Evidence map›Paper›PMID 28180967›Full record

ArticleImmunogenetics2017

The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation.

John C Schwartz, Mark S Gibson, Dorothea Heimeier, Sergey Koren, Adam M Phillippy, Derek M Bickhart, Timothy P L Smith, Juan F Medrano, John A Hammond

Open access · hybridAbstract readComparative Study
In one paragraph

Article in Immunogenetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed
1.2field-weighted citation impact, top 21% 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

19 citing papers in PubMed, 33 citations in OpenAlex.

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  11. Novel functional sequences uncovered through a bovine multiassembly graph.Proceedings of the National Academy of Sciences of the United States of America · 2021
    Article
  12. Article
  13. Two Lineages ofJournal of immunology (Baltimore, Md. : 1950) · 2020
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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

9 authors at 6 institutions in 3 countries.

John C SchwartzLivestock Viral Diseases Programme, The Pirbright Institute, Ash Road, Pirbright, Surrey, GU24 0NF, UK.
Mark S GibsonLivestock Viral Diseases Programme, The Pirbright Institute, Ash Road, Pirbright, Surrey, GU24 0NF, UK.
Dorothea HeimeierLivestock Viral Diseases Programme, The Pirbright Institute, Ash Road, Pirbright, Surrey, GU24 0NF, UK.
Sergey KorenGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, Bethesda, MD, 20892, USA.
Adam M PhillippyGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, Bethesda, MD, 20892, USA.
Derek M BickhartAnimal Genomics and Improvement Laboratory, USDA-ARS, Beltsville, MD, 20705, USA.
Timothy P L SmithMeat Animal Research Center, USDA-ARS, Clay Center, NE, 68933, USA.
Juan F MedranoDepartment of Animal Science, University of California, Davis, Davis, CA, 95616, USA.
John A HammondLivestock Viral Diseases Programme, The Pirbright Institute, Ash Road, Pirbright, Surrey, GU24 0NF, UK. john.hammond@pirbright.ac.uk.
The Pirbright Institute · GBNational Human Genome Research Institute · USAgricultural Research Service · USRoman L. Hruska U.S. Meat Animal Research Center · USUniversidade Nova de Lisboa · PTUniversity of California, Davis · US

Funding

Single-molecule sequence assembly and analysisZIAHG200398 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI PHILLIPPY, ADAM · 2016 to 2025
$15.9M
Biotechnology and Biological Sciences Research Council BB/J006211/1
6 · The paper itself

Abstract

Natural killer (NK) cells are a diverse population of lymphocytes with a range of biological roles including essential immune functions. NK cell diversity is in part created by the differential expression of cell surface receptors which modulate activation and function, including multiple subfamilies of C-type lectin receptors encoded within the NK complex (NKC). Little is known about the gene content of the NKC beyond rodent and primate lineages, other than it appears to be extremely variable between mammalian groups. We compared the NKC structure between mammalian species using new high-quality draft genome assemblies for cattle and goat; re-annotated sheep, pig, and horse genome assemblies; and the published human, rat, and mouse lemur NKC. The major NKC genes are largely in the equivalent positions in all eight species, with significant independent expansions and deletions between species, allowing us to propose a model for NKC evolution during mammalian radiation. The ruminant species, cattle and goats, have independently evolved a second KLRC locus flanked by KLRA and KLRJ, and a novel KLRH-like gene has acquired an activating tail. This novel gene has duplicated several times within cattle, while other activating receptor genes have been selectively disrupted. Targeted genome enrichment in cattle identified varying levels of allelic polymorphism between the NKC genes concentrated in the predicted extracellular ligand-binding domains. This novel recombination and allelic polymorphism is consistent with NKC evolution under balancing selection, suggesting that this diversity influences individual immune responses and may impact on differential outcomes of pathogen infection and vaccination.

Indexed as

Evolution, MolecularGenomeMolecular Sequence AnnotationAnimalsHumansKiller Cells, NaturalLectins, C-TypeMammalsPhylogenyPolymorphism, GeneticReceptors, Natural Killer CellSelection, GeneticSequence Analysis, DNALectins, C-TypeReceptors, Natural Killer CellC-type lectinKLRAKLRCLeukocyte receptor complexNatural killer cellsNatural killer complex

Identifiers

PMID28180967
PMCPMC5350243
OpenAlexW2951643627

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.