Low mutation rate in epaulette sharks is consistent with a slow rate of evolution in sharks.


Journal

Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555

Informations de publication

Date de publication:
19 10 2023
Historique:
received: 31 03 2023
accepted: 03 10 2023
medline: 23 10 2023
pubmed: 20 10 2023
entrez: 19 10 2023
Statut: epublish

Résumé

Sharks occupy diverse ecological niches and play critical roles in marine ecosystems, often acting as apex predators. They are considered a slow-evolving lineage and have been suggested to exhibit exceptionally low cancer rates. These two features could be explained by a low nuclear mutation rate. Here, we provide a direct estimate of the nuclear mutation rate in the epaulette shark (Hemiscyllium ocellatum). We generate a high-quality reference genome, and resequence the whole genomes of parents and nine offspring to detect de novo mutations. Using stringent criteria, we estimate a mutation rate of 7×10

Identifiants

pubmed: 37857613
doi: 10.1038/s41467-023-42238-x
pii: 10.1038/s41467-023-42238-x
pmc: PMC10587355
doi:

Types de publication

Journal Article Research Support, N.I.H., Intramural Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

6628

Informations de copyright

© 2023. Springer Nature Limited.

Références

Proc Biol Sci. 2008 Jan 7;275(1630):83-9
pubmed: 17956843
J Clin Oncol. 1998 Nov;16(11):3649-55
pubmed: 9817287
J Exp Biol. 2005 May;208(Pt 9):1611-9
pubmed: 15855392
Mol Biol Evol. 2019 Nov 1;36(11):2536-2547
pubmed: 31297530
Nat Biotechnol. 2011 May 15;29(7):644-52
pubmed: 21572440
Genome Biol. 2020 Sep 14;21(1):245
pubmed: 32928274
Mol Ecol Resour. 2021 May;21(4):1359-1368
pubmed: 33453139
Genome Res. 2017 May;27(5):722-736
pubmed: 28298431
Nature. 2023 Mar;615(7951):285-291
pubmed: 36859541
Genome Biol. 2021 Apr 29;22(1):120
pubmed: 33910595
Proc Natl Acad Sci U S A. 2019 Mar 5;116(10):4446-4455
pubmed: 30782839
Mol Biol Evol. 2022 May 3;39(5):
pubmed: 35580068
Bioinformatics. 2009 Jul 15;25(14):1754-60
pubmed: 19451168
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W435-9
pubmed: 16845043
Commun Biol. 2020 Nov 6;3(1):652
pubmed: 33159152
Nat Commun. 2023 Oct 19;14(1):6628
pubmed: 37857613
Science. 1976 Jul 2;193(4247):70-2
pubmed: 935859
Genome Res. 2010 Sep;20(9):1297-303
pubmed: 20644199
Ecol Lett. 2010 Aug 1;13(8):1055-71
pubmed: 20528897
Biol Direct. 2008 May 21;3:20
pubmed: 18495041
J Natl Cancer Inst. 2010 Jun 16;102(12):859-65
pubmed: 20505152
BMC Bioinformatics. 2005 Feb 15;6:31
pubmed: 15713233
Genome Res. 2004 May;14(5):988-95
pubmed: 15123596
J Fish Biol. 2012 Apr;80(5):991-1018
pubmed: 22497371
Nat Commun. 2017 May 09;8:15183
pubmed: 28485371
Bioinformatics. 2015 Oct 1;31(19):3210-2
pubmed: 26059717
Gigascience. 2021 Feb 16;10(2):
pubmed: 33590861
Sci Rep. 2020 Nov 9;10(1):19297
pubmed: 33168918
Nature. 2021 Apr;592(7856):737-746
pubmed: 33911273
Genome Res. 2022 Mar;32(3):583-594
pubmed: 35082141
Bioinformatics. 2020 Jun 1;36(12):3687-3692
pubmed: 32246826
Nat Biotechnol. 2015 Mar;33(3):290-5
pubmed: 25690850
Science. 1983 Sep 16;221(4616):1185-7
pubmed: 6193581
Nat Commun. 2020 May 15;11(1):2438
pubmed: 32415133
Expert Rev Mol Med. 2012 Jan 19;14:e10
pubmed: 22559283
Elife. 2017 Jun 30;6:
pubmed: 28665273
Nat Biotechnol. 2018 Oct 22;:
pubmed: 30346939
Gigascience. 2021 Jan 9;10(1):
pubmed: 33420778
J Exp Zool. 1999 Oct 1;284(5):586-94
pubmed: 10469996
BMC Bioinformatics. 2021 Mar 6;22(1):109
pubmed: 33676403
Nat Ecol Evol. 2018 Nov;2(11):1761-1771
pubmed: 30297745
Trends Genet. 2010 Aug;26(8):345-52
pubmed: 20594608
Nat Methods. 2022 Jun;19(6):696-704
pubmed: 35361932
Dev Dyn. 2018 May;247(5):712-723
pubmed: 29396887
PLoS Comput Biol. 2019 Aug 21;15(8):e1007273
pubmed: 31433799
Bioinformatics. 2020 May 1;36(9):2896-2898
pubmed: 31971576
Nature. 1992 May 14;357(6374):153-5
pubmed: 1579163
Nat Methods. 2015 Apr;12(4):357-60
pubmed: 25751142
Proc Biol Sci. 2008 Jan 22;275(1631):181-6
pubmed: 17971323
Cancer Res. 2004 Dec 1;64(23):8485-91
pubmed: 15574750
Cancer. 2005 Jul 1;104(1):176-82
pubmed: 15912493
Proc Natl Acad Sci U S A. 1993 May 1;90(9):4087-91
pubmed: 8483925
Bioinformatics. 2018 Sep 15;34(18):3094-3100
pubmed: 29750242
Acta Oncol. 1998;37(5):441-5
pubmed: 9831372
J Mol Evol. 1977 Apr 29;9(2):159-80
pubmed: 864721
Mol Ecol. 2021 Dec;30(23):6087-6100
pubmed: 34062029

