Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity

Summary: Long-lived rodents have become an attractive model for the studies on aging. To understand evolutionary paths to long life, we prepare chromosome-level genome assemblies of the two longest-lived rodents, Canadian beaver (Castor canadensis) and naked mole rat (NMR, Heterocephalus glaber), wh...

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Main Authors: Xuming Zhou, Qianhui Dou, Guangyi Fan, Quanwei Zhang, Maxwell Sanderford, Alaattin Kaya, Jeremy Johnson, Elinor K. Karlsson, Xiao Tian, Aleksei Mikhalchenko, Sudhir Kumar, Andrei Seluanov, Zhengdong D. Zhang, Vera Gorbunova, Xin Liu, Vadim N. Gladyshev
Format: Article
Language:English
Published: Elsevier 2020-07-01
Series:Cell Reports
Subjects:
Online Access:http://www.sciencedirect.com/science/article/pii/S221112472030930X
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spelling doaj-ea51d19aa12e402fac6d66e05cd4f5252020-11-25T03:30:32ZengElsevierCell Reports2211-12472020-07-01324107949Beaver and Naked Mole Rat Genomes Reveal Common Paths to LongevityXuming Zhou0Qianhui Dou1Guangyi Fan2Quanwei Zhang3Maxwell Sanderford4Alaattin Kaya5Jeremy Johnson6Elinor K. Karlsson7Xiao Tian8Aleksei Mikhalchenko9Sudhir Kumar10Andrei Seluanov11Zhengdong D. Zhang12Vera Gorbunova13Xin Liu14Vadim N. Gladyshev15Division of Genetics, Department of Medicine, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, Massachusetts, MA 02142, USADivision of Genetics, Department of Medicine, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USABGI—Shenzhen, Shenzhen 518083, ChinaAlbert Einstein College of Medicine, Bronx, NY 10461, USAInstitute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA 19122, USADivision of Genetics, Department of Medicine, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, Massachusetts, MA 02142, USA; Department of Biology, Virginia Commonwealth University, Richmond, VA 23284 USABroad Institute of Harvard and MIT, Cambridge, Massachusetts, MA 02142, USABroad Institute of Harvard and MIT, Cambridge, Massachusetts, MA 02142, USA; University of Massachusetts Medical School, Worcester, MA 01655, USADepartment of Biology, University of Rochester, Rochester, NY 14627, USA; Department of Medicine, University of Rochester, Rochester, NY 14627, USADivision of Genetics, Department of Medicine, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USAInstitute for Genomics and Evolutionary Medicine, Temple University, Philadelphia, PA 19122, USADepartment of Biology, University of Rochester, Rochester, NY 14627, USA; Department of Medicine, University of Rochester, Rochester, NY 14627, USAAlbert Einstein College of Medicine, Bronx, NY 10461, USADepartment of Biology, University of Rochester, Rochester, NY 14627, USA; Department of Medicine, University of Rochester, Rochester, NY 14627, USABGI—Shenzhen, Shenzhen 518083, ChinaDivision of Genetics, Department of Medicine, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, Massachusetts, MA 02142, USA; Corresponding authorSummary: Long-lived rodents have become an attractive model for the studies on aging. To understand evolutionary paths to long life, we prepare chromosome-level genome assemblies of the two longest-lived rodents, Canadian beaver (Castor canadensis) and naked mole rat (NMR, Heterocephalus glaber), which were scaffolded with in vitro proximity ligation and chromosome conformation capture data and complemented with long-read sequencing. Our comparative genomic analyses reveal that amino acid substitutions at “disease-causing” sites are widespread in the rodent genomes and that identical substitutions in long-lived rodents are associated with common adaptive phenotypes, e.g., enhanced resistance to DNA damage and cellular stress. By employing a newly developed substitution model and likelihood ratio test, we find that energy and fatty acid metabolism pathways are enriched for signals of positive selection in both long-lived rodents. Thus, the high-quality genome resource of long-lived rodents can assist in the discovery of genetic factors that control longevity and adaptive evolution.http://www.sciencedirect.com/science/article/pii/S221112472030930Xbeavernaked mole ratgenomestress resistancelongevityaging
collection DOAJ
language English
format Article
sources DOAJ
author Xuming Zhou
Qianhui Dou
Guangyi Fan
Quanwei Zhang
Maxwell Sanderford
Alaattin Kaya
Jeremy Johnson
Elinor K. Karlsson
Xiao Tian
Aleksei Mikhalchenko
Sudhir Kumar
Andrei Seluanov
Zhengdong D. Zhang
Vera Gorbunova
Xin Liu
Vadim N. Gladyshev
spellingShingle Xuming Zhou
Qianhui Dou
Guangyi Fan
Quanwei Zhang
Maxwell Sanderford
Alaattin Kaya
Jeremy Johnson
Elinor K. Karlsson
Xiao Tian
Aleksei Mikhalchenko
Sudhir Kumar
Andrei Seluanov
Zhengdong D. Zhang
Vera Gorbunova
Xin Liu
Vadim N. Gladyshev
Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity
Cell Reports
beaver
naked mole rat
genome
stress resistance
longevity
aging
author_facet Xuming Zhou
Qianhui Dou
Guangyi Fan
Quanwei Zhang
Maxwell Sanderford
Alaattin Kaya
Jeremy Johnson
Elinor K. Karlsson
Xiao Tian
Aleksei Mikhalchenko
Sudhir Kumar
Andrei Seluanov
Zhengdong D. Zhang
Vera Gorbunova
Xin Liu
Vadim N. Gladyshev
author_sort Xuming Zhou
title Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity
title_short Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity
title_full Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity
title_fullStr Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity
title_full_unstemmed Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity
title_sort beaver and naked mole rat genomes reveal common paths to longevity
publisher Elsevier
series Cell Reports
issn 2211-1247
publishDate 2020-07-01
description Summary: Long-lived rodents have become an attractive model for the studies on aging. To understand evolutionary paths to long life, we prepare chromosome-level genome assemblies of the two longest-lived rodents, Canadian beaver (Castor canadensis) and naked mole rat (NMR, Heterocephalus glaber), which were scaffolded with in vitro proximity ligation and chromosome conformation capture data and complemented with long-read sequencing. Our comparative genomic analyses reveal that amino acid substitutions at “disease-causing” sites are widespread in the rodent genomes and that identical substitutions in long-lived rodents are associated with common adaptive phenotypes, e.g., enhanced resistance to DNA damage and cellular stress. By employing a newly developed substitution model and likelihood ratio test, we find that energy and fatty acid metabolism pathways are enriched for signals of positive selection in both long-lived rodents. Thus, the high-quality genome resource of long-lived rodents can assist in the discovery of genetic factors that control longevity and adaptive evolution.
topic beaver
naked mole rat
genome
stress resistance
longevity
aging
url http://www.sciencedirect.com/science/article/pii/S221112472030930X
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