title: Complete mitochondrial genome sequence of a Hungarian red deer (Cervus elaphus hippelaphus) from high-throughput sequencing data and its phylogenetic position within the family Cervidae.
abstract: Recently, there has been considerable interest in genetic differentiation in the Cervidae family. A common tool used to determine genetic variation in different species, breeds and populations is mitochondrial DNA analysis, which can be used to estimate phylogenetic relationships among animal taxa and for molecular phylogenetic evolution analysis. With the development of sequencing technology, more and more mitochondrial sequences have been made available in public databases, including whole mitochondrial DNA sequences. These data have been used for phylogenetic analysis of animal species, and for studies of evolutionary processes. We determined the complete mitochondrial genome of a Central European red deer, Cervus elaphus hippelaphus, from Hungary by a next generation sequencing technology. The mitochondrial genome is 16 354 bp in length and contains 13 protein-coding genes, two rRNA genes, 22 tRNA genes and a control region, all of which are arranged similar as in other vertebrates. We made phylogenetic analyses with the new sequence and 76 available mitochondrial sequences of Cervidae, using Bos taurus mitochondrial sequence as outgroup. We used 'neighbor joining' and 'maximum likelihood' methods on whole mitochondrial genome sequences; the consensus phylogenetic trees supported monophyly of the family Cervidae; it was divided into two subfamilies, Cervinae and Capreolinae, and five tribes, Cervini, Muntiacini, Alceini, Odocoileini, and Capreolini. The evolutionary structure of the family Cervidae can be reconstructed by phylogenetic analysis based on whole mitochondrial genomes; which method could be used broadly in phylogenetic evolutionary analysis of animal taxa.
authors.affiliation: Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University , Guba Sándor u. 40, H-7400 Kaposvár , Hungary.|Agricultural Biotechnology Institute - National Agricultural Research and Innovation Center , Szent-Györgyi Albert u. 4, H-2100 Gödöllő , Hungary.
authors.forename: Krisztián
authors.initials: K
authors.lastname: Frank
authors.affiliation: Agricultural Biotechnology Institute - National Agricultural Research and Innovation Center , Szent-Györgyi Albert u. 4, H-2100 Gödöllő , Hungary.
authors.forename: Endre
authors.initials: E
authors.lastname: Barta
authors.affiliation: Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University , Guba Sándor u. 40, H-7400 Kaposvár , Hungary.
authors.forename: Nóra Á
authors.initials: NÁ
authors.lastname: Bana
authors.affiliation: Game Management Landscape Center of Kaposvár University , Malom u. 3, H-7475 Bőszénfa , Hungary.
authors.forename: János
authors.initials: J
authors.lastname: Nagy
authors.affiliation: Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University , Guba Sándor u. 40, H-7400 Kaposvár , Hungary.
authors.forename: Péter
authors.initials: P
authors.lastname: Horn
authors.affiliation: Agricultural Biotechnology Institute - National Agricultural Research and Innovation Center , Szent-Györgyi Albert u. 4, H-2100 Gödöllő , Hungary.|Department of Genetics, Faculty of Sciences, Eötvös Loránd University , Pázmány Péter s. 1/c, H-1117 Budapest , Hungary.
authors.forename: László
authors.initials: L
authors.lastname: Orosz
authors.affiliation: Agricultural Biotechnology Institute - National Agricultural Research and Innovation Center , Szent-Györgyi Albert u. 4, H-2100 Gödöllő , Hungary.
authors.forename: Viktor
authors.initials: V
authors.lastname: Stéger
mesh_terms: D000818:Animals; D003670:Deer / Q000235:genetics*; D054629:Genome, Mitochondrial; D059014:High-Throughput Nucleotide Sequencing; D010802:Phylogeny
keywords: Cervidae; Cervus elaphus hippelaphus; NGS; mitochondrial DNA; phylogenetics