Evidence map›Paper›PMID 23435085›Full record

ArticleNature genetics2013

Sequencing of the sea lamprey (Petromyzon marinus) genome provides insights into vertebrate evolution.

Jeramiah J Smith, Shigehiro Kuraku, Carson Holt, Tatjana Sauka-Spengler, Ning Jiang, Michael S Campbell, Mark D Yandell, Tereza Manousaki, Axel Meyer, Ona E Bloom and 49 more

Abstract read
In one paragraph

Article in Nature genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 295 papers.

0numbers the graph read from it
0cells of the map it votes in
295citing 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

295 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Genomic Distortion of Jawed Vertebrate Phylogeny.bioRxiv : the preprint server for biology · 2026
    Article
  5. Article
  6. Substrate for Thyroid Hormone Synthesis: Biochemistry, Evolution, and Physiology.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2026
    Review
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Domain-Shuffling in the Evolution of Cyclostomes and Gnathostomes.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2025
    Article
  15. Article
  16. Article
  17. Review
  18. Article
  19. Endocrine control of gill ionocyte function in euryhaline fishes.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2024
    Review
  20. The evolution of tenascins.BMC ecology and evolution · 2024
    Article

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

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

59 authors.

Jeramiah J SmithDepartment of Biology, University of Kentucky, Lexington, Kentucky, USA. jjsmit3@uky.edu
Shigehiro Kuraku
Carson Holt
Tatjana Sauka-Spengler
Ning Jiang
Michael S Campbell
Mark D Yandell
Tereza Manousaki
Axel Meyer
Ona E Bloom
Jennifer R Morgan
Joseph D Buxbaum
Ravi Sachidanandam
Carrie Sims
Alexander S Garruss
Malcolm Cook
Robb Krumlauf
Leanne M Wiedemann
Stacia A Sower
Wayne A Decatur
Jeffrey A Hall
Chris T Amemiya
Nil R Saha
Katherine M Buckley
Jonathan P Rast
Sabyasachi Das
Masayuki Hirano
Nathanael McCurley
Peng Guo
Nicolas Rohner
Clifford J Tabin
Paul Piccinelli
Greg Elgar
Magali Ruffier
Bronwen L Aken
Stephen M J Searle
Matthieu Muffato
Miguel Pignatelli
Javier Herrero
Matthew Jones
C Titus Brown
Yu-Wen Chung-Davidson
Kaben G Nanlohy
Scot V Libants
Chu-Yin Yeh
David W McCauley
James A Langeland
Zeev Pancer
Bernd Fritzsch
Pieter J de Jong
Baoli Zhu
Lucinda L Fulton
Brenda Theising
Paul Flicek
Marianne E Bronner
Wesley C Warren
Sandra W Clifton
Richard K Wilson
Weiming Li

