Evidence map›Paper›PMID 23345432›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2013

Functional redundancy between the XLF and DNA-PKcs DNA repair factors in V(D)J recombination and nonhomologous DNA end joining.

Valentyn Oksenych, Vipul Kumar, Xiangyu Liu, Chunguang Guo, Bjoern Schwer, Shan Zha, Frederick W Alt

Open access · bronzeAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.

0numbers the graph read from it
0cells of the map it votes in
49citing papers in PubMed
2.8field-weighted citation impact, top 9% 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

49 citing papers in PubMed, 112 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. When DNA-damage responses meet innate and adaptive immunity.Cellular and molecular life sciences : CMLS · 2024
    Review
  9. Phosphorylation of DNA-PKcs at the S2056 cluster ensures efficient and productive lymphocyte development in XLF-deficient mice.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  10. Article
  11. Article
  12. Primary Founder Mutations in theInternational journal of molecular sciences · 2022
    Article
  13. Review
  14. Article
  15. Article
  16. Review
  17. Review
  18. Article
  19. DNA Damage Response.Biomolecules · 2021
    Article
  20. 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

7 authors at 5 institutions in 1 country.

Valentyn OksenychHoward Hughes Medical Institute, Program in Cellular and Molecular Medicine, Boston Children's Hospital, and Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.
Vipul Kumar
Xiangyu Liu
Chunguang Guo
Bjoern Schwer
Shan Zha
Frederick W Alt
Harvard University · USBoston Children's Hospital · USCancer Genetics (United States) · USColumbia University · USHoward Hughes Medical Institute · US

Funding

Role of TACI mutations in CVIDP01AI076210 · NIAID · BETH ISRAEL DEACONESS MEDICAL CENTER · PI TERHORST, CORNELIS P · 2009 to 2013
$9.0M
The role of ATM in the suppression of lymphoid malignancyR01CA158073 · NCI · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Shan Zha · 2011 to 2026
$5.7M
Elucidation of The Role Of SIRT6 In Neural Function, Aging, And NeurodegenerationK01AG043630 · NIA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SCHWER, BJOERN · 2012 to 2016
$647k
Howard Hughes Medical InstituteNCI NIH HHS 5R01CA158073NCI NIH HHS R01 CA158073NIAID NIH HHS AI076210NIAID NIH HHS P01 AI076210NIA NIH HHS K01 AG043630
6 · The paper itself

Abstract

Classical nonhomologous end joining (C-NHEJ) is a major mammalian DNA double-strand break (DSB) repair pathway that is required for assembly of antigen receptor variable region gene segments by V(D)J recombination. Recombination activating gene endonuclease initiates V(D)J recombination by generating DSBs between two V(D)J coding gene segments and flanking recombination signal sequences (RS), with the two coding ends and two RS ends joined by C-NHEJ to form coding joins and signal joins, respectively. During C-NHEJ, recombination activating gene factor generates two coding ends as covalently sealed hairpins and RS ends as blunt 5'-phosphorylated DSBs. Opening and processing of coding end hairpins before joining by C-NHEJ requires the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). However, C-NHEJ of RS ends, which do not require processing, occurs relatively normally in the absence of DNA-PKcs. The XRCC4-like factor (XLF) is a C-NHEJ component that is not required for C-NHEJ of chromosomal signal joins or coding joins because of functional redundancy with ataxia telangiectasia mutated kinase, a protein that also has some functional overlap with DNA-PKcs in this process. Here, we show that XLF has dramatic functional redundancy with DNA-PKcs in the V(D)J SJ joining process, which is nearly abrogated in their combined absence. Moreover, we show that XLF functionally overlaps with DNA-PKcs in normal mouse development, promotion of genomic stability in mouse fibroblasts, and in IgH class switch recombination in mature B cells. Our findings suggest that DNA-PKcs has fundamental roles in C-NHEJ processes beyond end processing that have been masked by functional overlaps with XLF.

Indexed as

AnimalsCell LineDNA-Activated Protein KinaseDNA-Binding ProteinsDNA End-Joining RepairGenomic InstabilityImmunoglobulin Class SwitchingMiceMice, KnockoutNuclear ProteinsPrecursor Cells, B-LymphoidV(D)J RecombinationDNA-Activated Protein KinaseDNA-Binding ProteinsNuclear ProteinsPrkdc protein, mouseXLF protein, mouse

Identifiers

PMID23345432
PMCPMC3568359
OpenAlexW2080576686

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.