Evidence map›Paper›PMID 34181694›Full record

ArticlePLoS pathogens2021

Tissue-specific transcriptional profiling of plasmacytoid dendritic cells reveals a hyperactivated state in chronic SIV infection.

Michelle Y-H Lee, Amit A Upadhyay, Hasse Walum, Chi N Chan, Reem A Dawoud, Christine Grech, Justin L Harper, Kirti A Karunakaran, Sydney A Nelson, Ernestine A Mahar and 12 more

Open access · goldAbstract read
In one paragraph

Article in PLoS pathogens, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed, 1 pooled it
1.7field-weighted citation impact, top 17% 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

13 citing papers in PubMed, 1 synthesis or guideline pooled it, 17 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Article
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  6. Review
  7. Article
  8. Review
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  13. Genomic resources for rhesus macaques (Macaca mulatta).Mammalian genome : official journal of the International Mammalian Genome Society · 2022
    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

22 authors at 6 institutions in 1 country.

Michelle Y-H LeeDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-5722-1109
Amit A UpadhyayDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-0952-4164
Hasse WalumDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.
Chi N ChanVaccine and Gene Therapy Institute, Oregon Health & Science University, Beaverton, Oregon, United States of America.ORCID 0000-0001-9106-9481
Reem A DawoudDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0003-4857-505X
Christine GrechDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-0737-2048
Justin L HarperDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-6948-3501
Kirti A KarunakaranDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-3310-7686
Sydney A NelsonDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.
Ernestine A MaharDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-6740-0688
Kyndal L GossDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-0863-9998
Diane G CarnathanDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.
Barbara CervasiFlow Cytometry Core, Emory Vaccine Center, Emory University, Atlanta, Georgia, United States of America.
Kiran GillFlow Cytometry Core, Emory Vaccine Center, Emory University, Atlanta, Georgia, United States of America.
Gregory K TharpYerkes NHP Genomics Core Laboratory, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0003-3075-755X
Elizabeth R WonderlichSouthern Research, Frederick, Maryland, United States of America.ORCID 0000-0002-0773-6569
Vijayakumar VeluDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0003-4238-1924
Simon M Barratt-BoyesDepartment of Infectious Diseases and Microbiology, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania, United States of America.
Mirko PaiardiniDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.
Guido SilvestriDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.
Jacob D EstesVaccine and Gene Therapy Institute, Oregon Health & Science University, Beaverton, Oregon, United States of America.ORCID 0000-0002-9652-6394
Steven E BosingerDivision of Microbiology & Immunology, Yerkes National Primate Research Center, Atlanta, Georgia, United States of America.ORCID 0000-0002-2116-5061
Emory National Primate Research CenterEmory University · USOregon Health & Science University · USOregon National Primate Research Center · USSouthern Research Institute · USUniversity of Pittsburgh · US

Funding

Upgrade of confocal microscopy at the Oregon National Primate Research CenterP51OD011092 · OD · OREGON HEALTH & SCIENCE UNIVERSITY · PI Bonnie J. Nagel · 2012 to 2026
$203.9M
Yerkes National Primate Research Center Role of type-I IFN in regulating COVID-19 induced inflammation and pathogenesisP51OD011132 · OD · EMORY UNIVERSITY · PI Joon Sup Lee · 2012 to 2026
$167.0M
Virology and Molecular Biomarkers CoreP30AI050409 · NIAID · EMORY UNIVERSITY · PI Ann M Chahroudi, Colleen F Kelley · 2002 to 2026
$74.0M
MEDICAL SCIENTIST TRAINING PROGRAMT32GM008169 · NIGMS · EMORY UNIVERSITY · PI GROSS, ROBERT E · 1987 to 2021
$20.3M
Viral Testing Core-Maintenance of the SPF Breeding Colonies at Yerkes National Primate Research CenterU42OD011023 · OD · EMORY UNIVERSITY · PI Joyce Kimberly Cohen · 2018 to 2026
$17.5M
Immune based interventions for HIV eradicationR01AI116379 · NIAID · EMORY UNIVERSITY · PI PAIARDINI, MIRKO · 2015 to 2019
$4.2M
Blocking type I interferon signaling to reverse T cell exhaustion and control HIV-1 reservoirsR01AI136990 · NIAID · UNIV OF NORTH CAROLINA CHAPEL HILL · PI AMARA, RAMA RAO, BOSINGER, STEVEN EDWARD · 2018 to 2022
$4.2M
Novel ISH Approaches to Quantify Replication Competent ReservoirsR01AI143411 · NIAID · OREGON HEALTH & SCIENCE UNIVERSITY · PI ESTES, JACOB D · 2019 to 2023
$3.6M
Transcriptome resources for comparative primate models of lentivirus infectionR24OD010445 · OD · EMORY UNIVERSITY · PI SILVESTRI, GUIDO · 2013 to 2016
$3.2M
Illumina NovaSeq 6000 High Throughput DNA Sequencer for Emory UniversityS10OD026799 · OD · EMORY UNIVERSITY · PI BOSINGER, STEVEN EDWARD · 2019 to 2019
$985k
NIAID NIH HHS P30 AI050409NIAID NIH HHS R01 AI116379NIAID NIH HHS R01 AI136990NIAID NIH HHS R01 AI143411NIGMS NIH HHS T32 GM008169NIH HHS P51 OD011092NIH HHS P51 OD011132NIH HHS R24 OD010445NIH HHS S10 OD026799NIH HHS U42 OD011023
6 · The paper itself

Abstract

HIV associated immune activation (IA) is associated with increased morbidity in people living with HIV (PLWH) on antiretroviral therapy, and remains a barrier for strategies aimed at reducing the HIV reservoir. The underlying mechanisms of IA have not been definitively elucidated, however, persistent production of Type I IFNs and expression of ISGs is considered to be one of the primary factors. Plasmacytoid DCs (pDCs) are a major producer of Type I IFN during viral infections, and are highly immunomodulatory in acute HIV and SIV infection, however their role in chronic HIV/SIV infection has not been firmly established. Here, we performed a detailed transcriptomic characterization of pDCs in chronic SIV infection in rhesus macaques, and in sooty mangabeys, a natural host non-human primate (NHP) species that undergoes non-pathogenic SIV infection. We also investigated the immunostimulatory capacity of lymph node homing pDCs in chronic SIV infection by contrasting gene expression of pDCs isolated from lymph nodes with those from blood. We observed that pDCs in LNs, but not blood, produced high levels of IFNα transcripts, and upregulated gene expression programs consistent with T cell activation and exhaustion. We apply a novel strategy to catalogue uncharacterized surface molecules on pDCs, and identified the lymphoid exhaustion markers TIGIT and LAIR1 as highly expressed in SIV infection. pDCs from SIV-infected sooty mangabeys lacked the activation profile of ISG signatures observed in infected macaques. These data demonstrate that pDCs are a primary producer of Type I IFN in chronic SIV infection. Further, this study demonstrated that pDCs trafficking to LNs persist in a highly activated state well into chronic infection. Collectively, these data identify pDCs as a highly immunomodulatory cell population in chronic SIV infection, and a putative therapeutic target to reduce immune activation.

Indexed as

AnimalsCercocebus atysDendritic CellsGene Expression ProfilingMacaca mulattaRNA-SeqSimian Acquired Immunodeficiency SyndromeTranscriptome

Identifiers

PMID34181694
PMCPMC8270445
OpenAlexW3173886238

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Registered trials

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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.