Funding

Large Scale Genome SequencingU54HG003079 · NHGRI · WASHINGTON UNIVERSITY · PI DUTCHER, SUSAN K · 2004 to 2016
$445.7M
INTERDISCIPLINARY TRAINING IN GENOMIC SCIENCEST32HG000035 · NHGRI · UNIVERSITY OF WASHINGTON · PI Bruce Colston Trapnell · 1995 to 2026
$24.2M
TRAINING PROGRAM IN GENETICST32GM007464 · NIGMS · UNIVERSITY OF UTAH · PI GRUNWALD, DAVID J., STANFIELD, GILLIAN · 1985 to 2020
$6.1M
Mechanisms of Synaptic Dysfunction in Parkinson s and Other Synuclein-Linked DiseasesR01NS078165 · NINDS · UNIVERSITY OF TEXAS AT AUSTIN · PI Jennifer Rebecca Morgan · 2012 to 2026
$5.5M
Hedgehog Signaling and Organogenesis of the LimbR37HD032443 · NICHD · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI TABIN, CLIFFORD J. · 2005 to 2014
$5.3M
Genomics Resources and Infrastucture for the ZebrafishR24RR014085 · NCRR · BOSTON UNIVERSITY MEDICAL CAMPUS · PI AMEMIYA, CHRIS T. · 2000 to 2011
$3.3M
Evolutionary Origin of Vertebrate Neural Crest Gene NetworksR01DE017911 · NIDCR · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI BRONNER, MARIANNE · 2007 to 2011
$2.7M
Software for the creation and quality control of genome annotationsR01HG004694 · NHGRI · UNIVERSITY OF UTAH · PI YANDELL, MARK DOUGLAS · 2008 to 2011
$2.2M
Emergence of developmental and genomic complexity in a basal vertebrateR01GM090049 · NIGMS · BENAROYA RESEARCH INST AT VIRGINIA MASON · PI AMEMIYA, CHRIS T., BRONNER, MARIANNE · 2010 to 2013
$2.2M
Regulatory Changes Mediating Emergence of Novel Neural Crest TraitsR01NS086907 · NINDS · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI BRONNER, MARIANNE · 2014 to 2018
$1.8M
Definition of an Ancient T cell-like System in LampreysR01GM100151 · NIGMS · EMORY UNIVERSITY · PI COOPER, MAX DALE · 2012 to 2016
$1.5M
Germline sequence resources & analyses in a vertebrate model that undergoes PGRR24GM095471 · NIGMS · BENAROYA RESEARCH INST AT VIRGINIA MASON · PI AMEMIYA, CHRIS T. · 2011 to 2014
$1.3M
CIHR MOP74667Medical Research Council MC_U117597141NCRR NIH HHS R24 RR014085NCRR NIH HHS RR014085NHGRI NIH HHS R01 HG004694NHGRI NIH HHS R01HG004694NHGRI NIH HHS T32 HG000035NHGRI NIH HHS T32HG00035NHGRI NIH HHS U54 HG003079NHGRI NIH HHS U54HG003079NICHD NIH HHS R37 HD032443NICHD NIH HHS R37HD032443NIDCR NIH HHS DE017911NIDCR NIH HHS R01 DE017911NIGMS NIH HHS F32 GM087919NIGMS NIH HHS F32GM087919NIGMS NIH HHS GM079492NIGMS NIH HHS GM090049NIGMS NIH HHS R01 GM090049NIGMS NIH HHS R01 GM100151NIGMS NIH HHS R21 GM079492NIGMS NIH HHS R24 GM083982NIGMS NIH HHS R24 GM095471NIGMS NIH HHS R24GM83982NIGMS NIH HHS T32 GM007464NINDS NIH HHS R01 NS086907NINDS NIH HHS R03 NS078519NINDS NIH HHS R03NS078519Wellcome Trust 095908Wellcome Trust WT098051
6 · The paper itself

Abstract

Lampreys are representatives of an ancient vertebrate lineage that diverged from our own ∼500 million years ago. By virtue of this deeply shared ancestry, the sea lamprey (P. marinus) genome is uniquely poised to provide insight into the ancestry of vertebrate genomes and the underlying principles of vertebrate biology. Here, we present the first lamprey whole-genome sequence and assembly. We note challenges faced owing to its high content of repetitive elements and GC bases, as well as the absence of broad-scale sequence information from closely related species. Analyses of the assembly indicate that two whole-genome duplications likely occurred before the divergence of ancestral lamprey and gnathostome lineages. Moreover, the results help define key evolutionary events within vertebrate lineages, including the origin of myelin-associated proteins and the development of appendages. The lamprey genome provides an important resource for reconstructing vertebrate origins and the evolutionary events that have shaped the genomes of extant organisms.

Indexed as

Chromosome MappingEvolution, MolecularGenomeAnimalsPetromyzonPhylogenyRepetitive Sequences, Nucleic AcidSequence Analysis, DNAVertebrates

Identifiers

PMID23435085
PMCPMC3709584

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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.