Evidence map›Paper›PMID 27768887›Full record

ArticleCell2016

Progressive Loss of Function in a Limb Enhancer during Snake Evolution.

Evgeny Z Kvon, Olga K Kamneva, Uirá S Melo, Iros Barozzi, Marco Osterwalder, Brandon J Mannion, Virginie Tissières, Catherine S Pickle, Ingrid Plajzer-Frick, Elizabeth A Lee and 9 more

Open access · bronzeAbstract read
In one paragraph

Article in Cell, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 199 papers.

0numbers the graph read from it
0cells of the map it votes in
199citing papers in PubMed
17.4field-weighted citation impact, top 1% 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

199 citing papers in PubMed, 368 citations in OpenAlex.

  1. Loss, persistence and reversal of phenotypic traits.Biological reviews of the Cambridge Philosophical Society · 2026
    Review
  2. Article
  3. Review
  4. A putativebioRxiv : the preprint server for biology · 2026
    Article
  5. The genomic origins and evolutionary path to a key innovation in the world's most venomous snakes.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Review
  14. Article
  15. Article
  16. Article
  17. The bacteria of a fig community.Microbiology spectrum · 2026
    Article
  18. Article
  19. Article
  20. Article

139 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors at 4 institutions in 2 countries.

Evgeny Z KvonMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Olga K KamnevaDepartment of Biology, Stanford University, Stanford, CA 94305, USA.
Uirá S MeloMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Iros BarozziMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Marco OsterwalderMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Brandon J MannionMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Virginie TissièresDepartment of Biomedicine, University of Basel, 4058 Basel, Switzerland.
Catherine S PickleMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Ingrid Plajzer-FrickMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Elizabeth A LeeMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Momoe KatoMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Tyler H GarvinMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Jennifer A AkiyamaMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Veena AfzalMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Javier Lopez-RiosDepartment of Biomedicine, University of Basel, 4058 Basel, Switzerland.
Edward M RubinMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA.
Diane E DickelMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Len A PennacchioMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA. Electronic address: lapennacchio@lbl.gov.
Axel ViselMS 84-171, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA; School of Natural Sciences, University of California, Merced, CA 95343, USA. Electronic address: avisel@lbl.gov.
Lawrence Berkeley National Laboratory · USUniversity of Basel · CHJoint Genome Institute · USStanford University · US

Funding

Generation of an In Vivo Human Genome Transcriptional Enhancer DatasetR01HG003988 · NHGRI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI Len Alexander Pennacchio · 2006 to 2026
$24.1M
Center for Mammalian Regulatory GenomicsU54HG006997 · NHGRI · LUDWIG INSTITUTE FOR CANCER RES LTD · PI REN, BING · 2012 to 2016
$14.3M
Genomic, Transgenic and Knockout Resources for Craniofacial Enhancer StudiesU01DE024427 · NIDCR · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI VISEL, AXEL · 2014 to 2018
$3.7M
NHGRI NIH HHS R01 HG003988NHGRI NIH HHS U54 HG006997NIDCR NIH HHS U01 DE024427
6 · The paper itself

Abstract

The evolution of body shape is thought to be tightly coupled to changes in regulatory sequences, but specific molecular events associated with major morphological transitions in vertebrates have remained elusive. We identified snake-specific sequence changes within an otherwise highly conserved long-range limb enhancer of Sonic hedgehog (Shh). Transgenic mouse reporter assays revealed that the in vivo activity pattern of the enhancer is conserved across a wide range of vertebrates, including fish, but not in snakes. Genomic substitution of the mouse enhancer with its human or fish ortholog results in normal limb development. In contrast, replacement with snake orthologs caused severe limb reduction. Synthetic restoration of a single transcription factor binding site lost in the snake lineage reinstated full in vivo function to the snake enhancer. Our results demonstrate changes in a regulatory sequence associated with a major body plan transition and highlight the role of enhancers in morphological evolution. PAPERCLIP.

Indexed as

Biological EvolutionEnhancer Elements, GeneticAnimalsBase SequenceEvolution, MolecularExtremitiesGene Knock-In TechniquesHedgehog ProteinsMiceMice, TransgenicMutationPhylogenySnakesHedgehog Proteinscis-regulatory elementCRISPR/Cas9enhancerevo-devogenome editinglimb developmentmorphological evolutionsnakesSonic hedgehog (Shh)ZRS

Identifiers

PMID27768887
PMCPMC5484524
OpenAlexW2536097271

What OpenQuestion holds

Textmetadata
LicenceTDM
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.