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Record W2791689282 · doi:10.1093/jcag/gwy008.197

A196 IDENTIFICATION OF AN IMMUNOSUPPRESSIVE DOMAIN IN HUMAN BETARETROVIRUS

2018· article· en· W2791689282 on OpenAlexaff
Mandana Rahbari, David Sharon, Michael Houghton, Alleson Mason

Bibliographic record

VenueJournal of the Canadian Association of Gastroenterology · 2018
Typearticle
Languageen
FieldMedicine
TopicCytomegalovirus and herpesvirus research
Canadian institutionsUniversity of Alberta
Fundersnot available
KeywordsPrimary biliary cirrhosisProinflammatory cytokineImmune systemBiologyImmunologyT cellCD8Transmembrane proteinVirologyReceptorGeneticsInflammation

Abstract

fetched live from OpenAlex

Primary biliary cholangitis (PBC) is a slowly progressing autoimmune liver disease characterized by immune destruction of the interlobular bile ducts. While the etiology of PBC is unknown, it is thought to involve an environmental trigger in a genetically susceptible individual. Among environmental factors studied to date, only the human betaretrovirus (HBRV) has been reproducibly detected in PBC patients’ biliary epithelium. Recent studies have shown that the majority of PBC patients as well as proportion of patients with AIH and cryptogenic cirrhosis have evidence of HBRV RNA and proviral integrations in their biliary epithelium Previous studies suggest that PBC patiens make proinflammatory responses to HBRV proteins. Using overlapping peptides of the HBRV Gag and Env, we have found that 38% of PBC patients had memory CD8+ T-cell responses to HBRV Gag with intracellular IFN-γ and TNF-α production. Whereas only 7% of patients demonstrated proinflammtory responses by T-cells to HBRV Env stimulation in identical experiments. The finding of significant diminished proinflammatory T-cell response to HBRV Env versus HBRV Gag in PBC patients and our prior experience of finding diminished humoral responses to HBRV Env suggested a hypothesis that the HBRV Env may contain an immunosuppressive domain (ISD), a highly conserved sequence in transmembrane (TM) protein of retroviruses (such as HIV-1, MuLV and HERV-K) that induces immunoregulatory effect on the immune system In order to determine whether HBRV Env contains an ISD, we used 85 overlapping 18-mer individual HBRV peptides corresponding to SU and TM proteins to stimulate healthy PBMC. We examined whether individual peptides induced IL-10, IL-4, and IL-6 secretion. PBMCs (3 × 105 cells/well) from a healthy donor were incubated with individual HBRV SU and TM peptides for 24 hrs prior to collection of the supernatants. IL-10, IL-4, and IL-6 levels were then measured by Mesoscale analysis We identified a single peptide homologous to other retroviral ISDs located in HBRV TM protein that lead to IL-10, IL-4, and IL-6 production. In order to validate the identification of the HBRV ISD we repeated the experiment using HBRV ISD sequences with a single AA difference. The mutations were selected based on the homology of the potential HBRV ISD with known conserved ISDs in other retroviruses. Accordingly, we were able to identify the functionally important AAs in the ISD within the HBRV TM that triggered IL-10, IL-4, and IL-6 production by selectively altering the AAs in the HBRV ISD sequence These studies are important because they show how HBRV potentially avoids the immune attack to HBRV Env and tolerizes the host to viral infection. Further studies will be required to determine its other functional properties as well as the implications of this finding surrounding the pathophysiology underlying PBC CIHR

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.000
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.001
Threshold uncertainty score0.003

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.000
Science and technology studies0.0000.000
Scholarly communication0.0000.000
Open science0.0000.000
Research integrity0.0000.000
Insufficient payload (model declined to judge)0.0010.000

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.013
GPT teacher head0.293
Teacher spread0.280 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designBench or experimental
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations0
Published2018
Admission routes1
Has abstractyes

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