not develop detectable viremia. Proviral DNA was found in peripheral blood mononuclear cells (PBMC) of all three monkeys for 3-4 weeks, indicating successful infection. At one month post-infection proviral DNA was no longer detected. Plasma virus was again detected in one of the positive animals on day 291, 16 days after being immunized with a mixture of XMRV proteins. This means that viral DNA had been present in this animal but was not detected. XMRV was detected in CD4+ and CD8+ T cells and NK cells, but not in B cells or monocytes.

Rhesus macaques infected with XMRV did not display obvious clinical symptoms. Analysis of peripheral blood revealed increases in the number of circulating B and NK cells. Anti-viral antibody titers were detected after infection and re-infection of animals but soon decreased.

Other infected animals were sacrificed during the acute phase of infection to identify pathological changes and sites of virus replication. No pathogenic consequences were observed except for the formation of germinal centers in spleen and lymphoid organs, changes that are expected after immune stimulation. Virus was detected in a wide variety of tissues, including spleen, lymph nodes, the lining of the gastrointestinal tract, prostate, testis, cervix, vagina, and pancreas, but not* in others including brain, heart, kidney, and bladder. Different types of cells were infected in different tissues: lymphocytes in lymphoid organs, macrophages in lung, epithelial or interstitial cells in other organs. The authors note that “this viral behavior appears specific to this virus”.

Here are some other comments and conclusions drawn from this study:

  • The authors suggest that in Rhesus macaques, XMRV causes first an acute infection, followed by a persistent chronic infection. A persistent infection lasts for long periods of time; a chronic infection is a persistent infection that is eventually cleared. Since the monkeys in this study were all sacrificed, it’s not possible to determine if the infection was cleared.
  • The presence of XMRV in certain blood cells resembles the pattern in a cohort of ME/CFS patients
  • Virus is present in the prostate early in acute infection – XMRV was identified in prostate tumors
  • The presence of XMRV in reproductive tract tissues is consistent with sexual transmission of infection
  • After the acute phase, virus levels are very low, but there could be a different outcome in individuals with immune dysfunction
  • One animal produced virus after immunization; perhaps immune activation results in cycles of virus production
  • The virus has an initial acute phase followed by reactivation. The authors comment: “While our study has not linked XMRV infection with pathogenic mechanisms that might lead to prostate cancer or chronic fatigue syndrome, we submit that such link, assuming it exists, would be a temporally distant one.”
  • It would be informative to determine if XMRV is present in some of the same tissues in humans that were observed to be infected in rhesus macaques

Because the study involved only a small number of monkeys (8), the experiments should be repeated with additional animals, and in different laboratories, to verify the findings. I also wonder if the choice of the intravenous inoculation route had an effect on the pattern of infection and tropism. It is well known that viral pathogenesis can be determined by how the virus enters the host. For example, the same virus may replicate in different tissues, or have different virulence, when inoculated in different ways. This question can be readily addressed by inoculating rhesus macaques via different routes.

Studying viral pathogenesis (the series of events that occur during viral infection of a host) in animals is essential for understanding how viruses cause disease in humans. However, the results of such studies must always be interpreted with caution, because what is true in an animal is not always true for a human. For example, simple differences in size, metabolism, and development can have substantial effects on pathogenesis. In interpreting the results of animal studies, we must keep in mind the adage, ‘Mice lie, monkeys exaggerate‘.

Update: *These are the results of immunohistochemistry (IHC), which detects viral proteins and likely the produce of viral replication. When the IHC-negative tissues were examined for the presence of viral nucleic acids, low frequency signals were detected. The authors speculate that this is likely a consequence of failure of XMRV to replicate in these tissues.

Onlamoon, N, DasGupta, J, Sharma, P, Rogers, K, Suppiah, S, Rhea, J, Molinaro, RJ, Gaughan, C, Dong, B, Klein, E, Qui, X, Devare, S, Schochetman, G, Hackett, J, Silverman, R, & Villinger, F (2011). Infection, viral dissemination and antibody responses of Rhesus macaques exposed to the human gammaretrovirus XMRV Journal of Virology

Filed Under: Information Tagged With: CFS, chronic fatigue syndrome, gammaretrovirus, mecfs, pathogenesis, retrovirus, viral, virology, virus, xmrv

TWiV 119: Science and journalism with David Tuller

6 February 2011 by Vincent Racaniello

science journalismHosts: Vincent Racaniello and David Tuller

On episode #119 of the podcast This Week in Virology, Vincent and journalist David Tuller converse about the state of science reporting by the press.

[powerpress url=”http://traffic.libsyn.com/twiv/TWiV119.mp3″]

Click the arrow above to play, or right-click to download TWiV #119 (43 MB .mp3, 60 minutes).

Subscribe to TWiV (free) in iTunes , at the Zune Marketplace, by the RSS feed, or by email, or listen on your mobile device with the Microbeworld app.

Links for this episode:

  • The four XMRV papers in Retrovirology (one, two, three, four) and a commentary
  • David’s recent coverage of ME/CFS in the NY Times (July 2010, August 2010, January 2011)
  • MRSA (methicillin-resistant Staphylococcus aureus): The press’ mea culpa
  • TWiV on Facebook

Send your virology questions and comments (email or mp3 file) to twiv@microbe.tv. You can also post articles that you would like us to discuss at microbeworld.org and tag them with twiv.

Filed Under: This Week in Virology Tagged With: AIDS, chronic fatigue syndrome, david tuller, HIV, journalism, mecfs, science press, science reporting, viral, virology, virus

TWiV 89: Where do viruses vacation?

4 July 2010 by Vincent Racaniello

Hosts: Vincent Racaniello and Alan Dove

On episode #89 of the podcast This Week in Virology, Vincent and Alan review recent findings on the association of the retrovirus XMRV with ME/CFS, reassortment of 2009 pandemic H1N1 influenza virus in swine, and where influenza viruses travel in the off-season.

[powerpress url=”http://traffic.libsyn.com/twiv/TWiV089.mp3″]

Click the arrow above to play, or right-click to download TWiV #89 (56 MB .mp3, 78 minutes)

Subscribe to TWiV (free) in iTunes , at the Zune Marketplace, by the RSS feed, or by email, or listen on your mobile device with Stitcher Radio.

Links for this episode:

  • Conflicting XMRV papers on hold
  • Leak of PNAS paper
  • CDC study on XMRV in CFS patients (Retrovirology) and Science update
  • Where influenza viruses travel in the off season (EurekaAlert! and PLoS Pathogens)
  • NPR article on Ebola siRNA treatment (thanks, Andreas!)
  • Priming mechanism for reovirus entry (thanks, Agyeman-Badu!)
  • Wired article on science PR (thanks, Dan!)
  • Letters read on TWiV 89

Weekly Science Picks

Alan – Tree of Life graphic
Vincent
– TEDx Oil Spill

Send your virology questions and comments (email or mp3 file) to twiv@microbe.tv or leave voicemail at Skype: twivpodcast. You can also post articles that you would like us to discuss at microbeworld.org and tag them with twiv.

Filed Under: This Week in Virology Tagged With: CFS, chronic fatigue syndrome, Ebola, ebolavirus, entry, H1N1, influenza, mecfs, pandemic, reassortment, reovirus, retrovirus, seasonal influenza, siRNA, swine, swine flu, viral, virology, virus, xmrv

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