Evidence map›Paper›PMID 18956179›Full record

ArticleImmunogenetics2008

Comparative genetics of a highly divergent DRB microsatellite in different macaque species.

Nanine de Groot, Gaby G M Doxiadis, Annemiek J M de Vos-Rouweler, Natasja G de Groot, Ernst J Verschoor, Ronald E Bontrop

Open access · hybridAbstract readComparative Study
In one paragraph

Article in Immunogenetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing papers in PubMed
1.6field-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

20 citing papers in PubMed, 30 citations in OpenAlex.

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  9. Evolution of HLA-DRB genes.Molecular biology and evolution · 2012
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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

6 authors at 1 institution in 1 country.

Nanine de GrootDepartment of Comparative Genetics and Refinement, Biomedical Primate Research Centre, Rijswijk, The Netherlands. nanine.de.groot@bprc.nl
Gaby G M Doxiadis
Annemiek J M de Vos-Rouweler
Natasja G de Groot
Ernst J Verschoor
Ronald E Bontrop
Biomedical Primate Research Centre · NL

Funding

MHC TYPING OF MACAQUES USED IN AIDS RESEARCHR24RR016038 · NCRR · UNIVERSITY OF WISCONSIN-MADISON · PI WATKINS, DAVID I · 2001 to 2011
$6.3M
NCRR NIH HHS 5R24RR016038-05NCRR NIH HHS R24 RR016038NIAID NIH HHS HHSN266200400088C/NOI-AI-0088
6 · The paper itself

Abstract

The DRB region of the major histocompatibility complex (MHC) of cynomolgus and rhesus macaques is highly plastic, and extensive copy number variation together with allelic polymorphism makes it a challenging enterprise to design a typing protocol. All intact DRB genes in cynomolgus monkeys (Mafa) appear to possess a compound microsatellite, DRB-STR, in intron 2, which displays extensive length polymorphism. Therefore, this STR was studied in a large panel of animals, comprising pedigreed families as well. Sequencing analysis resulted in the detection of 60 Mafa-DRB exon 2 sequences that were unambiguously linked to the corresponding microsatellite. Its length is often allele specific and follows Mendelian segregation. In cynomolgus and rhesus macaques, the nucleotide composition of the DRB-STR is in concordance with the phylogeny of exon 2 sequences. As in humans and rhesus monkeys, this protocol detects specific combinations of different DRB-STR lengths that are unique for each haplotype. In the present panel, 22 Mafa-DRB region configurations could be defined, which exceeds the number detected in a comparable cohort of Indian rhesus macaques. The results suggest that, in cynomolgus monkeys, even more frequently than in rhesus macaques, new haplotypes are generated by recombination-like events. Although both macaque species are known to share several identical DRB exon 2 sequences, the lengths of the corresponding microsatellites often differ. Thus, this method allows not only fast and accurate DRB haplotyping but may also permit discrimination between highly related macaque species.

Indexed as

Genes, MHC Class IIMicrosatellite InstabilityAnimalsBase SequenceDNA, MitochondrialDNA, RibosomalExonsMacaca fascicularisMacaca mulattaMaleMicrosatellite RepeatsMolecular Sequence DataPhylogenyRecombination, GeneticRNA, RibosomalSequence AlignmentDNA, MitochondrialDNA, RibosomalRNA, RibosomalRNA, ribosomal, 12S

Identifiers

PMID18956179
PMCPMC4629986
OpenAlexW2074095020

What OpenQuestion holds

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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.