Evidence map›Paper›PMID 27364349›Full record

ReviewMammalian genome : official journal of the International Mammalian Genome Society2016

Unraveling the message: insights into comparative genomics of the naked mole-rat.

Kaitlyn N Lewis, Ilya Soifer, Eugene Melamud, Margaret Roy, R Scott McIsaac, Matthew Hibbs, Rochelle Buffenstein

Abstract readReview
In one paragraph

Review in Mammalian genome : official journal of the International Mammalian Genome Society, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing papers in PubMed
–field-weighted citation impact
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

31 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Article
  5. Article
  6. Article
  7. The reconstruction of evolutionary dynamics of processed pseudogenes indicates deep silencing of "retrobiome" in naked mole rat.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Review
  15. Article
  16. Article
  17. Article
  18. Perspectives ofAging · 2020
    Article
  19. Mild depolarization of the inner mitochondrial membrane is a crucial component of an anti-aging program.Proceedings of the National Academy of Sciences of the United States of America · 2020
    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.

Kaitlyn N LewisCalico Life Sciences LLC, 1170 Veterans Blvd, South San Francisco, CA, 94080, USA.
Ilya SoiferCalico Life Sciences LLC, 1170 Veterans Blvd, South San Francisco, CA, 94080, USA.
Eugene MelamudCalico Life Sciences LLC, 1170 Veterans Blvd, South San Francisco, CA, 94080, USA.
Margaret RoyCalico Life Sciences LLC, 1170 Veterans Blvd, South San Francisco, CA, 94080, USA.
R Scott McIsaacCalico Life Sciences LLC, 1170 Veterans Blvd, South San Francisco, CA, 94080, USA.
Matthew HibbsComputer Science Department, Trinity University, San Antonio, TX, 78212, USA.
Rochelle BuffensteinCalico Life Sciences LLC, 1170 Veterans Blvd, South San Francisco, CA, 94080, USA. rbuffen@calicolabs.com.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Animals have evolved to survive, and even thrive, in different environments. Genetic adaptations may have indirectly created phenotypes that also resulted in a longer lifespan. One example of this phenomenon is the preternaturally long-lived naked mole-rat. This strictly subterranean rodent tolerates hypoxia, hypercapnia, and soil-based toxins. Naked mole-rats also exhibit pronounced resistance to cancer and an attenuated decline of many physiological characteristics that often decline as mammals age. Elucidating mechanisms that give rise to their unique phenotypes will lead to better understanding of subterranean ecophysiology and biology of aging. Comparative genomics could be a useful tool in this regard. Since the publication of a naked mole-rat genome assembly in 2011, analyses of genomic and transcriptomic data have enabled a clearer understanding of mole-rat evolutionary history and suggested molecular pathways (e.g., NRF2-signaling activation and DNA damage repair mechanisms) that may explain the extraordinarily longevity and unique health traits of this species. However, careful scrutiny and re-analysis suggest that some identified features result from incorrect or imprecise annotation and assembly of the naked mole-rat genome: in addition, some of these conclusions (e.g., genes involved in cancer resistance and hairlessness) are rejected when the analysis includes additional, more closely related species. We describe how the combination of better study design, improved genomic sequencing techniques, and new bioinformatic and data analytical tools will improve comparative genomics and ultimately bridge the gap between traditional model and nonmodel organisms.

Indexed as

GenomeGenomicsAgingAnimalsLongevityMammalsMolecular Sequence AnnotationMole RatsRatsSpecies SpecificityTranscriptome

Identifiers

PMID27364349
PMCPMC4935753

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.