Evidence map›Paper›PMID 15667563›Full record

ArticleImmunology2005

Comparison of the expressed porcine Vbeta and Jbeta repertoire of thymocytes and peripheral T cells.

John E Butler, Nancy Wertz, Jishan Sun, Randy E Sacco

Open access · greenAbstract readComparative Study
In one paragraph

Article in Immunology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.1field-weighted citation impact, top 23% 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

15 citing papers in PubMed, 29 citations in OpenAlex.

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  9. Organization of lamprey variable lymphocyte receptor C locus and repertoire development.Proceedings of the National Academy of Sciences of the United States of America · 2013
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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

4 authors at 3 institutions in 1 country.

John E ButlerDepartment of Microbiology, The University of Iowa, Iowa City, IA 52242-1109, USA. john-butler@uiowa.edu
Nancy Wertz
Jishan Sun
Randy E Sacco
University of Iowa · USNational Animal Disease Center · USWake Forest University · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Transcripts of more than 300 unique T-cell receptor-beta (TCR-beta) V-D-J rearrangements recovered from porcine thymocytes and peripheral T cells were compared. We identified 19 groups (families) of porcine Vbeta genes in seven supergroups and provisionally named 17 groups based on their sequence similarity with recognized human Vbeta gene families. TRBV4S, 5S, 7S and 12S accounted for >80% of all Vbeta usage, and usage of these groups by thymocytes and peripheral T cells was highly correlated. No TRBV group was uniquely expressed in significant numbers in thymocytes, although small numbers of TRBV groups 2S, 9S and 15S were only recovered from T cells. Usage of Jbeta segments from the 5' D-J-C duplicon in thymocytes and peripheral T cells directly correlated with their 5' position in the locus, and Jbeta1.1, 1.2 and 1.3 accounted for >or= 35% of all Jbeta usage in both cell types. This contrasts with the usage of Jbeta2 segments in that Jbeta2.4, 2.5 and 2.7 accounted for approximately 30% of Jbeta usage by T cells and thymocytes. Jbeta2.7 was threefold more frequent among T cells than thymocytes. The Vbeta/Jbeta combination was not random. Jbeta1.1 and 1.2 were used in 29% of rearrangements with high frequency among the major Vbeta groups. Combinations of TRBV4 and V12 with Jbeta2.7 were only found in T cells and accounted for half of all Jbeta2.7 usage. These studies show that unlike porcine heavy chain V(H) genes, the occurrence and relative usage of porcine TCR-Vbeta groups resembles that of humans. Thus, highly related gene systems can individually diverge within a species.

Indexed as

Gene Rearrangement, beta-Chain T-Cell Antigen ReceptorAnimalsAnimals, NewbornBase SequenceCloning, MolecularConserved SequenceHumansImmunoglobulin Joining RegionImmunoglobulin Variable RegionMiceMolecular Sequence DataSequence AlignmentSequence Analysis, DNASwineThymus GlandT-LymphocytesImmunoglobulin Joining RegionImmunoglobulin Variable Region

Identifiers

PMID15667563
PMCPMC1782068
OpenAlexW2141000594

What OpenQuestion holds

Textmetadata
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.