title: The American cranberry mitochondrial genome reveals the presence of selenocysteine (tRNA-Sec and SECIS) insertion machinery in land plants.
abstract: This is the first de novo assembly and annotation of a complete mitochondrial genome in the Ericales order from the American cranberry (Vaccinium macrocarpon Ait.). Moreover, only four complete Asterid mitochondrial genomes have been made publicly available. The cranberry mitochondrial genome was assembled and reconstructed from whole genome 454 Roche GS-FLX and Illumina shotgun sequences. Compared with other Asterids, the reconstruction of the genome revealed an average size mitochondrion (459,678 nt) with relatively little repetitive sequences and DNA of plastid origin. The complete mitochondrial genome of cranberry was annotated obtaining a total of 34 genes classified based on their putative function, plus three ribosomal RNAs, and 17 transfer RNAs. Maternal organellar cranberry inheritance was inferred by analyzing gene variation in the cranberry mitochondria and plastid genomes. The annotation of cranberry mitochondrial genome revealed the presence of two copies of tRNA-Sec and a selenocysteine insertion sequence (SECIS) element which were lost in plants during evolution. This is the first report of a land plant possessing selenocysteine insertion machinery at the sequence level.
authors.affiliation: Department of Horticulture, University of Wisconsin, 1575 Linden Drive, Madison, WI 53706, USA.
authors.forename: Diego
authors.initials: D
authors.lastname: Fajardo
authors.affiliation: Department of Horticulture, University of Wisconsin, 1575 Linden Drive, Madison, WI 53706, USA.
authors.forename: Brandon
authors.initials: B
authors.lastname: Schlautman
authors.affiliation: USDA, Agricultural Research Service, Vegetable Crops Research Unit, 1575 Linden Drive, Madison, WI 53706, USA.
authors.forename: Shawn
authors.initials: S
authors.lastname: Steffan
authors.affiliation: USDA-ARS, Genetic Improvement of Fruits and Vegetables Laboratory, Chatsworth, NJ, USA.
authors.forename: James
authors.initials: J
authors.lastname: Polashock
authors.affiliation: Blueberry and Cranberry Research and Extension Center, Rutgers University, Chatsworth, NJ, USA.
authors.forename: Nicholi
authors.initials: N
authors.lastname: Vorsa
authors.affiliation: USDA, Agricultural Research Service, Vegetable Crops Research Unit, 1575 Linden Drive, Madison, WI 53706, USA. Electronic address: jezalapa@wisc.edu.
authors.forename: Juan
authors.initials: J
authors.lastname: Zalapa
mesh_terms: D004251:DNA Transposable Elements / Q000235:genetics*; D004272:DNA, Mitochondrial / Q000235:genetics; D019669:Embryophyta / Q000235:genetics*; D054629:Genome, Mitochondrial / Q000235:genetics*; D018745:Genome, Plant / Q000235:genetics*; D010802:Phylogeny; D012335:RNA, Ribosomal / Q000235:genetics; D012343:RNA, Transfer / Q000235:genetics*; D017279:Selenocysteine / Q000235:genetics*; D029799:Vaccinium macrocarpon / Q000235:genetics*
chemical_list: D004251:DNA Transposable Elements; D004272:DNA, Mitochondrial; D012335:RNA, Ribosomal; D017279:Selenocysteine; D012343:RNA, Transfer
keywords: Cranberry; Ericaceae; Ericales; Mb; Mitochondrial genome; NCBI; National Center for Biotechnology; PCR; Sec; Selenocysteine; Vaccinium; base pairs; bp; cultivar; cv; kb; kilobases; million bases; mitochondria; mt; nt; nucleotides; polymerase chain reaction; tRNA-Sec