Mitogenome polymorphism in a single branch sample revealed by SOLiD deep sequencing of the Lophelia pertusa coral genome

Emblem, Ase, Karlsen, Bard Ove, Evertsen, Jussi, Miller, David J., Moum, Truls, and Johansen, Steinar D. (2012) Mitogenome polymorphism in a single branch sample revealed by SOLiD deep sequencing of the Lophelia pertusa coral genome. Gene, 506 (2). pp. 344-349.

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Abstract

We present an initial genomic analysis of the non-symbiotic scleractinian coral Lophelia pertusa, the dominant cold-water reef-building coral species in the North Atlantic Ocean. A significant fraction of the deep sequencing reads was of mitochondrial and microbial origins. SOLiD deep sequencing reads from fragment library experiments of total DNA and PCR amplified mitogenome generated about 21,000 times and 136,000 times coverage, respectively, of the 16,150 bp mitogenome. Five polymorphic sites that include two non-synonymous sites in the NADH dehydrogenase subunit 5 genes were detected in both experiments. This observation is surprising since anthozoans in general exhibit very low mtDNA sequence variation at intraspecific level compared to nuclear sequences. More than fifty bacterial species associated with the coral isolate were also sequence detected, representing at least ten complete genomes. Most reads, however, were predicted to originate from the Lophelia nuclear genome.

Item ID: 23571
Item Type: Article (Refereed Research - C1)
Keywords: lophelia, SOLiD ligation sequencing, 454 pyrosequencing, mitochondrial heteroplasmy, Deep-sea coral, Cold-water coral
ISSN: 1879-0038
Funders: Tromsa Research Foundation, Research Council of Norway, University of Tromsa, University of Nordland
Date Deposited: 03 Oct 2012 05:39
FoR Codes: 06 BIOLOGICAL SCIENCES > 0608 Zoology > 060802 Animal Cell and Molecular Biology @ 50%
06 BIOLOGICAL SCIENCES > 0604 Genetics > 060499 Genetics not elsewhere classified @ 25%
06 BIOLOGICAL SCIENCES > 0603 Evolutionary Biology > 060399 Evolutionary Biology not elsewhere classified @ 25%
SEO Codes: 97 EXPANDING KNOWLEDGE > 970106 Expanding Knowledge in the Biological Sciences @ 100%
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