Evidence map›Paper›PMID 21876761›Full record

ArticlePloS one2011

A signature in HIV-1 envelope leader peptide associated with transition from acute to chronic infection impacts envelope processing and infectivity.

Mohammed Asmal, Ina Hellmann, Weimin Liu, Brandon F Keele, Alan S Perelson, Tanmoy Bhattacharya, S Gnanakaran, Marcus Daniels, Barton F Haynes, Bette T Korber and 3 more

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 46 papers.

0numbers the graph read from it
0cells of the map it votes in
46citing papers in PubMed
1.9field-weighted citation impact, top 16% 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

46 citing papers in PubMed, 61 citations in OpenAlex.

  1. Genetic Diversity of the BLVPathogens (Basel, Switzerland) · 2026
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  6. Molecular Characterization of thePathogens (Basel, Switzerland) · 2021
    Article
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  8. Review
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Protein and Glycan Mimicry in HIV Vaccine Design.Journal of molecular biology · 2019
    Review
  16. Review
  17. Signal peptide of HIV envelope protein impacts glycosylation and antigenicity of gp120.Proceedings of the National Academy of Sciences of the United States of America · 2018
    Article
  18. Article
  19. Article
  20. 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

13 authors at 6 institutions in 1 country.

Mohammed AsmalDivision of Viral Pathogenesis, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts, United States of America. masmal@bidmc.harvard.edu
Ina Hellmann
Weimin Liu
Brandon F Keele
Alan S Perelson
Tanmoy Bhattacharya
S Gnanakaran
Marcus Daniels
Barton F Haynes
Bette T Korber
Beatrice H Hahn
George M Shaw
Norman L Letvin
Los Alamos National Laboratory · USUniversity of Alabama at Birmingham · USBeth Israel Deaconess Medical Center · USDuke Medical Center · USHarvard University · USSanta Fe Institute · US

Funding

Viral Sequencing CoreU19AI067854 · NIAID · DUKE UNIVERSITY · PI LETVIN, NORMAN L · 2006 to 2011
$290.5M
The impact of HIV viral diversity and cellular immunity on HIV pathogenesisP30AI060354 · NIAID · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI ROBERT A. PARKER · 2004 to 2026
$94.4M
Viral and Host Determinants of HIV-1 TransmissionU01AI067854 · NIAID · DUKE UNIVERSITY · PI HAYNES, BARTON F · 2005 to 2005
$14.9M
Multidisciplinary HIV Training ProgramT32AI007387 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI Daniel R. Kuritzkes · 1990 to 2026
$8.8M
Modeling Viral and T Lymphocyte DynamicsR01OD011095 · OD · TRIAD NATIONAL SECURITY, LLC · PI PERELSON, ALAN S · 2012 to 2024
$5.0M
MODELING VIRAL AND T LYMPHOCYTE DYNAMICSR01RR006555 · NCRR · UNIVERSITY OF CALIF-LOS ALAMOS NAT LAB · PI PERELSON, ALAN S · 1991 to 2011
$3.9M
Immune System Modeling/HIVR01AI028433 · NIAID · UNIVERSITY OF CALIF-LOS ALAMOS NAT LAB · PI PERELSON, ALAN S · 1990 to 2021
$3.7M
Penile transmission and neutralization of pathogenic SIVsmmR01AI094604 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI SHAW, GEORGE M · 2011 to 2015
$3.6M
Immune System Modeling/HIVR37AI028433 · NIAID · UNIVERSITY OF CALIF-LOS ALAMOS NAT LAB · PI PERELSON, ALAN S · 2002 to 2011
$2.4M
NCRR NIH HHS R01 RR006555NCRR NIH HHS RR06555-18NIAID NIH HHS AI-067854NIAID NIH HHS AI28433-19NIAID NIH HHS P30 AI060354NIAID NIH HHS R01 AI028433NIAID NIH HHS R01 AI094604NIAID NIH HHS R37 AI028433NIAID NIH HHS T32 AI007387NIAID NIH HHS U01 AI067854NIAID NIH HHS U19 AI067854NIH HHS R01 OD011095
6 · The paper itself

Abstract

Mucosal transmission of the human immunodeficiency virus (HIV) results in a bottleneck in viral genetic diversity. Gnanakaran and colleagues used a computational strategy to identify signature amino acids at particular positions in Envelope that were associated either with transmitted sequences sampled very early in infection, or sequences sampled during chronic infection. Among the strongest signatures observed was an enrichment for the stable presence of histidine at position 12 at transmission and in early infection, and a recurrent loss of histidine at position 12 in chronic infection. This amino acid lies within the leader peptide of Envelope, a region of the protein that has been shown to influence envelope glycoprotein expression and virion infectivity. We show a strong association between a positively charged amino acid like histidine at position 12 in transmitted/founder viruses with more efficient trafficking of the nascent envelope polypeptide to the endoplasmic reticulum and higher steady-state glycoprotein expression compared to viruses that have a non-basic position 12 residue, a substitution that was enriched among viruses sampled from chronically infected individuals. When expressed in the context of other viral proteins, transmitted envelopes with a basic amino acid position 12 were incorporated at higher density into the virus and exhibited higher infectious titers than did non-signature envelopes. These results support the potential utility of using a computational approach to examine large viral sequence data sets for functional signatures and indicate the importance of Envelope expression levels for efficient HIV transmission.

Indexed as

Disease ProgressionProtein Sorting SignalsAcute DiseaseAmino Acid SequenceChronic DiseaseEndoplasmic ReticulumGene Products, envHIV-1HIV Core Protein p24HIV InfectionsHumansJurkat CellsLikelihood FunctionsModels, BiologicalMolecular Sequence DataPhylogenyGene Products, envHIV Core Protein p24Protein Sorting Signals

Identifiers

PMID21876761
PMCPMC3158090
OpenAlexW1993942652

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.