Auteurs

Ashley T Sendell-Price (AT)

Department of Medical Biochemistry and Microbiology, Uppsala University, SE75123, Uppsala, Sweden.
Bioinformatics Research Technology Platform, University of Warwick, Coventry, UK.

Frank J Tulenko (FJ)

Australian Regenerative Medicine Institute, Monash University, Victoria, 3800, Australia.

Mats Pettersson (M)

Department of Medical Biochemistry and Microbiology, Uppsala University, SE75123, Uppsala, Sweden.

Du Kang (D)

The Xiphophorus Genetic Stock Center, Department of Chemistry and Biochemistry, Texas State University, San Marcos, TX, 78666, USA.

Margo Montandon (M)

Australian Regenerative Medicine Institute, Monash University, Victoria, 3800, Australia.

Sylke Winkler (S)

Max-Planck Institute of Molecular Cell Biology and Genetics, 01307, Dresden, Germany.

Kathleen Kulb (K)

Max-Planck Institute of Molecular Cell Biology and Genetics, 01307, Dresden, Germany.

Gavin P Naylor (GP)

Florida Museum of Natural History, University of Florida, Gainesville, FL, 32611, USA.

Adam Phillippy (A)

Translational and Functional Genomics Branch, National Human Genome Research Institute, National Institutes of Health Bethesda, Bethesda, MD, 20892, USA.

Olivier Fedrigo (O)

Vertebrate Genome Laboratory, Rockefeller University, New York, NY, 10065, USA.

Jacquelyn Mountcastle (J)

Research Center for Genomic and Computational Biology, Duke University, Durham, NC, 27708, USA.

Jennifer R Balacco (JR)

Research Center for Genomic and Computational Biology, Duke University, Durham, NC, 27708, USA.

Amalia Dutra (A)

Cytogenetics and Microscopy Core, National Human Genome Research Institute, National Institutes of Health Bethesda, Bethesda, MD, 20892, USA.

Rebecca E Dale (RE)

Australian Regenerative Medicine Institute, Monash University, Victoria, 3800, Australia.

Bettina Haase (B)

Vertebrate Genome Laboratory, Rockefeller University, New York, NY, 10065, USA.

Erich D Jarvis (ED)

Vertebrate Genome Laboratory, Rockefeller University, New York, NY, 10065, USA.

Gene Myers (G)

Max-Planck Institute of Molecular Cell Biology and Genetics, 01307, Dresden, Germany.
Center of Systems Biology Dresden, 01307, Dresden, Germany.

Shawn M Burgess (SM)

Translational and Functional Genomics Branch, National Human Genome Research Institute, National Institutes of Health Bethesda, Bethesda, MD, 20892, USA. burgess@mail.nih.gov.

Peter D Currie (PD)

Australian Regenerative Medicine Institute, Monash University, Victoria, 3800, Australia. peter.currie@monash.edu.
EMBL Australia, Victorian Node, Monash University, Clayton, Victoria, 3800, Australia. peter.currie@monash.edu.

Leif Andersson (L)

Department of Medical Biochemistry and Microbiology, Uppsala University, SE75123, Uppsala, Sweden. leif.andersson@imbim.uu.se.
Department of Veterinary Integrative Biosciences, Texas A&M University, College Station, TX77483, USA. leif.andersson@imbim.uu.se.

Manfred Schartl (M)

Developmental Biochemistry, Theodor-Boveri Institute, Biocenter, University of Würzburg, 97074, Würzburg, Germany. phch1@biozentrum.uni-wuerzburg.de.

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Classifications MeSH