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Moderate nucleotide diversity in the Atlantic herring is associated with a low mutation rate

Feng, Chungang and Pettersson, Mats and Lamichhaney, Sangeet and Rubin, Carl-Johan and Rafati, Nima and Casini, Michele and Folkvord, Arild and Andersson, Leif (2017). Moderate nucleotide diversity in the Atlantic herring is associated with a low mutation rate. ELife. 6, 1-14
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Official URL: http://dx.doi.org/10.7554/eLife.23907

Abstract

The Atlantic herring is one of the most abundant vertebrates on earth but its nucleotide diversity is moderate (pi = 0.3%), only three-fold higher than in human. Here, we present a pedigree-based estimation of the mutation rate in this species. Based on whole-genome sequencing of four parents and 12 offspring, the estimated mutation rate is 2.0 x 10(-9) per base per generation. We observed a high degree of parental mosaicism indicating that a large fraction of these de novo mutations occurred during early germ cell development. The estimated mutation rate the lowest among vertebrates analyzed to date - partially explains the discrepancy between the rather low nucleotide diversity in herring and its huge census population size. But a species like the herring will never reach its expected nucleotide diversity because of fluctuations in population size over the millions of years it takes to build up high nucleotide diversity.

Authors/Creators:Feng, Chungang and Pettersson, Mats and Lamichhaney, Sangeet and Rubin, Carl-Johan and Rafati, Nima and Casini, Michele and Folkvord, Arild and Andersson, Leif
Title:Moderate nucleotide diversity in the Atlantic herring is associated with a low mutation rate
Series/Journal:ELife (BIB20855599)
Year of publishing :2017
Volume:6
Page range:1-14
Number of Pages:14
Publisher:eLife
ISSN:2050-084X
Language:English
Publication Type:Journal article
Refereed:Yes
Article category:Scientific peer reviewed
Version:Published version
Full Text Status:Public
Agris subject categories.:M Aquatic sciences and fisheries > M40 Aquatic ecology
Subjects:(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Evolutionary Biology
(A) Swedish standard research categories 2011 > 4 Agricultural Sciences > 401 Agricultural, Forestry and Fisheries > Fish and Aquacultural Science
Agrovoc terms:herrings, mutation, genomes
Keywords:nucleotide diversity, Atlantic herring, whole-genome sequencing, Clupea harengus, mutation rates, genetics
URN:NBN:urn:nbn:se:slu:epsilon-e-4593
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-e-4593
Additional ID:
Type of IDID
DOI10.7554/eLife.23907
Web of Science (WoS)000406099100001
ID Code:14899
Faculty:NJ - Fakulteten för naturresurser och jordbruksvetenskap
Department:(NL, NJ) > Department of Aquatic Resources
(NL, NJ) > Institutionen för husdjursgenetik (fr.o.m. 960101)
Deposited By: SLUpub Connector
Deposited On:22 Jan 2018 13:14
Metadata Last Modified:22 Jan 2018 13:14

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