Evidence map›Paper›PMID 21633511›Full record

ArticlePloS one2011

Human endogenous retrovirus K106 (HERV-K106) was infectious after the emergence of anatomically modern humans.

Aashish R Jha, Douglas F Nixon, Michael G Rosenberg, Jeffrey N Martin, Steven G Deeks, Richard R Hudson, Keith E Garrison, Satish K Pillai

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.

0numbers the graph read from it
0cells of the map it votes in
37citing papers in PubMed
7.0field-weighted citation impact, top 3% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

37 citing papers in PubMed, 51 citations in OpenAlex.

  1. Article
  2. Article
  3. Review
  4. Review
  5. Review
  6. Article
  7. Article
  8. Article
  9. Review
  10. Review
  11. Review
  12. Review
  13. Gorillas have been infected with the HERV-K (HML-2) endogenous retrovirus much more recently than humans and chimpanzees.Proceedings of the National Academy of Sciences of the United States of America · 2019
    Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Chicken (Mobile DNA · 2017
    Article
  20. Discovery of unfixed endogenous retrovirus insertions in diverse human populations.Proceedings of the National Academy of Sciences of the United States of America · 2016
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors at 5 institutions in 1 country.

Aashish R JhaDepartment of Human Genetics, University of Chicago, Chicago, Illinois, United States of America.
Douglas F Nixon
Michael G Rosenberg
Jeffrey N Martin
Steven G Deeks
Richard R Hudson
Keith E Garrison
Satish K Pillai
University of California, San Francisco · USUniversity of Chicago · USAlbert Einstein College of Medicine · USSaint Mary's College of California · USSan Francisco VA Medical Center · US

Funding

UCSF CLINICAL AND TRANSLATIONAL SCIENCE INSTITUTEUL1RR024131 · NCRR · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI JOHNSTON, S. CLAIBORNE · 2006 to 2011
$111.2M
Unsolicited R24 for the CFAR-Network of Integrated Clinical Sciences, CNICSR24AI067039 · NIAID · UNIVERSITY OF ALABAMA AT BIRMINGHAM · PI Michael S. Saag · 2006 to 2026
$99.4M
Virology CoreP30AI027763 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI STEVEN Grant DEEKS · 1988 to 2026
$93.6M
Human Endogenous Retroelements in HIV ImmunopathogenesisR01AI076059 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI NIXON, DOUGLAS F · 2009 to 2017
$3.9M
Cell Mediated Immunity in HIV Infected ChildrenR01AI060379 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI NIXON, DOUGLAS F · 2005 to 2009
$1.6M
Preventing the Establishment of Enfuvirtide-resistance in the Latent ReservoirK24AI069994 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI DEEKS, STEVEN GRANT · 2007 to 2016
$1.5M
Antiviral Role of APOBEC3 in HIV/HCV Coinfected PatientsK01DA024654 · NIDA · VITALANT · PI PILLAI, SATISH KUMAR · 2008 to 2012
$902k
An endogenous retroelement vaccine against HIV-1R56AI084113 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI NIXON, DOUGLAS F · 2009 to 2009
$425k
Cell Mediated Immunity in HIV Infected ChildrenR21AI060379 · NIAID · J. DAVID GLADSTONE INSTITUTES · PI NIXON, DOUGLAS F · 2004 to 2004
$374k
NCRR NIH HHS UL1 RR024131NIAID NIH HHS AI060379NIAID NIH HHS AI076059NIAID NIH HHS AI084113NIAID NIH HHS K24 AI069994NIAID NIH HHS K24AI069994NIAID NIH HHS P30 AI027763NIAID NIH HHS P-30 AI27763NIAID NIH HHS R01 AI060379NIAID NIH HHS R01 AI076059NIAID NIH HHS R21 AI060379NIAID NIH HHS R24 AI067039NIAID NIH HHS R56 AI084113NIDA NIH HHS 1K01DA024654NIDA NIH HHS K01 DA024654
6 · The paper itself

Abstract

HERV-K113 and HERV-K115 have been considered to be among the youngest HERVs because they are the only known full-length proviruses that are insertionally polymorphic and maintain the open reading frames of their coding genes. However, recent data suggest that HERV-K113 is at least 800,000 years old, and HERV-K115 even older. A systematic study of HERV-K HML2 members to identify HERVs that may have infected the human genome in the more recent evolutionary past is lacking. Therefore, we sought to determine how recently HERVs were exogenous and infectious by examining sequence variation in the long terminal repeat (LTR) regions of all full-length HERV-K loci. We used the traditional method of inter-LTR comparison to analyze all full length HERV-Ks and determined that two insertions, HERV-K106 and HERV-K116 have no differences between their 5' and 3' LTR sequences, suggesting that these insertions were endogenized in the recent evolutionary past. Among these insertions with no sequence differences between their LTR regions, HERV-K106 had the most intact viral sequence structure. Coalescent analysis of HERV-K106 3' LTR sequences representing 51 ethnically diverse individuals suggests that HERV-K106 integrated into the human germ line approximately 150,000 years ago, after the emergence of anatomically modern humans.

Indexed as

Base SequenceBinding SitesEndogenous RetrovirusesEvolution, MolecularGenome, HumanGenome, ViralHumansMolecular Sequence DataMutagenesis, InsertionalPhylogenyProvirusesTerminal Repeat SequencesTime Factors

Identifiers

PMID21633511
PMCPMC3102101
OpenAlexW2048709895

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.