title: Mitogenome polymorphism in a single branch sample revealed by SOLiD deep sequencing of the Lophelia pertusa coral genome.
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.
authors: RNA and Transcriptomics group, Department of Medical Biology, Faculty of Health Sciences, University of Tromsø, N-9037 Tromsø, Norway.
authors: Ase
authors: A
authors: Emblem
authors: Bård Ove
authors: BO
authors: Karlsen
authors: Jussi
authors: J
authors: Evertsen
authors: David J
authors: DJ
authors: Miller
authors: Truls
authors: T
authors: Moum
authors: Steinar D
authors: SD
authors: Johansen
mesh_terms: D000818:Animals; D037421:Anthozoa / Q000235:genetics*; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods; D004247:DNA / Q000235:genetics; D014644:Genetic Variation; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods; D008969:Molecular Sequence Data; D016133:Polymerase Chain Reaction / Q000379:methods; D011110:Polymorphism, Genetic; D020641:Polymorphism, Single Nucleotide; D012335:RNA, Ribosomal / Q000378:metabolism; D012270:Ribosomes / Q000378:metabolism; D017422:Sequence Analysis, DNA
chemical_list: D012335:RNA, Ribosomal; D004247:DNA